--- _id: '12817' abstract: - lang: eng text: 3D-reconstruction of living brain tissue down to individual synapse level would create opportunities for decoding the dynamics and structure-function relationships of the brain’s complex and dense information processing network. However, it has been hindered by insufficient 3D-resolution, inadequate signal-to-noise-ratio, and prohibitive light burden in optical imaging, whereas electron microscopy is inherently static. Here we solved these challenges by developing an integrated optical/machine learning technology, LIONESS (Live Information-Optimized Nanoscopy Enabling Saturated Segmentation). It leverages optical modifications to stimulated emission depletion (STED) microscopy in comprehensively, extracellularly labelled tissue and prior information on sample structure via machine learning to simultaneously achieve isotropic super-resolution, high signal-to-noise-ratio, and compatibility with living tissue. This allows dense deep-learning-based instance segmentation and 3D-reconstruction at synapse level incorporating molecular, activity, and morphodynamic information. LIONESS opens up avenues for studying the dynamic functional (nano-)architecture of living brain tissue. acknowledged_ssus: - _id: ScienComp - _id: Bio - _id: PreCl - _id: LifeSc - _id: M-Shop - _id: E-Lib acknowledgement: 'We thank J. Vorlaufer, N. Agudelo, A. Wartak for microscope maintenance and troubleshooting, C. Kreuzinger and A. Freeman for technical assistance, and M. Šuplata for hardware control support, and Márcia Cunha dos Santos for initial exploration of software. We thank Paul Henderson for advice on deep-learning training and Michael Sixt, Scott Boyd, and Tamara Weiss for discussions and critical reading of the manuscript. Luke Lavis (Janelia Research Campus) generously provided JF585-HaloTag ligand. ' article_processing_charge: No author: - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 citation: ama: Danzl JG. Research data for the publication “Dense 4D nanoscale reconstruction of living brain tissue.” 2023. doi:10.15479/AT:ISTA:12817 apa: Danzl, J. G. (2023). Research data for the publication “Dense 4D nanoscale reconstruction of living brain tissue.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:12817 chicago: Danzl, Johann G. “Research Data for the Publication ‘Dense 4D Nanoscale Reconstruction of Living Brain Tissue.’” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:12817. ieee: J. G. Danzl, “Research data for the publication ‘Dense 4D nanoscale reconstruction of living brain tissue.’” Institute of Science and Technology Austria, 2023. ista: Danzl JG. 2023. Research data for the publication ‘Dense 4D nanoscale reconstruction of living brain tissue’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:12817. mla: Danzl, Johann G. Research Data for the Publication “Dense 4D Nanoscale Reconstruction of Living Brain Tissue.” Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:12817. short: J.G. Danzl, (2023). contributor: - first_name: Philipp id: 39BDC62C-F248-11E8-B48F-1D18A9856A87 last_name: Velicky orcid: 0000-0002-2340-7431 - first_name: Eder id: 3FB91342-F248-11E8-B48F-1D18A9856A87 last_name: Miguel Villalba - first_name: Julia M id: 443DB6DE-F248-11E8-B48F-1D18A9856A87 last_name: Michalska - first_name: Julia id: 46E28B80-F248-11E8-B48F-1D18A9856A87 last_name: Lyudchik - first_name: Donglai last_name: Wei - first_name: Zudi last_name: Lin - first_name: Jake id: 63836096-4690-11EA-BD4E-32803DDC885E last_name: Watson orcid: 0000-0002-8698-3823 - first_name: Jakob last_name: Troidl - first_name: Johanna last_name: Beyer - first_name: Yoav id: 43DF3136-F248-11E8-B48F-1D18A9856A87 last_name: Ben Simon - first_name: Christoph M id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87 last_name: Sommer orcid: 0000-0003-1216-9105 - first_name: Wiebke id: 425C1CE8-F248-11E8-B48F-1D18A9856A87 last_name: Jahr - first_name: Alban id: 9ac8f577-2357-11eb-997a-e566c5550886 last_name: Cenameri - first_name: Johannes last_name: Broichhagen - first_name: 'Seth G. N. ' last_name: Grant - first_name: Peter M id: 353C1B58-F248-11E8-B48F-1D18A9856A87 last_name: Jonas orcid: 0000-0001-5001-4804 - first_name: Gaia id: 3E57A680-F248-11E8-B48F-1D18A9856A87 last_name: Novarino orcid: 0000-0002-7673-7178 - first_name: Hanspeter last_name: Pfister - first_name: Bernd id: 49876194-F248-11E8-B48F-1D18A9856A87 last_name: Bickel orcid: 0000-0001-6511-9385 date_created: 2023-04-07T11:37:40Z date_published: 2023-05-19T00:00:00Z date_updated: 2024-01-10T08:37:48Z day: '19' ddc: - '570' department: - _id: JoDa doi: 10.15479/AT:ISTA:12817 file: - access_level: open_access checksum: c1819889e72ec86ee1bba809e19739e0 content_type: text/plain creator: jdanzl date_created: 2023-05-18T17:06:12Z date_updated: 2023-05-18T17:06:12Z file_id: '13030' file_name: Readme.txt file_size: 651 relation: main_file success: 1 - access_level: open_access checksum: 8f6259fc5128ffcc0cd89d25d51995c1 content_type: image/tiff creator: jdanzl date_created: 2023-05-18T19:51:52Z date_updated: 2023-05-18T19:51:52Z file_id: '13031' file_name: Fig1a_LIONESS.tif file_size: 347448884 relation: main_file success: 1 - 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access_level: open_access checksum: 47db2185ff2c6ba9b059c9b1a8882832 content_type: application/zip creator: jdanzl date_created: 2023-05-18T15:03:10Z date_updated: 2023-05-18T15:03:10Z file_id: '13000' file_name: Segmentation model.zip file_size: 19052980 relation: main_file success: 1 file_date_updated: 2023-05-18T19:51:52Z has_accepted_license: '1' license: https://creativecommons.org/licenses/by-sa/4.0/ month: '05' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '13267' relation: used_in_publication status: public status: public title: Research data for the publication "Dense 4D nanoscale reconstruction of living brain tissue" tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '12497' abstract: - lang: eng text: Aromatic side chains are important reporters of the plasticity of proteins, and often form important contacts in protein–protein interactions. We studied aromatic residues in the two structurally homologous cross-β amyloid fibrils HET-s, and HELLF by employing a specific isotope-labeling approach and magic-angle-spinning NMR. The dynamic behavior of the aromatic residues Phe and Tyr indicates that the hydrophobic amyloid core is rigid, without any sign of "breathing motions" over hundreds of milliseconds at least. Aromatic residues exposed at the fibril surface have a rigid ring axis but undergo ring flips on a variety of time scales from nanoseconds to microseconds. Our approach provides direct insight into hydrophobic-core motions, enabling a better evaluation of the conformational heterogeneity generated from an NMR structural ensemble of such amyloid cross-β architecture. article_processing_charge: No author: - first_name: Lea Marie full_name: Becker, Lea Marie id: 36336939-eb97-11eb-a6c2-c83f1214ca79 last_name: Becker orcid: 0000-0002-6401-5151 - first_name: Paul full_name: Schanda, Paul id: 7B541462-FAF6-11E9-A490-E8DFE5697425 last_name: Schanda orcid: 0000-0002-9350-7606 citation: ama: 'Becker LM, Schanda P. Research data to: The rigid core and flexible surface of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy of aromatic residues. 2023. doi:10.15479/AT:ISTA:12497' apa: 'Becker, L. M., & Schanda, P. (2023). Research data to: The rigid core and flexible surface of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy of aromatic residues. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:12497' chicago: 'Becker, Lea Marie, and Paul Schanda. “Research Data to: The Rigid Core and Flexible Surface of Amyloid Fibrils Probed by Magic-Angle-Spinning NMR Spectroscopy of Aromatic Residues.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:12497.' ieee: 'L. M. Becker and P. Schanda, “Research data to: The rigid core and flexible surface of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy of aromatic residues.” Institute of Science and Technology Austria, 2023.' ista: 'Becker LM, Schanda P. 2023. Research data to: The rigid core and flexible surface of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy of aromatic residues, Institute of Science and Technology Austria, 10.15479/AT:ISTA:12497.' mla: 'Becker, Lea Marie, and Paul Schanda. Research Data to: The Rigid Core and Flexible Surface of Amyloid Fibrils Probed by Magic-Angle-Spinning NMR Spectroscopy of Aromatic Residues. Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:12497.' short: L.M. Becker, P. Schanda, (2023). contributor: - contributor_type: researcher first_name: Mélanie last_name: Berbon - contributor_type: researcher first_name: Alicia last_name: Vallet - contributor_type: researcher first_name: Axelle last_name: Grelard - contributor_type: researcher first_name: Estelle last_name: Morvan - contributor_type: researcher first_name: Benjamin last_name: Bardiaux - contributor_type: researcher first_name: Roman last_name: Lichtenecker - contributor_type: researcher first_name: Matthias last_name: Ernst - contributor_type: researcher first_name: Antoine last_name: Loquet - contributor_type: contact_person first_name: Paul id: 7B541462-FAF6-11E9-A490-E8DFE5697425 last_name: Schanda orcid: 0000-0002-9350-7606 - contributor_type: researcher first_name: Lea Marie id: 36336939-eb97-11eb-a6c2-c83f1214ca79 last_name: Becker orcid: 0000-0002-6401-5151 date_created: 2023-02-03T08:08:02Z date_published: 2023-03-23T00:00:00Z date_updated: 2024-02-21T12:14:06Z day: '23' ddc: - '572' department: - _id: GradSch - _id: PaSc doi: 10.15479/AT:ISTA:12497 file: - access_level: open_access checksum: fd9a28620a81a82991fb70f4fd6591d9 content_type: application/zip creator: lbecker date_created: 2023-03-23T10:03:16Z date_updated: 2023-03-24T09:34:20Z file_id: '12743' file_name: Research_Data.zip file_size: 87018103 relation: main_file - access_level: open_access checksum: 30ebdfb600af118fcf8518b6efe0b7e9 content_type: text/plain creator: dernst date_created: 2023-03-24T07:13:55Z date_updated: 2023-03-24T09:42:03Z file_id: '12755' file_name: README.txt file_size: 747 relation: main_file file_date_updated: 2023-03-24T09:42:03Z has_accepted_license: '1' keyword: - aromatic side chains - isotopic labeling - protein dynamics - ring flips - spin relaxation month: '03' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '12675' relation: used_in_publication status: public status: public title: 'Research data to: The rigid core and flexible surface of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy of aromatic residues' tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '13126' abstract: - lang: eng text: Mapping the complex and dense arrangement of cells and their connectivity in brain tissue demands nanoscale spatial resolution imaging. Super-resolution optical microscopy excels at visualizing specific molecules and individual cells but fails to provide tissue context. Here, we developed Comprehensive Analysis of Tissues across Scales (CATS), a technology to densely map brain tissue architecture from millimeter regional to nanometer synaptic scales in diverse chemically fixed brain preparations, including rodent and human. CATS uses fixation-compatible extracellular labeling and optical imaging, including stimulated emission depletion or expansion microscopy, to comprehensively delineate cellular structures. It enables three-dimensional reconstruction of single synapses and mapping of synaptic connectivity by identification and analysis of putative synaptic cleft regions. Applying CATS to the mouse hippocampal mossy fiber circuitry, we reconstructed and quantified the synaptic input and output structure of identified neurons. We furthermore demonstrate applicability to clinically derived human tissue samples, including formalin-fixed paraffin-embedded routine diagnostic specimens, for visualizing the cellular architecture of brain tissue in health and disease. acknowledged_ssus: - _id: ScienComp - _id: Bio - _id: PreCl - _id: LifeSc - _id: M-Shop - _id: E-Lib acknowledgement: "We thank Jakob Vorlaufer, Nathalie Agudelo-Dueñas, Wiebke Jahr, Andreas Wartak for microscope maintenance and troubleshooting, Caroline Kreuzinger, Anna Freeman, and Irene Erber for technical assistance and Matthias Tomschik for support with obtaining human samples. We gratefully acknowledge Eder Miguel for setting up webKnossos and Marek Šuplata for computational support and hardware control. We are grateful to Ryuichi Shigemoto and Bernd Bickel for generous support, and Michael Sixt and Scott Boyd (Stanford University) for discussions and critical reading of the manuscript. PSD95-HaloTag mice were kindly provided by Seth Grant (University of Edinburgh). We acknowledge expert support by IST Austria’s scientific computing, imaging and optics, preclinical, and lab support facilities, and by the Library and Miba machine shop.\r\nWe gratefully acknowledge funding by the following sources: \r\nAustrian Science Fund (FWF) grant I3600-B27 (JGD)\r\nAustrian Science Fund (FWF) grant DK W1232 (JGD, JMM)\r\nAustrian Science Fund (FWF) grant Z 312-B27, Wittgenstein award (PJ)\r\nAustrian Science Funds (FWF) projects I4685-B, I6565-B (SYNABS) and DOC 33-B27 (RH)\r\nGesellschaft für Forschungsförderung NÖ (NFB) grant LSC18-022 (JGD)\r\nEuropean Union’s Horizon 2020 research and innovation programme, European Research Council (ERC) grant 715508 – REVERSEAUTISM (GN)\r\nEuropean Union’s Horizon 2020 research and innovation programme, European Research Council (ERC) grant 692692 – GIANTSYN (PJ)\r\nMarie Skłodowska-Curie Actions Fellowship GA no. 665385 under the EU Horizon 2020 program (JMM, JL)\r\nMarie Skłodowska-Curie Actions Individual Fellowship 101026635 under the EU Horizon 2020 program (JFW)" article_processing_charge: No author: - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 citation: ama: Danzl JG. Research data for the publication “Imaging brain tissue architecture across millimeter to nanometer scales.” 2023. doi:10.15479/AT:ISTA:13126 apa: Danzl, J. G. (2023). Research data for the publication “Imaging brain tissue architecture across millimeter to nanometer scales.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:13126 chicago: Danzl, Johann G. “Research Data for the Publication ‘Imaging Brain Tissue Architecture across Millimeter to Nanometer Scales.’” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:13126. ieee: J. G. Danzl, “Research data for the publication ‘Imaging brain tissue architecture across millimeter to nanometer scales.’” Institute of Science and Technology Austria, 2023. ista: Danzl JG. 2023. Research data for the publication ‘Imaging brain tissue architecture across millimeter to nanometer scales’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:13126. mla: Danzl, Johann G. Research Data for the Publication “Imaging Brain Tissue Architecture across Millimeter to Nanometer Scales.” Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:13126. short: J.G. Danzl, (2023). contributor: - first_name: Julia M id: 443DB6DE-F248-11E8-B48F-1D18A9856A87 last_name: Michalska - first_name: Julia id: 46E28B80-F248-11E8-B48F-1D18A9856A87 last_name: Lyudchik - first_name: Philipp id: 39BDC62C-F248-11E8-B48F-1D18A9856A87 last_name: Velicky orcid: 0000-0002-2340-7431 - first_name: Hana id: ee3cb6ca-ec98-11ea-ae11-ff703e2254ed last_name: Stefanickova - first_name: Jake id: 63836096-4690-11EA-BD4E-32803DDC885E last_name: Watson orcid: 0000-0002-8698-3823 - first_name: Alban id: 9ac8f577-2357-11eb-997a-e566c5550886 last_name: Cenameri - first_name: Christoph M id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87 last_name: Sommer orcid: 0000-0003-1216-9105 - first_name: Nicole id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87 last_name: Amberg orcid: 0000-0002-3183-8207 - first_name: Alessandro id: 41CB84B2-F248-11E8-B48F-1D18A9856A87 last_name: Venturino orcid: 0000-0003-2356-9403 - first_name: Karl last_name: Roessler - first_name: Thomas last_name: Czech - first_name: Romana last_name: Höftberger - first_name: Sandra id: 36ACD32E-F248-11E8-B48F-1D18A9856A87 last_name: Siegert orcid: 0000-0001-8635-0877 - first_name: Gaia id: 3E57A680-F248-11E8-B48F-1D18A9856A87 last_name: Novarino orcid: 0000-0002-7673-7178 - first_name: Peter M id: 353C1B58-F248-11E8-B48F-1D18A9856A87 last_name: Jonas orcid: 0000-0001-5001-4804 date_created: 2023-06-07T07:15:12Z date_published: 2023-08-04T00:00:00Z date_updated: 2024-02-21T12:18:19Z day: '04' ddc: - '610' department: - _id: JoDa - _id: SaSi - _id: GaNo - _id: PeJo - _id: Bio - _id: RySh doi: 10.15479/AT:ISTA:13126 ec_funded: 1 file: - access_level: open_access checksum: 6f18ce9b89b47ce5abeb379869ff5c49 content_type: text/plain creator: jdanzl date_created: 2023-08-04T13:19:47Z date_updated: 2023-08-04T13:19:47Z file_id: '13961' file_name: Readme_Michalska_2023.txt file_size: 541 relation: main_file success: 1 - access_level: open_access checksum: 2098e8c5285c5e86cb69075e1b5dcf39 content_type: image/tiff creator: jdanzl date_created: 2023-08-03T11:29:29Z date_updated: 2023-08-03T11:29:29Z file_id: '13482' file_name: Fig1_b_top-left.tif file_size: 64582744 relation: main_file success: 1 - 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access_level: open_access checksum: 46de66d457b0def90f753c11927536b7 content_type: image/tiff creator: jdanzl date_created: 2023-08-03T14:56:47Z date_updated: 2023-08-03T14:56:47Z file_id: '13943' file_name: Supplfig27_g_1.tif file_size: 499618 relation: main_file success: 1 - access_level: open_access checksum: 9ef5fba064a73a79dbc74b5e166d08ec content_type: image/tiff creator: jdanzl date_created: 2023-08-03T14:56:50Z date_updated: 2023-08-03T14:56:50Z file_id: '13944' file_name: Supplfig27_g_2.tif file_size: 202079026 relation: main_file success: 1 - access_level: open_access checksum: bf956c2b58d3da2baa869db5206d8d49 content_type: image/tiff creator: jdanzl date_created: 2023-08-03T14:56:48Z date_updated: 2023-08-03T14:56:48Z file_id: '13945' file_name: Supplfig27_g_3.tif file_size: 14639269 relation: main_file success: 1 - access_level: open_access checksum: 327dca11f42d5375d7f47f4cbd5b36c0 content_type: application/octet-stream creator: jdanzl date_created: 2023-08-03T15:21:01Z date_updated: 2023-08-03T15:21:01Z file_id: '13946' file_name: model.p file_size: 279467712 relation: main_file success: 1 file_date_updated: 2023-08-04T13:19:47Z has_accepted_license: '1' license: https://creativecommons.org/licenses/by-nc-sa/4.0/ month: '08' oa: 1 oa_version: Published Version project: - _id: 265CB4D0-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: I03600 name: Optical control of synaptic function via adhesion molecules - _id: 26AA4EF2-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: W1232-B24 name: Molecular Drug Targets - _id: 25C5A090-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: Z00312 name: The Wittgenstein Prize - _id: 23889792-32DE-11EA-91FC-C7463DDC885E name: High content imaging to decode human immune cell interactions in health and allergic disease - _id: 25444568-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '715508' name: Probing the Reversibility of Autism Spectrum Disorders by Employing in vivo and in vitro Models - _id: 25B7EB9E-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '692692' name: Biophysics and circuit function of a giant cortical glumatergic synapse - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: fc2be41b-9c52-11eb-aca3-faa90aa144e9 call_identifier: H2020 grant_number: '101026635' name: Synaptic computations of the hippocampal CA3 circuitry publisher: Institute of Science and Technology Austria related_material: link: - description: 'Original data for Fig. 5d, Fig. 5d (N2V) and Fig. 5f-i, provided via an external link due to the large size (>10GB) of the datasets. ' relation: research_data url: https://pub.ista.ac.at/group_danzl/data/CATS/ record: - id: '14257' relation: used_in_publication status: public status: public title: Research data for the publication "Imaging brain tissue architecture across millimeter to nanometer scales" tmp: image: /images/cc_by_nc_sa.png legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) short: CC BY-NC-SA (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '13116' abstract: - lang: eng text: 'The emergence of large-scale order in self-organized systems relies on local interactions between individual components. During bacterial cell division, FtsZ -- a prokaryotic homologue of the eukaryotic protein tubulin -- polymerizes into treadmilling filaments that further organize into a cytoskeletal ring. In vitro, FtsZ filaments can form dynamic chiral assemblies. However, how the active and passive properties of individual filaments relate to these large-scale self-organized structures remains poorly understood. Here, we connect single filament properties with the mesoscopic scale by combining minimal active matter simulations and biochemical reconstitution experiments. We show that density and flexibility of active chiral filaments define their global order. At intermediate densities, curved, flexible filaments organize into chiral rings and polar bands. An effectively nematic organization dominates for high densities and for straight, mutant filaments with increased rigidity. Our predicted phase diagram captures these features quantitatively, demonstrating how the flexibility, density and chirality of active filaments affect their collective behaviour. Our findings shed light on the fundamental properties of active chiral matter and explain how treadmilling FtsZ filaments organize during bacterial cell division. ' acknowledged_ssus: - _id: Bio - _id: LifeSc acknowledgement: 'This work was supported by the European Research Council through grant ERC 2015-StG-679239 and by the Austrian Science Fund (FWF) StandAlone P34607 to M.L., B. P.M. was also supported by the Kanazawa University WPI- NanoLSI Bio-SPM collaborative research program. Z.D. has received funding from Doctoral Programme of the Austrian Academy of Sciences (OeAW): Grant agreement 26360. We thank Jan Brugues (MPI CBG, Dresden, Germany), Andela Saric (ISTA, Klosterneuburg, Austria), Daniel Pearce (Uni Geneva, Switzerland) for valuable scientific input and comments on the manuscript. We are also thankful for the support by the Scientific Service Units (SSU) of IST Austria through resources provided by the Imaging and Optics Facility (IOF) and the Lab Support Facility (LSF). ' article_processing_charge: No author: - first_name: Zuzana full_name: Dunajova, Zuzana id: 4B39F286-F248-11E8-B48F-1D18A9856A87 last_name: Dunajova - first_name: Batirtze full_name: Prats Mateu, Batirtze id: 299FE892-F248-11E8-B48F-1D18A9856A87 last_name: Prats Mateu - first_name: Philipp full_name: Radler, Philipp id: 40136C2A-F248-11E8-B48F-1D18A9856A87 last_name: Radler orcid: '0000-0001-9198-2182 ' - first_name: Keesiang full_name: Lim, Keesiang last_name: Lim - first_name: Dörte full_name: Brandis, Dörte last_name: Brandis - first_name: Philipp full_name: Velicky, Philipp id: 39BDC62C-F248-11E8-B48F-1D18A9856A87 last_name: Velicky orcid: 0000-0002-2340-7431 - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 - first_name: Richard W. full_name: Wong, Richard W. last_name: Wong - first_name: Jens full_name: Elgeti, Jens last_name: Elgeti - first_name: Edouard B full_name: Hannezo, Edouard B id: 3A9DB764-F248-11E8-B48F-1D18A9856A87 last_name: Hannezo orcid: 0000-0001-6005-1561 - first_name: Martin full_name: Loose, Martin id: 462D4284-F248-11E8-B48F-1D18A9856A87 last_name: Loose orcid: 0000-0001-7309-9724 citation: ama: Dunajova Z, Prats Mateu B, Radler P, et al. Chiral and nematic phases of flexible active filaments. 2023. doi:10.15479/AT:ISTA:13116 apa: Dunajova, Z., Prats Mateu, B., Radler, P., Lim, K., Brandis, D., Velicky, P., … Loose, M. (2023). Chiral and nematic phases of flexible active filaments. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:13116 chicago: Dunajova, Zuzana, Batirtze Prats Mateu, Philipp Radler, Keesiang Lim, Dörte Brandis, Philipp Velicky, Johann G Danzl, et al. “Chiral and Nematic Phases of Flexible Active Filaments.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:13116. ieee: Z. Dunajova et al., “Chiral and nematic phases of flexible active filaments.” Institute of Science and Technology Austria, 2023. ista: Dunajova Z, Prats Mateu B, Radler P, Lim K, Brandis D, Velicky P, Danzl JG, Wong RW, Elgeti J, Hannezo EB, Loose M. 2023. Chiral and nematic phases of flexible active filaments, Institute of Science and Technology Austria, 10.15479/AT:ISTA:13116. mla: Dunajova, Zuzana, et al. Chiral and Nematic Phases of Flexible Active Filaments. Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:13116. short: Z. Dunajova, B. Prats Mateu, P. Radler, K. Lim, D. Brandis, P. Velicky, J.G. Danzl, R.W. Wong, J. Elgeti, E.B. Hannezo, M. 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lang: eng text: 'Many insects carry an ancient X chromosome—the Drosophila Muller element F—that likely predates their origin. Interestingly, the X has undergone turnover in multiple fly species (Diptera) after being conserved for more than 450 My. The long evolutionary distance between Diptera and other sequenced insect clades makes it difficult to infer what could have contributed to this sudden increase in rate of turnover. Here, we produce the first genome and transcriptome of scorpionflies (genus Panorpa), an insect belonging to a long overlooked sister-order to Diptera: Mecoptera. Combining our genome assembly with genomic short-read data, we obtain genome coverage and identify X-linked super-scaffolds. We further perform a gene homology analysis between the Panorpa X and a closely related Diptera species, and we assess the conservation of the Panorpa X-linked gene content with that of more distantly related insect species. We explored the structure of the Panorpa X by determining its repeat content, GC content, and nucleotide diversity. Finally, we used RNAseq data to detect the presence of dosage compensation in somatic tissues, as well as to explore gene expression tissue-specificity, and sex-bias in gene expression. We find high conservation of gene content between the mecopteran X and the dipteran Muller F element, as well as several shared biological features, such as the presence of dosage compensation and a low amount of genetic diversity, consistent with a low recombination rate. However, the 2 homologous X chromosomes differ strikingly in their size and number of genes they carry. Our results therefore support a common ancestry of the mecopteran and ancestral dipteran X chromosomes, and suggest that Muller element F shrank in size and gene content after the split of Diptera and Mecoptera, which may have contributed to its turnover in dipteran insects.' article_processing_charge: No author: - first_name: Clementine full_name: Lasne, Clementine id: 02225f57-50d2-11eb-9ed8-8c92b9a34237 last_name: Lasne orcid: 0000-0002-1197-8616 - first_name: Marwan N full_name: Elkrewi, Marwan N id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425 last_name: Elkrewi orcid: 0000-0002-5328-7231 citation: ama: Lasne C, Elkrewi MN. The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. 2023. doi:10.15479/AT:ISTA:14614 apa: Lasne, C., & Elkrewi, M. N. (2023). The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:14614 chicago: Lasne, Clementine, and Marwan N Elkrewi. “The Scorpionfly (Panorpa Cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:14614. ieee: C. Lasne and M. N. Elkrewi, “The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome.” Institute of Science and Technology Austria, 2023. ista: Lasne C, Elkrewi MN. 2023. The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome, Institute of Science and Technology Austria, 10.15479/AT:ISTA:14614. mla: Lasne, Clementine, and Marwan N. Elkrewi. The Scorpionfly (Panorpa Cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome. Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:14614. short: C. Lasne, M.N. Elkrewi, (2023). contributor: - contributor_type: researcher first_name: Marwan N id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425 last_name: Elkrewi orcid: 0000-0002-5328-7231 date_created: 2023-11-27T16:39:19Z date_published: 2023-12-01T00:00:00Z date_updated: 2024-02-21T12:18:35Z day: '01' ddc: - '576' department: - _id: BeVi doi: 10.15479/AT:ISTA:14614 file: - access_level: open_access checksum: cd0f13322b5156819ecaebd2bc8e7d12 content_type: application/zip creator: clasne date_created: 2023-11-28T13:15:26Z date_updated: 2023-11-28T13:15:26Z file_id: '14625' file_name: panorpaX.zip file_size: 404968272 relation: main_file success: 1 - access_level: open_access checksum: 9ff600416577687a737cb3c96dfcb26c content_type: text/plain creator: clasne date_created: 2023-11-30T14:16:59Z date_updated: 2023-11-30T14:16:59Z file_id: '14634' file_name: panorpa_readme.txt file_size: 2625 relation: main_file success: 1 file_date_updated: 2023-11-30T14:16:59Z has_accepted_license: '1' keyword: - Panorpa - scorpionfly - genome - transcriptome month: '12' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '14613' relation: used_in_publication status: public status: public title: The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '13173' abstract: - lang: eng text: GABAB receptor (GBR) activation inhibits neurotransmitter release in axon terminals in the brain, except in medial habenula (MHb) terminals, which show robust potentiation. However, mechanisms underlying this enigmatic potentiation remain elusive. Here, we report that GBR activation on MHb terminals induces an activity-dependent transition from a facilitating, tonic to a depressing, phasic neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked synaptic vesicles at the presynaptic active zone (AZ). Strikingly, tonic and phasic release exhibit distinct coupling distances and are selectively affected by deletion of synaptoporin (SPO) and Ca2+-dependent activator protein for secretion 2 (CAPS2), respectively. SPO modulates augmentation, the short-term plasticity associated with tonic release, and CAPS2 retains the increased RRP for initial responses in phasic response trains. Double pre-embedding immunolabeling confirmed the co-localization of CAPS2 and SPO inside the same terminal. The cytosolic protein CAPS2 showed a synaptic vesicle (SV)-associated distribution similar to the vesicular transmembrane protein SPO. A newly developed “Flash and Freeze-fracture” method revealed the release of SPO-associated vesicles in both tonic and phasic modes and activity-dependent recruitment of CAPS2 to the AZ during phasic release, which lasted several minutes. Overall, these results indicate that GBR activation translocates CAPS2 to the AZ along with the fusion of CAPS2-associated SVs, contributing to a persistent RRP increase. Thus, we discovered structural and molecular mechanisms underlying tonic and phasic neurotransmitter release and their transition by GBR activation in MHb terminals. article_processing_charge: No author: - first_name: Ryuichi full_name: Shigemoto, Ryuichi id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 citation: ama: Shigemoto R. Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals. 2023. doi:10.15479/AT:ISTA:13173 apa: Shigemoto, R. (2023). Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:13173 chicago: Shigemoto, Ryuichi. “Transition from Tonic to Phasic Neurotransmitter Release by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:13173. ieee: R. Shigemoto, “Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals.” Institute of Science and Technology Austria, 2023. ista: Shigemoto R. 2023. Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals, Institute of Science and Technology Austria, 10.15479/AT:ISTA:13173. mla: Shigemoto, Ryuichi. Transition from Tonic to Phasic Neurotransmitter Release by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals. Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:13173. short: R. Shigemoto, (2023). date_created: 2023-06-29T13:16:42Z date_published: 2023-07-29T00:00:00Z date_updated: 2024-03-12T13:44:18Z day: '29' ddc: - '571' department: - _id: RySh doi: 10.15479/AT:ISTA:13173 file: - access_level: closed checksum: ed59170869ba621f89f7c1894092192f content_type: application/x-zip-compressed creator: shigemot date_created: 2023-06-29T13:11:22Z date_updated: 2023-11-17T14:30:44Z description: After review an updated version of the data is provided file_id: '13174' file_name: Raw data for Koppensteiner et al.zip file_size: 542873672 relation: main_file title: Outdated Version - access_level: open_access checksum: c07860eb82b4d367245f1b589fe5c250 content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet creator: patrickd date_created: 2023-11-17T14:13:02Z date_updated: 2023-11-17T14:13:02Z file_id: '14550' file_name: 11-17-23 Updated Koppensteiner et al. raw data.xlsx file_size: 915079 relation: main_file success: 1 - access_level: open_access checksum: abf84b1699edac4349dc3a92d466fb7b content_type: application/x-zip-compressed creator: dernst date_created: 2024-02-06T07:21:43Z date_updated: 2024-02-06T07:21:43Z file_id: '14942' file_name: EM_Images.zip file_size: 544868924 relation: main_file success: 1 file_date_updated: 2024-02-06T07:21:43Z has_accepted_license: '1' keyword: - medial habenula - GABAB receptor - vesicle release - Flash and Freeze - Flash and Freeze-fracture month: '07' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '15084' relation: used_in_publication status: public status: public title: Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '10934' abstract: - lang: eng text: 'FtsA is crucial for assembly of the E. coli divisome, as it dynamically links cytoplasmic FtsZ filaments with transmembrane cell division proteins. FtsA allegedly initiates cell division by switching from an inactive polymeric to an active monomeric confirmation, which recruits downstream proteins and stabilizes FtsZ filaments. Here, we use biochemical reconstitution experiments combined with quantitative fluorescence microscopy to study divisome activation in vitro. We compare wildtype-FtsA with FtsA-R286W, a constantly active gain-of-function mutant and find that R286W outperforms the wildtype protein in replicating FtsZ treadmilling dynamics, stabilizing FtsZ filaments and recruiting FtsN. We attribute these differences to a faster membrane exchange of FtsA-R286W and its higher packing density below FtsZ filaments. Using FRET microscopy, we find that FtsN binding does not compete with, but promotes FtsA self-interaction. Our findings suggest a model where FtsA always forms dynamic polymers on the membrane, which re-organize during assembly and activation of the divisome. ' acknowledged_ssus: - _id: Bio - _id: LifeSc acknowledgement: We acknowledge members of the Loose laboratory at IST Austria for helpful discussions—in particular L. Lindorfer for his assistance with cloning and purifications. We thank J. Löwe and T. Nierhaus (MRC-LMB Cambridge, UK) for sharing unpublished work and helpful discussions, as well as D. Vavylonis and D. Rutkowski (Lehigh University, Bethlehem, PA, USA) as well as S. Martin (University of Lausanne, Switzerland) for sharing their code for FRAP analysis. We are also thankful for the support by the Scientific Service Units (SSU) of IST Austria through resources provided by the Imaging and Optics Facility (IOF) and the Lab Support Facility (LSF). This work was supported by the European Research Council through grant ERC 2015-StG-679239 and by the Austrian Science Fund (FWF) StandAlone P34607 to M.L. and HFSP LT 000824/2016-L4 to N.B. For the purpose of open access, we have applied a CC BY public copyright licence to any Author Accepted Manuscript version arising from this submission. article_processing_charge: No author: - first_name: Philipp full_name: Radler, Philipp id: 40136C2A-F248-11E8-B48F-1D18A9856A87 last_name: Radler orcid: ' 0000-0001-9198-2182 ' citation: ama: Radler P. In vitro reconstitution of Escherichia coli divisome activation. 2022. doi:10.15479/AT:ISTA:10934 apa: Radler, P. (2022). In vitro reconstitution of Escherichia coli divisome activation. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:10934 chicago: Radler, Philipp. “In Vitro Reconstitution of Escherichia Coli Divisome Activation.” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/AT:ISTA:10934. ieee: P. Radler, “In vitro reconstitution of Escherichia coli divisome activation.” Institute of Science and Technology Austria, 2022. ista: Radler P. 2022. In vitro reconstitution of Escherichia coli divisome activation, Institute of Science and Technology Austria, 10.15479/AT:ISTA:10934. mla: Radler, Philipp. In Vitro Reconstitution of Escherichia Coli Divisome Activation. Institute of Science and Technology Austria, 2022, doi:10.15479/AT:ISTA:10934. short: P. Radler, (2022). contributor: - contributor_type: supervisor first_name: Martin id: 462D4284-F248-11E8-B48F-1D18A9856A87 last_name: Loose orcid: 0000-0001-7309-9724 - contributor_type: researcher first_name: Christoph M id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87 last_name: Sommer - contributor_type: researcher first_name: Paulo last_name: Caldas - contributor_type: researcher first_name: David id: B9577E20-AA38-11E9-AC9A-0930E6697425 last_name: Michalik - contributor_type: researcher first_name: Natalia last_name: Baranova date_created: 2022-03-31T11:32:32Z date_published: 2022-04-05T00:00:00Z date_updated: 2024-02-21T12:35:18Z day: '05' ddc: - '572' department: - _id: GradSch - _id: MaLo doi: 10.15479/AT:ISTA:10934 ec_funded: 1 file: - access_level: open_access checksum: 52d50202e04e9daa618a58e686d8ab58 content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: pradler date_created: 2022-04-22T10:15:19Z date_updated: 2022-04-22T10:15:19Z file_id: '11328' file_name: Inventory for Data repository.docx file_size: 13469 relation: main_file success: 1 - 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Written by Christoph Sommer. relation: software url: https://doi.org/10.5281/zenodo.6400639 record: - id: '11373' relation: used_in_publication status: public - id: '14280' relation: used_in_publication status: public status: public title: In vitro reconstitution of Escherichia coli divisome activation tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2022' ... --- _id: '11542' article_processing_charge: No author: - first_name: Rouven full_name: Schulz, Rouven id: 4C5E7B96-F248-11E8-B48F-1D18A9856A87 last_name: Schulz orcid: 0000-0001-5297-733X citation: ama: Schulz R. Source Data (Chimeric GPCRs mimic distinct signaling pathways and modulate microglia responses). 2022. doi:10.15479/AT:ISTA:11542 apa: Schulz, R. (2022). Source Data (Chimeric GPCRs mimic distinct signaling pathways and modulate microglia responses). Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:11542 chicago: Schulz, Rouven. “Source Data (Chimeric GPCRs Mimic Distinct Signaling Pathways and Modulate Microglia Responses).” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/AT:ISTA:11542. ieee: R. Schulz, “Source Data (Chimeric GPCRs mimic distinct signaling pathways and modulate microglia responses).” Institute of Science and Technology Austria, 2022. ista: Schulz R. 2022. Source Data (Chimeric GPCRs mimic distinct signaling pathways and modulate microglia responses), Institute of Science and Technology Austria, 10.15479/AT:ISTA:11542. mla: Schulz, Rouven. Source Data (Chimeric GPCRs Mimic Distinct Signaling Pathways and Modulate Microglia Responses). Institute of Science and Technology Austria, 2022, doi:10.15479/AT:ISTA:11542. short: R. Schulz, (2022). contributor: - contributor_type: contact_person first_name: Sandra id: 36ACD32E-F248-11E8-B48F-1D18A9856A87 last_name: Siegert orcid: 0000-0001-8635-0877 date_created: 2022-07-08T11:03:02Z date_published: 2022-01-01T00:00:00Z date_updated: 2024-02-21T12:34:51Z department: - _id: GradSch - _id: SaSi doi: 10.15479/AT:ISTA:11542 file: - access_level: open_access checksum: 71e8186583f3adbb6c69a88ac9e6e49b content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet creator: rschulz date_created: 2022-07-08T10:56:52Z date_updated: 2022-07-08T10:56:52Z file_id: '11543' file_name: Source Data.xlsx file_size: 135784571 relation: main_file success: 1 file_date_updated: 2022-07-08T10:56:52Z has_accepted_license: '1' oa: 1 oa_version: None publisher: Institute of Science and Technology Austria related_material: link: - relation: contains url: https://www.biorxiv.org/content/10.1101/2021.06.21.449162v1 record: - id: '11995' relation: used_in_publication status: public status: public title: Source Data (Chimeric GPCRs mimic distinct signaling pathways and modulate microglia responses) tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2022' ... --- _id: '12522' abstract: - lang: eng text: This .zip File contains the transport data, the codes for the data analysis, the microscopy analysis and the codes for the theoretical simulations for "Majorana-like Coulomb spectroscopy in the absence of zero bias peaks" by M. Valentini, et. al. The transport data are saved with hdf5 file format. The files can be open with the log browser of Labber. article_processing_charge: No author: - first_name: Marco full_name: Valentini, Marco id: C0BB2FAC-D767-11E9-B658-BC13E6697425 last_name: Valentini - first_name: Pablo full_name: San-Jose, Pablo last_name: San-Jose - first_name: Jordi full_name: Arbiol, Jordi last_name: Arbiol - first_name: Sara full_name: Marti-Sanchez, Sara last_name: Marti-Sanchez - first_name: Marc full_name: Botifoll, Marc last_name: Botifoll citation: ama: Valentini M, San-Jose P, Arbiol J, Marti-Sanchez S, Botifoll M. Data for “Majorana-like Coulomb spectroscopy in the absence of zero bias peaks.” 2022. doi:10.15479/AT:ISTA:12102 apa: Valentini, M., San-Jose, P., Arbiol, J., Marti-Sanchez, S., & Botifoll, M. (2022). Data for “Majorana-like Coulomb spectroscopy in the absence of zero bias peaks.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:12102 chicago: Valentini, Marco, Pablo San-Jose, Jordi Arbiol, Sara Marti-Sanchez, and Marc Botifoll. “Data for ‘Majorana-like Coulomb Spectroscopy in the Absence of Zero Bias Peaks.’” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/AT:ISTA:12102. ieee: M. Valentini, P. San-Jose, J. Arbiol, S. Marti-Sanchez, and M. Botifoll, “Data for ‘Majorana-like Coulomb spectroscopy in the absence of zero bias peaks.’” Institute of Science and Technology Austria, 2022. ista: Valentini M, San-Jose P, Arbiol J, Marti-Sanchez S, Botifoll M. 2022. Data for ‘Majorana-like Coulomb spectroscopy in the absence of zero bias peaks’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:12102. mla: Valentini, Marco, et al. Data for “Majorana-like Coulomb Spectroscopy in the Absence of Zero Bias Peaks.” Institute of Science and Technology Austria, 2022, doi:10.15479/AT:ISTA:12102. short: M. Valentini, P. San-Jose, J. Arbiol, S. Marti-Sanchez, M. Botifoll, (2022). contributor: - contributor_type: contact_person first_name: Marco id: C0BB2FAC-D767-11E9-B658-BC13E6697425 last_name: Valentini date_created: 2023-02-07T08:13:39Z date_published: 2022-09-25T00:00:00Z date_updated: 2024-02-21T12:35:34Z day: '25' ddc: - '530' department: - _id: GeKa doi: 10.15479/AT:ISTA:12102 file: - access_level: open_access checksum: 0dbd6327bf84c7e81b295c4bc9d12826 content_type: application/x-zip-compressed creator: dernst date_created: 2023-02-07T08:18:24Z date_updated: 2023-02-07T08:18:24Z file_id: '12523' file_name: Majorana_like.zip file_size: 3609122411 relation: main_file success: 1 file_date_updated: 2023-02-07T08:18:24Z has_accepted_license: '1' month: '09' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '12118' relation: used_in_publication status: public - id: '13286' relation: used_in_publication status: public status: public title: Data for "Majorana-like Coulomb spectroscopy in the absence of zero bias peaks" tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2022' ... --- _id: '11321' abstract: - lang: eng text: 'Here are the research data underlying the publication "Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus" Further information are summed up in the README document. ' article_processing_charge: No author: - first_name: Parvathy full_name: Surendranadh, Parvathy id: 455235B8-F248-11E8-B48F-1D18A9856A87 last_name: Surendranadh - first_name: Louise S full_name: Arathoon, Louise S id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87 last_name: Arathoon orcid: 0000-0003-1771-714X - first_name: Carina full_name: Baskett, Carina id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87 last_name: Baskett orcid: 0000-0002-7354-8574 - first_name: David full_name: Field, David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field orcid: 0000-0002-4014-8478 - first_name: Melinda full_name: Pickup, Melinda id: 2C78037E-F248-11E8-B48F-1D18A9856A87 last_name: Pickup orcid: 0000-0001-6118-0541 - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 citation: ama: Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus. 2022. doi:10.15479/at:ista:11321 apa: Surendranadh, P., Arathoon, L. S., Baskett, C., Field, D., Pickup, M., & Barton, N. H. (2022). Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:11321 chicago: Surendranadh, Parvathy, Louise S Arathoon, Carina Baskett, David Field, Melinda Pickup, and Nicholas H Barton. “Effects of Fine-Scale Population Structure on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus.” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/at:ista:11321. ieee: P. Surendranadh, L. S. Arathoon, C. Baskett, D. Field, M. Pickup, and N. H. Barton, “Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus.” Institute of Science and Technology Austria, 2022. ista: Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. 2022. Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus, Institute of Science and Technology Austria, 10.15479/at:ista:11321. mla: Surendranadh, Parvathy, et al. Effects of Fine-Scale Population Structure on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus. Institute of Science and Technology Austria, 2022, doi:10.15479/at:ista:11321. short: P. Surendranadh, L.S. Arathoon, C. Baskett, D. Field, M. Pickup, N.H. Barton, (2022). contributor: - contributor_type: project_member first_name: Louise S id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87 last_name: Arathoon - contributor_type: project_member first_name: Carina id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87 last_name: Baskett orcid: 0000-0002-7354-8574 - contributor_type: project_member first_name: David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field orcid: 0000-0002-4014-8478 - contributor_type: project_member first_name: Melinda id: 2C78037E-F248-11E8-B48F-1D18A9856A87 last_name: Pickup orcid: 0000-0001-6118-0541 - contributor_type: project_member first_name: Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 date_created: 2022-04-22T09:42:24Z date_published: 2022-04-28T00:00:00Z date_updated: 2024-02-21T12:41:09Z day: '28' ddc: - '570' department: - _id: GradSch - _id: NiBa doi: 10.15479/at:ista:11321 file: - access_level: open_access checksum: 96c1b86cdf25481f2a52972fcc45ca7f content_type: application/x-zip-compressed creator: larathoo date_created: 2022-04-22T09:39:03Z date_updated: 2022-04-22T09:39:03Z file_id: '11326' file_name: Data_Code.zip file_size: 13260571 relation: main_file success: 1 file_date_updated: 2022-04-22T09:39:03Z has_accepted_license: '1' month: '04' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '11411' relation: used_in_publication status: public - id: '9192' relation: earlier_version status: public - id: '8254' relation: earlier_version status: public status: public title: Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2022' ... --- _id: '11653' abstract: - lang: eng text: Eurasian brine shrimp (genus Artemia) have closely related sexual and asexual lineages of parthenogenetic females, which produce rare males at low frequencies. Although they are known to have ZW chromosomes, these are not well characterized, and it is unclear whether they are shared across the clade. Furthermore, the underlying genetic architecture of the transmission of asexuality, which can occur when rare males mate with closely related sexual females, is not well understood. We produced a chromosome-level assembly for the sexual Eurasian species A. sinica and characterized in detail the pair of sex chromosomes of this species. We combined this new assembly with short-read genomic data for the sexual species A. sp. Kazakhstan and several asexual lineages of A. parthenogenetica, allowing us to perform an in-depth characterization of sex-chromosome evolution across the genus. We identified a small differentiated region of the ZW pair that is shared by all sexual and asexual lineages, supporting the shared ancestry of the sex chromosomes. We also inferred that recombination suppression has spread to larger sections of the chromosome independently in the American and Eurasian lineages. Finally, we took advantage of a rare male, which we backcrossed to sexual females, to explore the genetic basis of asexuality. Our results suggest that parthenogenesis is likely partly controlled by a locus on the Z chromosome, highlighting the interplay between sex determination and asexuality. article_processing_charge: No author: - first_name: Marwan N full_name: Elkrewi, Marwan N id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425 last_name: Elkrewi orcid: 0000-0002-5328-7231 citation: ama: Elkrewi MN. Data from Elkrewi, Khauratovich, Toups et al. 2022, “ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp.” 2022. doi:10.15479/AT:ISTA:11653 apa: Elkrewi, M. N. (2022). Data from Elkrewi, Khauratovich, Toups et al. 2022, “ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:11653 chicago: Elkrewi, Marwan N. “Data from Elkrewi, Khauratovich, Toups et Al. 2022, ‘ZW Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.’” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/AT:ISTA:11653. ieee: M. N. Elkrewi, “Data from Elkrewi, Khauratovich, Toups et al. 2022, ‘ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp.’” Institute of Science and Technology Austria, 2022. ista: Elkrewi MN. 2022. Data from Elkrewi, Khauratovich, Toups et al. 2022, ‘ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:11653. mla: Elkrewi, Marwan N. Data from Elkrewi, Khauratovich, Toups et Al. 2022, “ZW Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.” Institute of Science and Technology Austria, 2022, doi:10.15479/AT:ISTA:11653. short: M.N. Elkrewi, (2022). contributor: - first_name: Marwan N id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425 last_name: Elkrewi orcid: 0000-0002-5328-7231 - first_name: Uladzislava last_name: Khauratovich - first_name: Melissa A id: 4E099E4E-F248-11E8-B48F-1D18A9856A87 last_name: Toups - first_name: Vincent K id: 57854184-AAE0-11E9-8D04-98D6E5697425 last_name: Bett - first_name: Andrea id: 353FAC84-AE61-11E9-8BFC-00D3E5697425 last_name: Mrnjavac - first_name: Ariana id: 2A0848E2-F248-11E8-B48F-1D18A9856A87 last_name: Macon - first_name: Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse orcid: 0000-0001-8441-5075 - first_name: Luca last_name: Sax - first_name: Ann K id: 4C0A3874-F248-11E8-B48F-1D18A9856A87 last_name: Huylmans - first_name: Francisco last_name: 'Hontoria ' - first_name: Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 date_created: 2022-07-26T11:01:47Z date_published: 2022-08-05T00:00:00Z date_updated: 2024-02-21T12:35:53Z day: '05' ddc: - '570' department: - _id: GradSch - _id: BeVi doi: 10.15479/AT:ISTA:11653 file: - access_level: open_access checksum: 5f1d7c6d7ab5375ed2564521432bed0c content_type: application/x-zip-compressed creator: melkrewi date_created: 2022-07-26T12:37:52Z date_updated: 2022-08-08T22:30:04Z description: | The folder contains the following datasets (fasta files, and text files): Sup. Dataset 1: Genome assemblies: A. sinica male high quality assembly, A. sp. Kazakhstan male draft assembly Sup. Dataset 2: Male transcriptome assemblies for A. sinica and A. franciscana Sup. Dataset 3: Male and female coverage for A. sinica, A. sp. Kazakhstan, A. urmiana, and A. parthenogenetica females and rare male. Sup. Dataset 4: Artemia sinica Male:female FST per 1Kb window Sup. Dataset 5: FASTA file with candidate W scaffolds Sup. Dataset 6: Candidate W-derived transcripts and alignments Sup. Dataset 7: Gene expression with genomic location Sup. Dataset 8: VCF for asexual female and rare male Sup. Dataset 9: FST between backcrossed asexual and control females (pooled analysis) Sup. Dataset 10: VCF of backcrossed asexual and control females (individual analysis using A. sp. Kazakhstan as the reference), and inferred ancestry Sup. Dataset 11: GO and DE annotations of all the Artemia sinica transcripts and their locations in the Artemia sinica male genome. embargo: 2022-08-07 file_id: '11655' file_name: Data.zip file_size: 2209382998 relation: main_file title: Supplementary Datasets file_date_updated: 2022-08-08T22:30:04Z has_accepted_license: '1' month: '08' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '12248' relation: used_in_publication status: public status: public title: Data from Elkrewi, Khauratovich, Toups et al. 2022, "ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp" tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2022' ... --- _id: '9291' abstract: - lang: eng text: "This .zip File contains the transport data for figures presented in the main text and supplementary material of \"Enhancement of Proximity Induced Superconductivity in Planar Germanium\" by K. Aggarwal, et. al. \r\nThe measurements were done using Labber Software and the data is stored in the hdf5 file format. The files can be opened using either the Labber Log Browser (https://labber.org/overview/) or Labber Python API (http://labber.org/online-doc/api/LogFile.html)." article_processing_charge: No author: - first_name: Georgios full_name: Katsaros, Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros orcid: 0000-0001-8342-202X citation: ama: 'Katsaros G. Raw transport data for: Enhancement of proximity induced superconductivity in planar germanium. 2021. doi:10.15479/AT:ISTA:9291' apa: 'Katsaros, G. (2021). Raw transport data for: Enhancement of proximity induced superconductivity in planar germanium. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9291' chicago: 'Katsaros, Georgios. “Raw Transport Data for: Enhancement of Proximity Induced Superconductivity in Planar Germanium.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9291.' ieee: 'G. Katsaros, “Raw transport data for: Enhancement of proximity induced superconductivity in planar germanium.” Institute of Science and Technology Austria, 2021.' ista: 'Katsaros G. 2021. Raw transport data for: Enhancement of proximity induced superconductivity in planar germanium, Institute of Science and Technology Austria, 10.15479/AT:ISTA:9291.' mla: 'Katsaros, Georgios. Raw Transport Data for: Enhancement of Proximity Induced Superconductivity in Planar Germanium. Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9291.' short: G. Katsaros, (2021). date_created: 2021-03-27T13:47:49Z date_published: 2021-03-29T00:00:00Z date_updated: 2024-02-21T12:37:14Z day: '29' ddc: - '530' department: - _id: GeKa doi: 10.15479/AT:ISTA:9291 file: - access_level: open_access checksum: 635df3c08fc13c3dac008cd421aefbe4 content_type: application/x-zip-compressed creator: gkatsaro date_created: 2021-03-27T13:46:17Z date_updated: 2021-03-27T13:46:17Z file_id: '9292' file_name: Raw Data- Enhancement of Superconductivity in a Planar Ge hole gas.zip file_size: 10616071 relation: main_file success: 1 - access_level: open_access checksum: 12b3ca69ae7509a346711baae0b02a75 content_type: text/plain creator: dernst date_created: 2021-04-01T07:52:56Z date_updated: 2021-04-01T07:52:56Z file_id: '9302' file_name: README.txt file_size: 470 relation: main_file success: 1 file_date_updated: 2021-04-01T07:52:56Z has_accepted_license: '1' month: '03' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: 'Raw transport data for: Enhancement of proximity induced superconductivity in planar germanium' tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9636' article_processing_charge: No author: - first_name: Andrew P full_name: Higginbotham, Andrew P id: 4AD6785A-F248-11E8-B48F-1D18A9856A87 last_name: Higginbotham orcid: 0000-0003-2607-2363 citation: ama: Higginbotham AP. Data for “Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid.” 2021. apa: Higginbotham, A. P. (2021). Data for “Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid.” Institute of Science and Technology Austria. chicago: Higginbotham, Andrew P. “Data for ‘Breakdown of Induced p ± Ip Pairing in a Superconductor-Semiconductor Hybrid.’” Institute of Science and Technology Austria, 2021. ieee: A. P. Higginbotham, “Data for ‘Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid.’” Institute of Science and Technology Austria, 2021. ista: Higginbotham AP. 2021. Data for ‘Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid’, Institute of Science and Technology Austria. mla: Higginbotham, Andrew P. Data for “Breakdown of Induced p ± Ip Pairing in a Superconductor-Semiconductor Hybrid.” Institute of Science and Technology Austria, 2021. short: A.P. Higginbotham, (2021). date_created: 2021-07-07T20:43:10Z date_published: 2021-01-01T00:00:00Z date_updated: 2024-02-21T12:36:52Z department: - _id: AnHi file: - access_level: open_access checksum: 18e90687ec7bbd75f8bfea4d8293fb30 content_type: application/zip creator: ahigginb date_created: 2021-07-07T20:37:28Z date_updated: 2021-07-07T20:37:28Z file_id: '9637' file_name: figures_data.zip file_size: 3345244 relation: main_file success: 1 file_date_updated: 2021-07-07T20:37:28Z has_accepted_license: '1' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '10029' relation: used_in_publication status: public status: public title: Data for "Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid" tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9323' abstract: - lang: eng text: This .zip File contains the data for figures presented in the main text and supplementary material of "A singlet triplet hole spin qubit in planar Ge" by D. Jirovec, et. al. The measurements were done using Labber Software and the data is stored in the hdf5 file format. The files can be opened using either the Labber Log Browser (https://labber.org/overview/) or Labber Python API (http://labber.org/online-doc/api/LogFile.html). A single file is acquired with QCodes and features the corresponding data type. XRD data are in .dat format and a code to open the data is provided. The code for simulations is as well provided in Python. article_processing_charge: No author: - first_name: Daniel full_name: Jirovec, Daniel id: 4C473F58-F248-11E8-B48F-1D18A9856A87 last_name: Jirovec orcid: 0000-0002-7197-4801 citation: ama: Jirovec D. Research data for “A singlet-triplet hole spin qubit planar Ge.” 2021. doi:10.15479/AT:ISTA:9323 apa: Jirovec, D. (2021). Research data for “A singlet-triplet hole spin qubit planar Ge.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9323 chicago: Jirovec, Daniel. “Research Data for ‘A Singlet-Triplet Hole Spin Qubit Planar Ge.’” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9323. ieee: D. Jirovec, “Research data for ‘A singlet-triplet hole spin qubit planar Ge.’” Institute of Science and Technology Austria, 2021. ista: Jirovec D. 2021. Research data for ‘A singlet-triplet hole spin qubit planar Ge’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:9323. mla: Jirovec, Daniel. Research Data for “A Singlet-Triplet Hole Spin Qubit Planar Ge.” Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9323. short: D. Jirovec, (2021). contributor: - contributor_type: project_member first_name: Daniel id: 4C473F58-F248-11E8-B48F-1D18A9856A87 last_name: Jirovec date_created: 2021-04-14T09:50:22Z date_published: 2021-04-14T00:00:00Z date_updated: 2024-02-21T12:39:15Z day: '14' ddc: - '530' department: - _id: GradSch - _id: GeKa doi: 10.15479/AT:ISTA:9323 file: - access_level: open_access checksum: c569d2a2ce1694445cdbca19cf8ae023 content_type: application/x-zip-compressed creator: djirovec date_created: 2021-04-14T09:48:47Z date_updated: 2021-04-14T09:48:47Z file_id: '9324' file_name: DataRepositorySTqubit.zip file_size: 221832287 relation: main_file success: 1 - access_level: open_access checksum: 845bdf87430718ad6aff47eda7b5fc92 content_type: application/octet-stream creator: djirovec date_created: 2021-04-14T09:49:30Z date_updated: 2021-04-14T09:49:30Z file_id: '9325' file_name: ReadMe file_size: 4323 relation: main_file success: 1 file_date_updated: 2021-04-14T09:49:30Z has_accepted_license: '1' month: '04' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '8909' relation: used_in_publication status: public status: public title: Research data for "A singlet-triplet hole spin qubit planar Ge" tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9389' abstract: - lang: eng text: "This .zip File contains the transport data for \"Non-topological zero bias peaks in full-shell nanowires induced by flux tunable Andreev states\" by M. Valentini, et. al. \r\nThe measurements were done using Labber Software and the data is stored in the hdf5 file format.\r\nInstructions of how to read the data are in \"Notebook_Valentini.pdf\"." acknowledged_ssus: - _id: NanoFab article_processing_charge: No author: - first_name: Marco full_name: Valentini, Marco id: C0BB2FAC-D767-11E9-B658-BC13E6697425 last_name: Valentini citation: ama: Valentini M. Research data for “Non-topological zero bias peaks in full-shell nanowires induced by flux tunable Andreev states.” 2021. doi:10.15479/AT:ISTA:9389 apa: Valentini, M. (2021). Research data for “Non-topological zero bias peaks in full-shell nanowires induced by flux tunable Andreev states.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9389 chicago: Valentini, Marco. “Research Data for ‘Non-Topological Zero Bias Peaks in Full-Shell Nanowires Induced by Flux Tunable Andreev States.’” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9389. ieee: M. Valentini, “Research data for ‘Non-topological zero bias peaks in full-shell nanowires induced by flux tunable Andreev states.’” Institute of Science and Technology Austria, 2021. ista: Valentini M. 2021. Research data for ‘Non-topological zero bias peaks in full-shell nanowires induced by flux tunable Andreev states’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:9389. mla: Valentini, Marco. Research Data for “Non-Topological Zero Bias Peaks in Full-Shell Nanowires Induced by Flux Tunable Andreev States.” Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9389. short: M. Valentini, (2021). contributor: - contributor_type: contact_person first_name: Marco id: C0BB2FAC-D767-11E9-B658-BC13E6697425 last_name: Valentini date_created: 2021-05-14T12:07:53Z date_published: 2021-01-01T00:00:00Z date_updated: 2024-02-21T12:40:09Z ddc: - '530' department: - _id: GradSch - _id: GeKa doi: 10.15479/AT:ISTA:9389 file: - access_level: open_access checksum: 80a905c4eef24dab6fb247e81a3d67f5 content_type: application/pdf creator: mvalenti date_created: 2021-05-14T11:42:23Z date_updated: 2021-05-14T11:42:23Z file_id: '9390' file_name: Notebook_Valentini.pdf file_size: 10572981 relation: main_file - access_level: open_access checksum: 1e61a7e63949448a8db0091cdac23570 content_type: application/x-zip-compressed creator: mvalenti date_created: 2021-05-14T11:56:48Z date_updated: 2021-05-14T11:56:48Z file_id: '9391' file_name: Experimental_data.zip file_size: 99076111 relation: main_file file_date_updated: 2021-05-14T11:56:48Z has_accepted_license: '1' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '8910' relation: used_in_publication status: public status: public title: Research data for "Non-topological zero bias peaks in full-shell nanowires induced by flux tunable Andreev states" tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9192' abstract: - lang: eng text: Here are the research data underlying the publication " Effects of fine-scale population structure on inbreeding in a long-term study of snapdragons (Antirrhinum majus)." Further information are summed up in the README document. article_processing_charge: No author: - first_name: Parvathy full_name: Surendranadh, Parvathy id: 455235B8-F248-11E8-B48F-1D18A9856A87 last_name: Surendranadh - first_name: Louise S full_name: Arathoon, Louise S id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87 last_name: Arathoon orcid: 0000-0003-1771-714X - first_name: Carina full_name: Baskett, Carina id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87 last_name: Baskett orcid: 0000-0002-7354-8574 - first_name: David full_name: Field, David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field orcid: 0000-0002-4014-8478 - first_name: Melinda full_name: Pickup, Melinda id: 2C78037E-F248-11E8-B48F-1D18A9856A87 last_name: Pickup orcid: 0000-0001-6118-0541 - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 citation: ama: Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus. 2021. doi:10.15479/AT:ISTA:9192 apa: Surendranadh, P., Arathoon, L. S., Baskett, C., Field, D., Pickup, M., & Barton, N. H. (2021). Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9192 chicago: Surendranadh, Parvathy, Louise S Arathoon, Carina Baskett, David Field, Melinda Pickup, and Nicholas H Barton. “Effects of Fine-Scale Population Structure on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9192. ieee: P. Surendranadh, L. S. Arathoon, C. Baskett, D. Field, M. Pickup, and N. H. Barton, “Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus.” Institute of Science and Technology Austria, 2021. ista: Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. 2021. Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus, Institute of Science and Technology Austria, 10.15479/AT:ISTA:9192. mla: Surendranadh, Parvathy, et al. Effects of Fine-Scale Population Structure on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus. Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9192. short: P. Surendranadh, L.S. Arathoon, C. Baskett, D. Field, M. Pickup, N.H. Barton, (2021). contributor: - contributor_type: project_member first_name: Parvathy id: 455235B8-F248-11E8-B48F-1D18A9856A87 last_name: Surendranadh - contributor_type: project_member first_name: Louise S id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87 last_name: Arathoon - contributor_type: project_member first_name: Carina id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87 last_name: Baskett - contributor_type: project_member first_name: David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field orcid: 0000-0002-4014-8478 - contributor_type: project_member first_name: Melinda id: 2C78037E-F248-11E8-B48F-1D18A9856A87 last_name: Pickup orcid: 0000-0001-6118-0541 - contributor_type: project_leader first_name: Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 date_created: 2021-02-24T17:49:21Z date_published: 2021-02-26T00:00:00Z date_updated: 2024-02-21T12:41:09Z day: '26' ddc: - '576' department: - _id: GradSch - _id: NiBa doi: 10.15479/AT:ISTA:9192 file: - access_level: open_access checksum: f85537815809a8a4b7da9d01163f88c0 content_type: application/x-zip-compressed creator: larathoo date_created: 2021-02-24T17:45:13Z date_updated: 2021-02-24T17:45:13Z file_id: '9193' file_name: Data_Code.zip file_size: 5934452 relation: main_file success: 1 file_date_updated: 2021-02-24T17:45:13Z has_accepted_license: '1' month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '11411' relation: used_in_publication status: public - id: '11321' relation: later_version status: public - id: '8254' relation: earlier_version status: public status: public title: Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '9949' article_processing_charge: No author: - first_name: Beatriz full_name: Vicoso, Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 citation: ama: Vicoso B. Data from Hyulmans et al 2021, “Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.” 2021. doi:10.15479/AT:ISTA:9949 apa: Vicoso, B. (2021). Data from Hyulmans et al 2021, “Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9949 chicago: Vicoso, Beatriz. “Data from Hyulmans et Al 2021, ‘Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.’” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9949. ieee: B. Vicoso, “Data from Hyulmans et al 2021, ‘Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.’” Institute of Science and Technology Austria, 2021. ista: Vicoso B. 2021. Data from Hyulmans et al 2021, ‘Transitions to asexuality and evolution of gene expression in Artemia brine shrimp’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:9949. mla: Vicoso, Beatriz. Data from Hyulmans et Al 2021, “Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.” Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9949. short: B. Vicoso, (2021). date_created: 2021-08-21T13:44:22Z date_published: 2021-08-24T00:00:00Z date_updated: 2024-02-21T12:40:30Z day: '24' department: - _id: BeVi doi: 10.15479/AT:ISTA:9949 file: - access_level: open_access checksum: 90461837eed66beac6fa302993cf0ca9 content_type: application/zip creator: bvicoso date_created: 2021-08-21T13:43:59Z date_updated: 2021-08-21T13:43:59Z file_id: '9950' file_name: Data.zip file_size: 139188306 relation: main_file success: 1 file_date_updated: 2021-08-21T13:43:59Z has_accepted_license: '1' month: '08' oa: 1 oa_version: None publisher: Institute of Science and Technology Austria related_material: record: - id: '10166' relation: used_in_publication status: public status: public title: Data from Hyulmans et al 2021, "Transitions to asexuality and evolution of gene expression in Artemia brine shrimp" tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2021' ... --- _id: '8834' abstract: - lang: eng text: "This data collection contains the transport data for figures presented in the supplementary material of \"Enhancement of Proximity Induced Superconductivity in Planar Germanium\" by K. Aggarwal, et. al. \r\nThe measurements were done using Labber Software and the data is stored in the hdf5 file format. The files can be opened using either the Labber Log Browser (https://labber.org/overview/) or Labber Python API (http://labber.org/online-doc/api/LogFile.html).\r\n" article_processing_charge: No author: - first_name: Georgios full_name: Katsaros, Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros orcid: 0000-0001-8342-202X citation: ama: Katsaros G. Enhancement of proximity induced superconductivity in planar Germanium. 2020. doi:10.15479/AT:ISTA:8834 apa: Katsaros, G. (2020). Enhancement of proximity induced superconductivity in planar Germanium. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8834 chicago: Katsaros, Georgios. “Enhancement of Proximity Induced Superconductivity in Planar Germanium.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8834. ieee: G. Katsaros, “Enhancement of proximity induced superconductivity in planar Germanium.” Institute of Science and Technology Austria, 2020. ista: Katsaros G. 2020. Enhancement of proximity induced superconductivity in planar Germanium, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8834. mla: Katsaros, Georgios. Enhancement of Proximity Induced Superconductivity in Planar Germanium. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8834. short: G. Katsaros, (2020). contributor: - contributor_type: project_member first_name: Kushagra id: b22ab905-3539-11eb-84c3-fc159dcd79cb last_name: Aggarwal - contributor_type: project_member first_name: Andrea C id: 340F461A-F248-11E8-B48F-1D18A9856A87 last_name: Hofmann - contributor_type: project_member first_name: Daniel id: 4C473F58-F248-11E8-B48F-1D18A9856A87 last_name: Jirovec - contributor_type: project_member first_name: Ivan id: 2A307FE2-F248-11E8-B48F-1D18A9856A87 last_name: Prieto Gonzalez - contributor_type: project_member first_name: Amir last_name: Sammak - contributor_type: project_member first_name: Marc last_name: Botifoll - contributor_type: project_member first_name: Sara last_name: Marti-Sanchez - contributor_type: project_member first_name: Menno last_name: Veldhorst - contributor_type: project_member first_name: Jordi last_name: Arbiol - contributor_type: project_member first_name: Giordano last_name: Scappucci - contributor_type: project_leader first_name: Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros date_created: 2020-12-02T10:49:30Z date_published: 2020-12-02T00:00:00Z date_updated: 2024-02-21T12:41:26Z day: '02' ddc: - '530' department: - _id: GeKa doi: 10.15479/AT:ISTA:8834 file: - access_level: open_access checksum: 898607ac9d7cfbd5c7dd84bcb6d8a924 content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:21Z date_updated: 2020-12-02T10:46:21Z file_id: '8836' file_name: Figure1-ICvsVG.hdf5 file_size: 898039 relation: main_file success: 1 - access_level: open_access checksum: f6f5888f8425e82b4dcd5ec3db9162a6 content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:21Z date_updated: 2020-12-02T10:46:21Z file_id: '8837' file_name: Figure1-RNvsVG.hdf5 file_size: 184971 relation: main_file success: 1 - access_level: open_access checksum: 63a26c4b0299538610ec58c48c0ab1e3 content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8838' file_name: Figure2-MAR.hdf5 file_size: 2097740 relation: main_file success: 1 - access_level: open_access checksum: 4c6795b64b05088606ab7881f801acd7 content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8839' file_name: Figure3-Fraunhofer.hdf5 file_size: 911501 relation: main_file success: 1 - access_level: open_access checksum: 6b1b07e8ab0d6c1fead91032bf543818 content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8840' file_name: Figure3-ICvsBparallel.hdf5 file_size: 384239 relation: main_file success: 1 - access_level: open_access checksum: d825f77f57cbf455a4ac48afeec27f5b content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8841' file_name: Figure3-ICvsBperp.hdf5 file_size: 942878 relation: main_file success: 1 - access_level: open_access checksum: ec81afc3697da097a224e9142322243c content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8842' file_name: Figure4-CPR.hdf5 file_size: 623246 relation: main_file success: 1 - access_level: open_access checksum: ca5860a8850a6874312c4ca1d7d41013 content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8843' file_name: Figure4-SQUID.hdf5 file_size: 507164 relation: main_file success: 1 - access_level: open_access checksum: 770721205d081c847316d9122c94eb9b content_type: text/plain creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8844' file_name: Readme.txt file_size: 1573 relation: main_file success: 1 - access_level: open_access checksum: 5e2e407ca631fb15b8c3cc51c5dd3bdb content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8845' file_name: Figure S5-ICvsVG.hdf5 file_size: 842702 relation: main_file success: 1 - access_level: open_access checksum: 2076e5f68264ed76c297811f449d768d content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8846' file_name: Figure S5-RNvsVG.hdf5 file_size: 208921 relation: main_file success: 1 - access_level: open_access checksum: 5dccb801d694749fe8cb496821f12f79 content_type: application/octet-stream creator: gkatsaro date_created: 2020-12-02T10:46:22Z date_updated: 2020-12-02T10:46:22Z file_id: '8847' file_name: Figure S8-ICvsVG.hdf5 file_size: 912249 relation: main_file success: 1 - 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lang: eng text: 'Antibiotics that interfere with translation, when combined, interact in diverse and difficult-to-predict ways. Here, we explain these interactions by "translation bottlenecks": points in the translation cycle where antibiotics block ribosomal progression. To elucidate the underlying mechanisms of drug interactions between translation inhibitors, we generate translation bottlenecks genetically using inducible control of translation factors that regulate well-defined translation cycle steps. These perturbations accurately mimic antibiotic action and drug interactions, supporting that the interplay of different translation bottlenecks causes these interactions. We further show that growth laws, combined with drug uptake and binding kinetics, enable the direct prediction of a large fraction of observed interactions, yet fail to predict suppression. However, varying two translation bottlenecks simultaneously supports that dense traffic of ribosomes and competition for translation factors account for the previously unexplained suppression. These results highlight the importance of "continuous epistasis" in bacterial physiology.' acknowledged_ssus: - _id: LifeSc article_processing_charge: No author: - first_name: Bor full_name: Kavcic, Bor id: 350F91D2-F248-11E8-B48F-1D18A9856A87 last_name: Kavcic orcid: 0000-0001-6041-254X citation: ama: Kavcic B. Analysis scripts and research data for the paper “Mechanisms of drug interactions between translation-inhibiting antibiotics.” 2020. doi:10.15479/AT:ISTA:8097 apa: Kavcic, B. (2020). Analysis scripts and research data for the paper “Mechanisms of drug interactions between translation-inhibiting antibiotics.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8097 chicago: Kavcic, Bor. “Analysis Scripts and Research Data for the Paper ‘Mechanisms of Drug Interactions between Translation-Inhibiting Antibiotics.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8097. ieee: B. Kavcic, “Analysis scripts and research data for the paper ‘Mechanisms of drug interactions between translation-inhibiting antibiotics.’” Institute of Science and Technology Austria, 2020. ista: Kavcic B. 2020. Analysis scripts and research data for the paper ‘Mechanisms of drug interactions between translation-inhibiting antibiotics’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8097. mla: Kavcic, Bor. Analysis Scripts and Research Data for the Paper “Mechanisms of Drug Interactions between Translation-Inhibiting Antibiotics.” Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8097. short: B. Kavcic, (2020). contributor: - contributor_type: research_group first_name: Gašper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkačik orcid: 0000-0002-6699-1455 - contributor_type: research_group first_name: Tobias id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87 last_name: Bollenbach date_created: 2020-07-06T20:40:19Z date_published: 2020-07-15T00:00:00Z date_updated: 2024-02-21T12:40:51Z day: '15' department: - _id: GaTk doi: 10.15479/AT:ISTA:8097 file: - access_level: open_access checksum: 5c321dbbb6d4b3c85da786fd3ebbdc98 content_type: application/zip creator: bkavcic date_created: 2020-07-06T20:38:27Z date_updated: 2020-07-14T12:48:09Z file_id: '8098' file_name: natComm_2020_scripts.zip file_size: 255770756 relation: main_file file_date_updated: 2020-07-14T12:48:09Z has_accepted_license: '1' keyword: - Escherichia coli - antibiotic combinations - translation - growth laws - drug interactions - bacterial physiology - translation inhibitors month: '07' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: Analysis scripts and research data for the paper "Mechanisms of drug interactions between translation-inhibiting antibiotics" tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '8254' abstract: - lang: eng text: "Here are the research data underlying the publication \"Estimating inbreeding and its effects in a long-term study of snapdragons (Antirrhinum majus)\". Further information are summed up in the README document.\r\nThe files for this record have been updated and are now found in the linked DOI https://doi.org/10.15479/AT:ISTA:9192." article_processing_charge: No author: - first_name: Louise S full_name: Arathoon, Louise S id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87 last_name: Arathoon orcid: 0000-0003-1771-714X citation: ama: Arathoon LS. Estimating inbreeding and its effects in a long-term study of snapdragons (Antirrhinum majus). 2020. doi:10.15479/AT:ISTA:8254 apa: Arathoon, L. S. (2020). Estimating inbreeding and its effects in a long-term study of snapdragons (Antirrhinum majus). Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8254 chicago: Arathoon, Louise S. “Estimating Inbreeding and Its Effects in a Long-Term Study of Snapdragons (Antirrhinum Majus).” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8254. ieee: L. S. Arathoon, “Estimating inbreeding and its effects in a long-term study of snapdragons (Antirrhinum majus).” Institute of Science and Technology Austria, 2020. ista: Arathoon LS. 2020. Estimating inbreeding and its effects in a long-term study of snapdragons (Antirrhinum majus), Institute of Science and Technology Austria, 10.15479/AT:ISTA:8254. mla: Arathoon, Louise S. Estimating Inbreeding and Its Effects in a Long-Term Study of Snapdragons (Antirrhinum Majus). Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8254. short: L.S. Arathoon, (2020). contributor: - contributor_type: data_collector first_name: Louise S id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87 last_name: Arathoon - contributor_type: project_member first_name: Parvathy id: 455235B8-F248-11E8-B48F-1D18A9856A87 last_name: Surendranadh - contributor_type: project_member first_name: Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 - contributor_type: project_member first_name: David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field orcid: 0000-0002-4014-8478 - contributor_type: project_member first_name: Melinda id: 2C78037E-F248-11E8-B48F-1D18A9856A87 last_name: Pickup orcid: 0000-0001-6118-0541 - contributor_type: project_member first_name: Carina id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87 last_name: Baskett date_created: 2020-08-12T12:49:23Z date_published: 2020-08-18T00:00:00Z date_updated: 2024-02-21T12:41:09Z day: '18' ddc: - '576' department: - _id: NiBa doi: 10.15479/AT:ISTA:8254 file: - access_level: open_access checksum: 4f1382ed4384751b6013398c11557bf6 content_type: application/x-zip-compressed creator: dernst date_created: 2020-08-18T08:03:23Z date_updated: 2020-08-18T08:03:23Z file_id: '8280' file_name: Data_Rcode_MathematicaNB.zip file_size: 5778420 relation: main_file success: 1 file_date_updated: 2020-08-18T08:03:23Z has_accepted_license: '1' month: '08' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '11321' relation: later_version status: public - id: '9192' relation: later_version status: public status: public title: Estimating inbreeding and its effects in a long-term study of snapdragons (Antirrhinum majus) tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '8930' abstract: - lang: eng text: Phenomenological relations such as Ohm’s or Fourier’s law have a venerable history in physics but are still scarce in biology. This situation restrains predictive theory. Here, we build on bacterial “growth laws,” which capture physiological feedback between translation and cell growth, to construct a minimal biophysical model for the combined action of ribosome-targeting antibiotics. Our model predicts drug interactions like antagonism or synergy solely from responses to individual drugs. We provide analytical results for limiting cases, which agree well with numerical results. We systematically refine the model by including direct physical interactions of different antibiotics on the ribosome. In a limiting case, our model provides a mechanistic underpinning for recent predictions of higher-order interactions that were derived using entropy maximization. We further refine the model to include the effects of antibiotics that mimic starvation and the presence of resistance genes. We describe the impact of a starvation-mimicking antibiotic on drug interactions analytically and verify it experimentally. Our extended model suggests a change in the type of drug interaction that depends on the strength of resistance, which challenges established rescaling paradigms. We experimentally show that the presence of unregulated resistance genes can lead to altered drug interaction, which agrees with the prediction of the model. While minimal, the model is readily adaptable and opens the door to predicting interactions of second and higher-order in a broad range of biological systems. article_processing_charge: No author: - first_name: Bor full_name: Kavcic, Bor id: 350F91D2-F248-11E8-B48F-1D18A9856A87 last_name: Kavcic orcid: 0000-0001-6041-254X citation: ama: Kavcic B. Analysis scripts and research data for the paper “Minimal biophysical model of combined antibiotic action.” 2020. doi:10.15479/AT:ISTA:8930 apa: Kavcic, B. (2020). Analysis scripts and research data for the paper “Minimal biophysical model of combined antibiotic action.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8930 chicago: Kavcic, Bor. “Analysis Scripts and Research Data for the Paper ‘Minimal Biophysical Model of Combined Antibiotic Action.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8930. ieee: B. Kavcic, “Analysis scripts and research data for the paper ‘Minimal biophysical model of combined antibiotic action.’” Institute of Science and Technology Austria, 2020. ista: Kavcic B. 2020. Analysis scripts and research data for the paper ‘Minimal biophysical model of combined antibiotic action’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8930. mla: Kavcic, Bor. Analysis Scripts and Research Data for the Paper “Minimal Biophysical Model of Combined Antibiotic Action.” Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8930. short: B. Kavcic, (2020). contributor: - contributor_type: supervisor first_name: Gašper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkačik orcid: 0000-0002-6699-1455 - contributor_type: supervisor first_name: Tobias id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87 last_name: Bollenbach date_created: 2020-12-09T15:04:02Z date_published: 2020-12-10T00:00:00Z date_updated: 2024-02-21T12:41:42Z day: '10' ddc: - '570' department: - _id: GaTk doi: 10.15479/AT:ISTA:8930 file: - access_level: open_access checksum: 60a818edeffaa7da1ebf5f8fbea9ba18 content_type: application/zip creator: bkavcic date_created: 2020-12-09T15:00:19Z date_updated: 2020-12-09T15:00:19Z file_id: '8932' file_name: PLoSCompBiol2020_datarep.zip file_size: 315494370 relation: main_file success: 1 file_date_updated: 2020-12-09T15:00:19Z has_accepted_license: '1' keyword: - Escherichia coli - antibiotic combinations - translation - growth laws - drug interactions - bacterial physiology - translation inhibitors month: '12' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '8997' relation: used_in_publication status: public status: public title: Analysis scripts and research data for the paper "Minimal biophysical model of combined antibiotic action" tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '8951' abstract: - lang: eng text: Gene expression levels are influenced by multiple coexisting molecular mechanisms. Some of these interactions, such as those of transcription factors and promoters have been studied extensively. However, predicting phenotypes of gene regulatory networks remains a major challenge. Here, we use a well-defined synthetic gene regulatory network to study how network phenotypes depend on local genetic context, i.e. the genetic neighborhood of a transcription factor and its relative position. We show that one gene regulatory network with fixed topology can display not only quantitatively but also qualitatively different phenotypes, depending solely on the local genetic context of its components. Our results demonstrate that changes in local genetic context can place a single transcriptional unit within two separate regulons without the need for complex regulatory sequences. We propose that relative order of individual transcriptional units, with its potential for combinatorial complexity, plays an important role in shaping phenotypes of gene regulatory networks. article_processing_charge: No author: - first_name: Anna A full_name: Nagy-Staron, Anna A id: 3ABC5BA6-F248-11E8-B48F-1D18A9856A87 last_name: Nagy-Staron orcid: 0000-0002-1391-8377 citation: ama: Nagy-Staron AA. Sequences of gene regulatory network permutations for the article “Local genetic context shapes the function of a gene regulatory network.” 2020. doi:10.15479/AT:ISTA:8951 apa: Nagy-Staron, A. A. (2020). Sequences of gene regulatory network permutations for the article “Local genetic context shapes the function of a gene regulatory network.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8951 chicago: Nagy-Staron, Anna A. “Sequences of Gene Regulatory Network Permutations for the Article ‘Local Genetic Context Shapes the Function of a Gene Regulatory Network.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8951. ieee: A. A. Nagy-Staron, “Sequences of gene regulatory network permutations for the article ‘Local genetic context shapes the function of a gene regulatory network.’” Institute of Science and Technology Austria, 2020. ista: Nagy-Staron AA. 2020. Sequences of gene regulatory network permutations for the article ‘Local genetic context shapes the function of a gene regulatory network’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8951. mla: Nagy-Staron, Anna A. Sequences of Gene Regulatory Network Permutations for the Article “Local Genetic Context Shapes the Function of a Gene Regulatory Network.” Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8951. short: A.A. Nagy-Staron, (2020). contributor: - contributor_type: project_member first_name: Anna A id: 3ABC5BA6-F248-11E8-B48F-1D18A9856A87 last_name: Nagy-Staron - contributor_type: project_member first_name: Kathrin id: 3AEC8556-F248-11E8-B48F-1D18A9856A87 last_name: Tomasek - contributor_type: project_member first_name: Caroline last_name: Caruso Carter - contributor_type: project_member first_name: Elisabeth last_name: Sonnleitner - contributor_type: project_member first_name: Bor id: 350F91D2-F248-11E8-B48F-1D18A9856A87 last_name: Kavcic orcid: 0000-0001-6041-254X - contributor_type: project_member first_name: Tiago last_name: Paixão - contributor_type: project_manager first_name: Calin C id: 47F8433E-F248-11E8-B48F-1D18A9856A87 last_name: Guet orcid: 0000-0001-6220-2052 date_created: 2020-12-20T10:00:26Z date_published: 2020-12-21T00:00:00Z date_updated: 2024-02-21T12:41:57Z day: '21' ddc: - '570' department: - _id: CaGu doi: 10.15479/AT:ISTA:8951 file: - access_level: open_access checksum: f57862aeee1690c7effd2b1117d40ed1 content_type: text/plain creator: bkavcic date_created: 2020-12-20T09:52:52Z date_updated: 2020-12-20T09:52:52Z file_id: '8952' file_name: readme.txt file_size: 523 relation: main_file success: 1 - access_level: open_access checksum: f2c6d5232ec6d551b6993991e8689e9f content_type: application/octet-stream creator: bkavcic date_created: 2020-12-20T22:01:44Z date_updated: 2020-12-20T22:01:44Z file_id: '8954' file_name: GRNs Research depository.gb file_size: 379228 relation: main_file success: 1 file_date_updated: 2020-12-20T22:01:44Z has_accepted_license: '1' keyword: - Gene regulatory networks - Gene expression - Escherichia coli - Synthetic Biology month: '12' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '9283' relation: used_in_publication status: public status: public title: Sequences of gene regulatory network permutations for the article "Local genetic context shapes the function of a gene regulatory network" tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '7383' abstract: - lang: eng text: Organisms cope with change by employing transcriptional regulators. However, when faced with rare environments, the evolution of transcriptional regulators and their promoters may be too slow. We ask whether the intrinsic instability of gene duplication and amplification provides a generic alternative to canonical gene regulation. By real-time monitoring of gene copy number mutations in E. coli, we show that gene duplications and amplifications enable adaptation to fluctuating environments by rapidly generating copy number, and hence expression level, polymorphism. This ‘amplification-mediated gene expression tuning’ occurs on timescales similar to canonical gene regulation and can deal with rapid environmental changes. Mathematical modeling shows that amplifications also tune gene expression in stochastic environments where transcription factor-based schemes are hard to evolve or maintain. The fleeting nature of gene amplifications gives rise to a generic population-level mechanism that relies on genetic heterogeneity to rapidly tune expression of any gene, without leaving any genomic signature. article_processing_charge: No author: - first_name: Rok full_name: Grah, Rok id: 483E70DE-F248-11E8-B48F-1D18A9856A87 last_name: Grah orcid: 0000-0003-2539-3560 citation: ama: 'Grah R. Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation. 2020. doi:10.15479/AT:ISTA:7383' apa: 'Grah, R. (2020). Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7383' chicago: 'Grah, Rok. “Matlab Scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression Regulation.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7383.' ieee: 'R. Grah, “Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation.” Institute of Science and Technology Austria, 2020.' ista: 'Grah R. 2020. Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7383.' mla: 'Grah, Rok. Matlab Scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression Regulation. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7383.' short: R. Grah, (2020). contributor: - contributor_type: project_leader first_name: Calin C id: 47F8433E-F248-11E8-B48F-1D18A9856A87 last_name: Guet orcid: 0000-0001-6220-2052 date_created: 2020-01-28T10:41:49Z date_published: 2020-01-28T00:00:00Z date_updated: 2024-02-21T12:42:31Z day: '28' department: - _id: CaGu - _id: GaTk doi: 10.15479/AT:ISTA:7383 file: - access_level: open_access checksum: 9d292cf5207b3829225f44c044cdb3fd content_type: application/zip creator: rgrah date_created: 2020-01-28T10:39:40Z date_updated: 2020-07-14T12:47:57Z file_id: '7384' file_name: Scripts.zip file_size: 73363365 relation: main_file - access_level: open_access checksum: 4076ceab32ef588cc233802bab24c1ab content_type: text/plain creator: rgrah date_created: 2020-01-28T10:39:30Z date_updated: 2020-07-14T12:47:57Z file_id: '7385' file_name: READ_ME_MAIN.txt file_size: 962 relation: main_file file_date_updated: 2020-07-14T12:47:57Z has_accepted_license: '1' keyword: - Matlab scripts - analysis of microfluidics - mathematical model month: '01' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '7652' relation: used_in_publication status: public status: public title: 'Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation' type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '9222' article_processing_charge: No author: - first_name: Georgios full_name: Katsaros, Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros orcid: 0000-0001-8342-202X citation: ama: 'Katsaros G. Transport data for: Site‐controlled uniform Ge/Si Hut wires with electrically tunable spin–orbit coupling. 2020. doi:10.15479/AT:ISTA:9222' apa: 'Katsaros, G. (2020). Transport data for: Site‐controlled uniform Ge/Si Hut wires with electrically tunable spin–orbit coupling. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9222' chicago: 'Katsaros, Georgios. “Transport Data for: Site‐controlled Uniform Ge/Si Hut Wires with Electrically Tunable Spin–Orbit Coupling.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:9222.' ieee: 'G. Katsaros, “Transport data for: Site‐controlled uniform Ge/Si Hut wires with electrically tunable spin–orbit coupling.” Institute of Science and Technology Austria, 2020.' ista: 'Katsaros G. 2020. Transport data for: Site‐controlled uniform Ge/Si Hut wires with electrically tunable spin–orbit coupling, Institute of Science and Technology Austria, 10.15479/AT:ISTA:9222.' mla: 'Katsaros, Georgios. Transport Data for: Site‐controlled Uniform Ge/Si Hut Wires with Electrically Tunable Spin–Orbit Coupling. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:9222.' short: G. Katsaros, (2020). contributor: - contributor_type: research_group first_name: Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros date_created: 2021-03-05T18:00:47Z date_published: 2020-03-16T00:00:00Z date_updated: 2024-02-21T12:42:13Z day: '16' ddc: - '530' department: - _id: GeKa doi: 10.15479/AT:ISTA:9222 file: - access_level: open_access checksum: 41b66e195ed3dbd73077feee77b05652 content_type: application/x-zip-compressed creator: gkatsaro date_created: 2021-03-05T17:50:45Z date_updated: 2021-03-05T17:50:45Z file_id: '9223' file_name: DOI_SiteControlledHWs.zip file_size: 13317557 relation: main_file - access_level: open_access checksum: a1dc5f710ba4b3bb7f248195ba754ab2 content_type: text/plain creator: dernst date_created: 2021-03-10T07:31:50Z date_updated: 2021-03-10T07:31:50Z file_id: '9233' file_name: Readme.txt file_size: 3515 relation: main_file success: 1 file_date_updated: 2021-03-10T07:31:50Z has_accepted_license: '1' month: '03' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '7541' relation: used_in_publication status: public status: public title: 'Transport data for: Site‐controlled uniform Ge/Si Hut wires with electrically tunable spin–orbit coupling' tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '8375' abstract: - lang: eng text: 'Supplementary movies showing the following sequences for spatio-temporarily programmed shells: input geometry and actuation time landscape; comparison of morphing processes from a camera recording and a simulation; final actuated shape.' article_processing_charge: No author: - first_name: Ruslan full_name: Guseinov, Ruslan id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87 last_name: Guseinov orcid: 0000-0001-9819-5077 citation: ama: 'Guseinov R. Supplementary data for “Computational design of curved thin shells: from glass façades to programmable matter.” 2020. doi:10.15479/AT:ISTA:8375' apa: 'Guseinov, R. (2020). Supplementary data for “Computational design of curved thin shells: from glass façades to programmable matter.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8375' chicago: 'Guseinov, Ruslan. “Supplementary Data for ‘Computational Design of Curved Thin Shells: From Glass Façades to Programmable Matter.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8375.' ieee: 'R. Guseinov, “Supplementary data for ‘Computational design of curved thin shells: from glass façades to programmable matter.’” Institute of Science and Technology Austria, 2020.' ista: 'Guseinov R. 2020. Supplementary data for ‘Computational design of curved thin shells: from glass façades to programmable matter’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8375.' mla: 'Guseinov, Ruslan. Supplementary Data for “Computational Design of Curved Thin Shells: From Glass Façades to Programmable Matter.” Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8375.' short: R. Guseinov, (2020). contributor: - contributor_type: researcher first_name: Ruslan id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87 last_name: Guseinov orcid: 0000-0001-9819-5077 - contributor_type: researcher first_name: Connor last_name: McMahan - contributor_type: researcher first_name: Jesus id: 2DC83906-F248-11E8-B48F-1D18A9856A87 last_name: Perez Rodriguez - contributor_type: researcher first_name: Chiara last_name: Daraio - contributor_type: researcher first_name: Bernd id: 49876194-F248-11E8-B48F-1D18A9856A87 last_name: Bickel orcid: 0000-0001-6511-9385 date_created: 2020-09-11T09:52:54Z date_published: 2020-09-21T00:00:00Z date_updated: 2024-02-21T12:44:29Z day: '21' ddc: - '000' department: - _id: BeBi doi: 10.15479/AT:ISTA:8375 ec_funded: 1 file: - access_level: open_access checksum: 4029ffd65fb82ef2366b2fc2a4908e16 content_type: video/mp4 creator: rguseino date_created: 2020-09-11T09:45:21Z date_updated: 2020-09-11T09:45:21Z file_id: '8376' file_name: supplementary_movie_1.mp4 file_size: 29214988 relation: main_file success: 1 - access_level: open_access checksum: 8ed03b04d80f1a4e622cb22e6100afd8 content_type: video/mp4 creator: rguseino date_created: 2020-09-11T09:45:25Z date_updated: 2020-09-11T09:45:25Z file_id: '8377' file_name: supplementary_movie_2.mp4 file_size: 28449475 relation: main_file success: 1 - access_level: open_access checksum: ad6864afb5e694e5c52a88fba4e02eea content_type: video/mp4 creator: rguseino date_created: 2020-09-11T09:45:28Z date_updated: 2020-09-11T09:45:28Z file_id: '8378' file_name: supplementary_movie_3.mp4 file_size: 26315853 relation: main_file success: 1 - access_level: open_access checksum: b079cef7871fe1afb69af0e2b099f3b1 content_type: video/mp4 creator: rguseino date_created: 2020-09-11T09:45:33Z date_updated: 2020-09-11T09:45:33Z file_id: '8379' file_name: supplementary_movie_4.mp4 file_size: 25198755 relation: main_file success: 1 - access_level: open_access checksum: 9d1d48a8ed5c109a999c51b044ee523d content_type: video/mp4 creator: rguseino date_created: 2020-09-11T09:45:36Z date_updated: 2020-09-11T09:45:36Z file_id: '8380' file_name: supplementary_movie_5.mp4 file_size: 29011354 relation: main_file success: 1 - access_level: open_access checksum: d414d0059e982d752d218756b3c3ce05 content_type: text/plain creator: rguseino date_created: 2020-09-11T09:52:36Z date_updated: 2020-09-11T09:52:36Z file_id: '8381' file_name: readme.txt file_size: 586 relation: main_file success: 1 file_date_updated: 2020-09-11T09:52:36Z has_accepted_license: '1' month: '09' oa: 1 oa_version: Published Version project: - _id: 24F9549A-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '715767' name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling' publisher: Institute of Science and Technology Austria related_material: record: - id: '8366' relation: used_in_publication status: public status: public title: 'Supplementary data for "Computational design of curved thin shells: from glass façades to programmable matter"' tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '7689' abstract: - lang: eng text: "These are the supplementary research data to the publication \"Zero field splitting of heavy-hole states in quantum dots\". All matrix files have the same format. Within each column the bias voltage is changed. Each column corresponds to either a different gate voltage or magnetic field. The voltage values are given in mV, the current values in pA. Find a specific description in the included Readme file.\r\n" article_processing_charge: No author: - first_name: Georgios full_name: Katsaros, Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros orcid: 0000-0001-8342-202X citation: ama: Katsaros G. Supplementary data for “Zero field splitting of heavy-hole states in quantum dots.” 2020. doi:10.15479/AT:ISTA:7689 apa: Katsaros, G. (2020). Supplementary data for “Zero field splitting of heavy-hole states in quantum dots.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7689 chicago: Katsaros, Georgios. “Supplementary Data for ‘Zero Field Splitting of Heavy-Hole States in Quantum Dots.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7689. ieee: G. Katsaros, “Supplementary data for ‘Zero field splitting of heavy-hole states in quantum dots.’” Institute of Science and Technology Austria, 2020. ista: Katsaros G. 2020. Supplementary data for ‘Zero field splitting of heavy-hole states in quantum dots’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7689. mla: Katsaros, Georgios. Supplementary Data for “Zero Field Splitting of Heavy-Hole States in Quantum Dots.” Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7689. short: G. Katsaros, (2020). contributor: - contributor_type: contact_person first_name: Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros date_created: 2020-05-01T15:14:46Z date_published: 2020-05-01T00:00:00Z date_updated: 2024-02-21T12:44:02Z day: '01' ddc: - '530' department: - _id: GeKa doi: 10.15479/AT:ISTA:7689 ec_funded: 1 file: - access_level: open_access checksum: d23c0cb9e2d19e14e2f902b88b97c05d content_type: application/x-zip-compressed creator: gkatsaro date_created: 2020-05-01T15:13:28Z date_updated: 2020-07-14T12:48:02Z file_id: '7786' file_name: DOI_ZeroFieldSplitting.zip file_size: 5514403 relation: main_file file_date_updated: 2020-07-14T12:48:02Z has_accepted_license: '1' month: '05' oa: 1 oa_version: Published Version project: - _id: 237E5020-32DE-11EA-91FC-C7463DDC885E call_identifier: H2020 grant_number: '862046' name: TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS - _id: 237B3DA4-32DE-11EA-91FC-C7463DDC885E call_identifier: FWF grant_number: P32235 name: Towards scalable hut wire quantum devices publisher: Institute of Science and Technology Austria related_material: record: - id: '8203' relation: used_in_publication status: public status: public title: Supplementary data for "Zero field splitting of heavy-hole states in quantum dots" tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '8761' acknowledged_ssus: - _id: ScienComp article_processing_charge: No author: - first_name: Ruslan full_name: Guseinov, Ruslan id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87 last_name: Guseinov orcid: 0000-0001-9819-5077 citation: ama: Guseinov R. Supplementary data for “Computational design of cold bent glass façades.” 2020. doi:10.15479/AT:ISTA:8761 apa: Guseinov, R. (2020). Supplementary data for “Computational design of cold bent glass façades.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8761 chicago: Guseinov, Ruslan. “Supplementary Data for ‘Computational Design of Cold Bent Glass Façades.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8761. ieee: R. Guseinov, “Supplementary data for ‘Computational design of cold bent glass façades.’” Institute of Science and Technology Austria, 2020. ista: Guseinov R. 2020. Supplementary data for ‘Computational design of cold bent glass façades’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8761. mla: Guseinov, Ruslan. Supplementary Data for “Computational Design of Cold Bent Glass Façades.” Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8761. short: R. Guseinov, (2020). contributor: - contributor_type: researcher first_name: Konstantinos last_name: Gavriil - contributor_type: researcher first_name: Ruslan id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87 last_name: Guseinov orcid: 0000-0001-9819-5077 - contributor_type: researcher first_name: Jesus id: 2DC83906-F248-11E8-B48F-1D18A9856A87 last_name: Perez Rodriguez - contributor_type: researcher first_name: Davide last_name: Pellis - contributor_type: researcher first_name: Paul M id: 13C09E74-18D9-11E9-8878-32CFE5697425 last_name: Henderson orcid: 0000-0002-5198-7445 - contributor_type: researcher first_name: Florian last_name: Rist - contributor_type: researcher first_name: Helmut last_name: Pottmann - contributor_type: researcher first_name: Bernd id: 49876194-F248-11E8-B48F-1D18A9856A87 last_name: Bickel orcid: 0000-0001-6511-9385 date_created: 2020-11-16T10:47:18Z date_published: 2020-11-23T00:00:00Z date_updated: 2024-02-21T12:43:22Z day: '23' ddc: - '000' department: - _id: BeBi doi: 10.15479/AT:ISTA:8761 ec_funded: 1 file: - access_level: open_access checksum: f5ae57b97017b9f61081032703361233 content_type: application/x-gzip creator: rguseino date_created: 2020-11-16T10:31:29Z date_updated: 2020-11-16T10:31:29Z file_id: '8762' file_name: mdn_model.tar.gz file_size: 15378270 relation: main_file success: 1 - access_level: open_access checksum: b0d25e04060ee78c585ee2f23542c744 content_type: application/x-gzip creator: rguseino date_created: 2020-11-16T10:43:23Z date_updated: 2020-11-16T10:43:23Z file_id: '8763' file_name: optimal_panels_data.tar.gz file_size: 615387734 relation: main_file success: 1 - access_level: open_access checksum: 69c1dde3434ada86d125e0c2588caf1e content_type: text/plain creator: rguseino date_created: 2020-11-18T10:04:59Z date_updated: 2020-11-18T10:04:59Z file_id: '8770' file_name: readme.txt file_size: 1228 relation: main_file success: 1 file_date_updated: 2020-11-18T10:04:59Z has_accepted_license: '1' month: '11' oa: 1 oa_version: Published Version project: - _id: 24F9549A-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '715767' name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling' publisher: Institute of Science and Technology Austria related_material: link: - relation: software url: https://github.com/russelmann/cold-glass-acm record: - id: '8562' relation: used_in_publication status: public status: public title: Supplementary data for "Computational design of cold bent glass façades" tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '8563' abstract: - lang: eng text: "Supplementary data provided for the provided for the publication:\r\nIgor Gridchyn , Philipp Schoenenberger , Joseph O'Neill , Jozsef Csicsvari (2020) Optogenetic inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron connections during behavior. Elife." article_processing_charge: No author: - first_name: Jozsef L full_name: Csicsvari, Jozsef L id: 3FA14672-F248-11E8-B48F-1D18A9856A87 last_name: Csicsvari orcid: 0000-0002-5193-4036 - first_name: Igor full_name: Gridchyn, Igor id: 4B60654C-F248-11E8-B48F-1D18A9856A87 last_name: Gridchyn orcid: 0000-0002-1807-1929 - first_name: Philipp full_name: Schönenberger, Philipp id: 3B9D816C-F248-11E8-B48F-1D18A9856A87 last_name: Schönenberger citation: ama: Csicsvari JL, Gridchyn I, Schönenberger P. Optogenetic alteration of hippocampal network activity. 2020. doi:10.15479/AT:ISTA:8563 apa: Csicsvari, J. L., Gridchyn, I., & Schönenberger, P. (2020). Optogenetic alteration of hippocampal network activity. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8563 chicago: Csicsvari, Jozsef L, Igor Gridchyn, and Philipp Schönenberger. “Optogenetic Alteration of Hippocampal Network Activity.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8563. ieee: J. L. Csicsvari, I. Gridchyn, and P. Schönenberger, “Optogenetic alteration of hippocampal network activity.” Institute of Science and Technology Austria, 2020. ista: Csicsvari JL, Gridchyn I, Schönenberger P. 2020. Optogenetic alteration of hippocampal network activity, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8563. mla: Csicsvari, Jozsef L., et al. Optogenetic Alteration of Hippocampal Network Activity. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8563. short: J.L. Csicsvari, I. Gridchyn, P. Schönenberger, (2020). contributor: - contributor_type: project_leader first_name: Jozsef L id: 3FA14672-F248-11E8-B48F-1D18A9856A87 last_name: Csicsvari orcid: 0000-0002-5193-4036 date_created: 2020-09-23T14:39:54Z date_published: 2020-10-19T00:00:00Z date_updated: 2024-02-21T12:43:41Z day: '19' ddc: - '570' department: - _id: JoCs doi: 10.15479/AT:ISTA:8563 file: - access_level: open_access checksum: a16098a6d172f9c42ab5af5f6991668c content_type: application/x-compressed creator: jozsef date_created: 2020-09-23T14:36:17Z date_updated: 2020-09-23T14:36:17Z file_id: '8564' file_name: upload.tgz file_size: 145243906 relation: main_file success: 1 - access_level: open_access checksum: 0bfc54b7e14c0694cd081617318ba606 content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: jozsef date_created: 2020-10-19T10:12:29Z date_updated: 2020-10-19T10:12:29Z file_id: '8675' file_name: redme.docx file_size: 11648 relation: main_file success: 1 file_date_updated: 2020-10-19T10:12:29Z has_accepted_license: '1' month: '10' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '8740' relation: used_in_publication status: public status: public title: Optogenetic alteration of hippocampal network activity tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '14592' abstract: - lang: eng text: Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights into biological processes and structures within a native context. However, a major challenge still lies in the efficient and reproducible preparation of adherent cells for subsequent cryo-EM analysis. This is due to the sensitivity of many cellular specimens to the varying seeding and culturing conditions required for EM experiments, the often limited amount of cellular material and also the fragility of EM grids and their substrate. Here, we present low-cost and reusable 3D printed grid holders, designed to improve specimen preparation when culturing challenging cellular samples directly on grids. The described grid holders increase cell culture reproducibility and throughput, and reduce the resources required for cell culturing. We show that grid holders can be integrated into various cryo-EM workflows, including micro-patterning approaches to control cell seeding on grids, and for generating samples for cryo-focused ion beam milling and cryo-electron tomography experiments. Their adaptable design allows for the generation of specialized grid holders customized to a large variety of applications. article_processing_charge: No author: - first_name: Florian KM full_name: Schur, Florian KM id: 48AD8942-F248-11E8-B48F-1D18A9856A87 last_name: Schur orcid: 0000-0003-4790-8078 citation: ama: Schur FK. STL-files for 3D-printed grid holders described in  Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. 2020. doi:10.15479/AT:ISTA:14592 apa: Schur, F. K. (2020). STL-files for 3D-printed grid holders described in  Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:14592 chicago: Schur, Florian KM. “STL-Files for 3D-Printed Grid Holders Described in  Fäßler F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:14592. ieee: F. K. Schur, “STL-files for 3D-printed grid holders described in  Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy.” Institute of Science and Technology Austria, 2020. ista: Schur FK. 2020. STL-files for 3D-printed grid holders described in  Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy, Institute of Science and Technology Austria, 10.15479/AT:ISTA:14592. mla: Schur, Florian KM. STL-Files for 3D-Printed Grid Holders Described in  Fäßler F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:14592. short: F.K. Schur, (2020). contributor: - contributor_type: researcher first_name: Florian id: 404F5528-F248-11E8-B48F-1D18A9856A87 last_name: Fäßler orcid: 0000-0001-7149-769X - contributor_type: researcher first_name: Bettina id: 45FD126C-F248-11E8-B48F-1D18A9856A87 last_name: Zens - contributor_type: researcher first_name: Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild - contributor_type: researcher first_name: Florian KM id: 48AD8942-F248-11E8-B48F-1D18A9856A87 last_name: Schur orcid: 0000-0003-4790-8078 date_created: 2023-11-22T15:00:57Z date_published: 2020-12-01T00:00:00Z date_updated: 2024-02-21T12:44:48Z day: '01' ddc: - '570' department: - _id: FlSc doi: 10.15479/AT:ISTA:14592 file: - access_level: open_access checksum: 0108616e2a59e51879ea51299a29b091 content_type: application/zip creator: fschur date_created: 2023-11-22T14:58:44Z date_updated: 2023-11-22T14:58:44Z file_id: '14593' file_name: 3Dprint-files_download_v2.zip file_size: 49297 relation: main_file success: 1 - access_level: open_access checksum: 4c66ddedee4d01c1c4a7978208350cfc content_type: text/plain creator: cchlebak date_created: 2023-12-01T10:39:59Z date_updated: 2023-12-01T10:39:59Z file_id: '14637' file_name: readme.txt file_size: 641 relation: main_file success: 1 file_date_updated: 2023-12-01T10:39:59Z has_accepted_license: '1' month: '12' oa: 1 oa_version: Published Version project: - _id: 9B954C5C-BA93-11EA-9121-9846C619BF3A grant_number: P33367 name: Structure and isoform diversity of the Arp2/3 complex publisher: Institute of Science and Technology Austria related_material: record: - id: '8586' relation: research_data status: public status: public title: STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy tmp: image: /images/cc_by_nc_sa.png legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) short: CC BY-NC-SA (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2020' ... --- _id: '7016' abstract: - lang: eng text: Organisms cope with change by employing transcriptional regulators. However, when faced with rare environments, the evolution of transcriptional regulators and their promoters may be too slow. We ask whether the intrinsic instability of gene duplication and amplification provides a generic alternative to canonical gene regulation. By real-time monitoring of gene copy number mutations in E. coli, we show that gene duplications and amplifications enable adaptation to fluctuating environments by rapidly generating copy number, and hence expression level, polymorphism. This ‘amplification-mediated gene expression tuning’ occurs on timescales similar to canonical gene regulation and can deal with rapid environmental changes. Mathematical modeling shows that amplifications also tune gene expression in stochastic environments where transcription factor-based schemes are hard to evolve or maintain. The fleeting nature of gene amplifications gives rise to a generic population-level mechanism that relies on genetic heterogeneity to rapidly tune expression of any gene, without leaving any genomic signature. article_processing_charge: No author: - first_name: Isabella full_name: Tomanek, Isabella id: 3981F020-F248-11E8-B48F-1D18A9856A87 last_name: Tomanek orcid: 0000-0001-6197-363X citation: ama: Tomanek I. Data for the paper “Gene amplification as a form of population-level gene expression regulation.” 2019. doi:10.15479/AT:ISTA:7016 apa: Tomanek, I. (2019). Data for the paper “Gene amplification as a form of population-level gene expression regulation.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7016 chicago: Tomanek, Isabella. “Data for the Paper ‘Gene Amplification as a Form of Population-Level Gene Expression Regulation.’” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:7016. ieee: I. Tomanek, “Data for the paper ‘Gene amplification as a form of population-level gene expression regulation.’” Institute of Science and Technology Austria, 2019. ista: Tomanek I. 2019. Data for the paper ‘Gene amplification as a form of population-level gene expression regulation’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7016. mla: Tomanek, Isabella. Data for the Paper “Gene Amplification as a Form of Population-Level Gene Expression Regulation.” Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:7016. short: I. Tomanek, (2019). contributor: - contributor_type: project_leader first_name: Calin C id: 47F8433E-F248-11E8-B48F-1D18A9856A87 last_name: Guet orcid: 0000-0001-6220-2052 date_created: 2019-11-13T09:07:31Z date_published: 2019-11-13T00:00:00Z date_updated: 2024-02-21T12:45:25Z day: '13' ddc: - '576' department: - _id: CaGu doi: 10.15479/AT:ISTA:7016 file: - access_level: open_access checksum: 72441055043eda4cbf1398a422e2c118 content_type: application/octet-stream creator: itomanek date_created: 2019-11-13T08:52:21Z date_updated: 2020-07-14T12:47:47Z description: Illumina whole genome sequence data for Locus 1 - amplified. file_id: '7017' file_name: D8_S35_R2_001.fastq file_size: 2456192500 relation: main_file title: Locus1_amplified - access_level: open_access checksum: a4ac50bf655d9c751f0305ade5c2ee16 content_type: application/octet-stream creator: itomanek date_created: 2019-11-13T08:52:59Z date_updated: 2020-07-14T12:47:47Z description: Illumina whole genome sequence data for Locus 1 - ancestral. file_id: '7018' file_name: IT028_S11_R2_001.fastq file_size: 2833452234 relation: main_file title: Locus1_ancestral - access_level: open_access checksum: 5b227708ff478ca06e3f0448a4efdc2f content_type: application/octet-stream creator: itomanek date_created: 2019-11-13T08:54:10Z date_updated: 2020-07-14T12:47:47Z description: Illumina whole genome sequence data for Locus 1 - amplified, after DOG-selection. file_id: '7019' file_name: D8-DOG1_S47_R2_001.fastq file_size: 2878017264 relation: main_file title: Locus1_amplified_DOG - access_level: open_access checksum: d9550a4c044116075fa83f8f2ea31d6f content_type: application/octet-stream creator: itomanek date_created: 2019-11-13T08:54:27Z date_updated: 2020-07-14T12:47:47Z description: Illumina whole genome sequence data for Locus 2 - amplified. file_id: '7020' file_name: D4_S71_R2_001.fastq file_size: 2180826995 relation: main_file title: Locus2_amplified - access_level: open_access checksum: 466ceb302c020ac013007a879fcde69d content_type: application/octet-stream creator: itomanek date_created: 2019-11-13T08:55:58Z date_updated: 2020-07-14T12:47:47Z description: Illumina whole genome sequence data for Locus 2 - ancestral. file_id: '7021' file_name: IT030_S23_R2_001.fastq file_size: 2108826444 relation: main_file title: Locus2_ancestral - access_level: open_access checksum: 8aeb1da771713c7baa5a847eff889604 content_type: application/octet-stream creator: itomanek date_created: 2019-11-21T12:31:01Z date_updated: 2020-07-14T12:47:47Z description: Illumina whole genome sequence data for Locus 2 - amplified, after DOG-selection. file_id: '7092' file_name: D4-DOG1_S83_R2_001.fastq file_size: 3144330494 relation: main_file title: Locus2_amplified_DOG - access_level: open_access checksum: bf7d4b053f14af4655fb5574209fdb2d content_type: application/zip creator: itomanek date_created: 2020-01-14T11:22:27Z date_updated: 2020-07-14T12:47:47Z description: Compressed genbank file format containing the sequence of the chromosomal reporter gene cassette. file_id: '7273' file_name: galK_dual_reporter_cassette.gb.zip file_size: 4179 relation: main_file title: DNA sequence of the chromosomal reporter gene cassette - access_level: open_access checksum: 5e91cee2eff6f4a7cde456c6fb07c2ff content_type: text/plain creator: dernst date_created: 2020-01-15T14:15:55Z date_updated: 2020-07-14T12:47:47Z file_id: '7335' file_name: Readme_7016.txt file_size: 435 relation: main_file title: Read_me_sequence_data - access_level: open_access checksum: 5e6745dcfb9c1b11dd935ac3ee45fe33 content_type: application/zip creator: itomanek date_created: 2020-01-22T15:44:16Z date_updated: 2020-07-14T12:47:47Z description: FACS data associated with Fig. 2c - see read_me_FACS file_id: '7351' file_name: FACS_data.xlsx.zip file_size: 3765861 relation: main_file title: FACS data - access_level: open_access checksum: a85caf092ae4b17668f70af2d93fad00 content_type: text/rtf creator: itomanek date_created: 2020-01-22T15:44:16Z date_updated: 2020-07-14T12:47:47Z file_id: '7352' file_name: read_me_FACS.rtf file_size: 4996 relation: main_file - access_level: open_access checksum: fd8ba5d75d24e47ddf7e70bfdadb40d4 content_type: text/rtf creator: itomanek date_created: 2020-01-22T15:44:16Z date_updated: 2020-07-14T12:47:47Z file_id: '7353' file_name: read_me_microfluidics.rtf file_size: 868 relation: main_file - access_level: open_access checksum: 69c5dc5ca5c069a138183c934acc1778 content_type: application/zip creator: itomanek date_created: 2020-01-22T15:44:17Z date_updated: 2020-07-14T12:47:47Z description: microfluidics time trace data - see read_me_microfluidics file_id: '7354' file_name: microfuidics_data.zip file_size: 8141727 relation: main_file title: microfluidics data file_date_updated: 2020-07-14T12:47:47Z has_accepted_license: '1' keyword: - Escherichia coli - gene amplification - galactose - DOG - experimental evolution - Illumina sequence data - FACS data - microfluidics data month: '11' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '7652' relation: used_in_publication status: public status: public title: Data for the paper "Gene amplification as a form of population-level gene expression regulation" type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2019' ... --- _id: '7154' article_processing_charge: No author: - first_name: Ruslan full_name: Guseinov, Ruslan id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87 last_name: Guseinov orcid: 0000-0001-9819-5077 citation: ama: Guseinov R. Supplementary data for “Programming temporal morphing of self-actuated shells.” 2019. doi:10.15479/AT:ISTA:7154 apa: Guseinov, R. (2019). Supplementary data for “Programming temporal morphing of self-actuated shells.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7154 chicago: Guseinov, Ruslan. “Supplementary Data for ‘Programming Temporal Morphing of Self-Actuated Shells.’” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:7154. ieee: R. Guseinov, “Supplementary data for ‘Programming temporal morphing of self-actuated shells.’” Institute of Science and Technology Austria, 2019. ista: Guseinov R. 2019. Supplementary data for ‘Programming temporal morphing of self-actuated shells’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7154. mla: Guseinov, Ruslan. Supplementary Data for “Programming Temporal Morphing of Self-Actuated Shells.” Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:7154. short: R. Guseinov, (2019). contributor: - first_name: Ruslan id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87 last_name: Guseinov orcid: 0000-0001-9819-5077 - first_name: Connor last_name: McMahan - first_name: Jesus id: 2DC83906-F248-11E8-B48F-1D18A9856A87 last_name: Perez Rodriguez - first_name: Chiara last_name: Daraio - first_name: Bernd id: 49876194-F248-11E8-B48F-1D18A9856A87 last_name: Bickel orcid: 0000-0001-6511-9385 date_created: 2019-12-09T07:52:46Z date_published: 2019-12-06T00:00:00Z date_updated: 2024-02-21T12:45:03Z day: '06' ddc: - '000' department: - _id: BeBi doi: 10.15479/AT:ISTA:7154 ec_funded: 1 file: - access_level: open_access checksum: 155133e6e188e85b3c0676a5e70b9341 content_type: application/x-zip-compressed creator: dernst date_created: 2019-12-09T07:52:17Z date_updated: 2020-07-14T12:47:50Z file_id: '7155' file_name: temporal_morphing_supp_data.zip file_size: 65307107 relation: main_file file_date_updated: 2020-07-14T12:47:50Z has_accepted_license: '1' month: '12' oa: 1 oa_version: Published Version project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publisher: Institute of Science and Technology Austria related_material: record: - id: '8433' relation: used_in_publication status: deleted - id: '7262' relation: used_in_publication status: public status: public title: Supplementary data for "Programming temporal morphing of self-actuated shells" tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2019' ... --- _id: '6060' article_processing_charge: No author: - first_name: Beatriz full_name: Vicoso, Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 citation: ama: Vicoso B. Supplementary data for “Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome” (Huylman, Toups et al., 2019). . 2019. doi:10.15479/AT:ISTA:6060 apa: Vicoso, B. (2019). Supplementary data for “Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome” (Huylman, Toups et al., 2019). . Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6060 chicago: Vicoso, Beatriz. “Supplementary Data for ‘Sex-Biased Gene Expression and Dosage Compensation on the Artemia Franciscana Z-Chromosome’ (Huylman, Toups et Al., 2019). .” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6060. ieee: B. Vicoso, “Supplementary data for ‘Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome’ (Huylman, Toups et al., 2019). .” Institute of Science and Technology Austria, 2019. ista: Vicoso B. 2019. Supplementary data for ‘Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome’ (Huylman, Toups et al., 2019). , Institute of Science and Technology Austria, 10.15479/AT:ISTA:6060. mla: Vicoso, Beatriz. Supplementary Data for “Sex-Biased Gene Expression and Dosage Compensation on the Artemia Franciscana Z-Chromosome” (Huylman, Toups et Al., 2019). . Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6060. short: B. Vicoso, (2019). date_created: 2019-02-28T10:55:15Z date_published: 2019-02-28T00:00:00Z date_updated: 2024-02-21T12:45:42Z day: '28' department: - _id: BeVi doi: 10.15479/AT:ISTA:6060 file: - access_level: open_access checksum: a338a622d728af0e3199cb07e6dd64d3 content_type: application/zip creator: bvicoso date_created: 2019-02-28T10:54:27Z date_updated: 2020-07-14T12:47:17Z file_id: '6061' file_name: SupData.zip file_size: 36646050 relation: main_file file_date_updated: 2020-07-14T12:47:17Z has_accepted_license: '1' month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '6418' relation: research_paper status: public status: public title: 'Supplementary data for "Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome" (Huylman, Toups et al., 2019). ' type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2019' ... --- _id: '6074' abstract: - lang: eng text: "This dataset contains the supplementary data for the research paper \"Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition\".\r\n\r\nThe contained files have the following content:\r\n'Supplementary Figures.pdf'\r\n\tAdditional figures (as referenced in the paper).\r\n'Supplementary Table 1. Statistics.xlsx'\r\n\tDetails on statistical tests performed in the paper.\r\n'Supplementary Table 2. Differentially expressed gene analysis.xlsx'\r\n\tResults for the differential gene expression analysis for embryonic (E9.5; analysis with edgeR) and in vitro (ESCs, EBs, NPCs; analysis with DESeq2) samples.\r\n'Supplementary Table 3. Gene Ontology (GO) term enrichment analysis.xlsx'\r\n\tResults for the GO term enrichment analysis for differentially expressed genes in embryonic (GO E9.5) and in vitro (GO ESC, GO EBs, GO NPCs) samples. Differentially expressed genes for in vitro samples were split into upregulated and downregulated genes (up/down) and the analysis was performed on each subset (e.g. GO ESC up / GO ESC down).\r\n'Supplementary Table 4. Differentially expressed gene analysis for CFC samples.xlsx'\r\n\tResults for the differential gene expression analysis for samples from adult mice before (HC - Homecage) and 1h and 3h after contextual fear conditioning (1h and 3h, respectively). Each sheet shows the results for a different comparison. Sheets 1-3 show results for comparisons between timepoints for wild type (WT) samples only and sheets 4-6 for the same comparisons in mutant (Het) samples. Sheets 7-9 show results for comparisons between genotypes at each time point and sheet 10 contains the results for the analysis of differential expression trajectories between wild type and mutant.\r\n'Supplementary Table 5. Cluster identification.xlsx'\r\n\tResults for k-means clustering of genes by expression. Sheet 1 shows clustering of just the genes with significantly different expression trajectories between genotypes. Sheet 2 shows clustering of all genes that are significantly differentially expressed in any of the comparisons (includes also genes with same trajectories).\r\n'Supplementary Table 6. GO term cluster analysis.xlsx'\r\n\tResults for the GO term enrichment analysis and EWCE analysis for enrichment of cell type specific genes for each cluster identified by clustering genes with different expression trajectories (see Table S5, sheet 1).\r\n'Supplementary Table 7. Setd5 mass spectrometry results.xlsx'\r\n\tResults showing proteins interacting with Setd5 as identified by mass spectrometry. Sheet 1 shows protein protein interaction data generated from these results (combined with data from the STRING database. Sheet 2 shows the results of the statistical analysis with limma.\r\n'Supplementary Table 8. PolII ChIP-seq analysis.xlsx'\r\n\tResults for the Chip-Seq analysis for binding of RNA polymerase II (PolII). Sheet 1 shows results for differential binding of PolII at the transcription start site (TSS) between genotypes and sheets 2+3 show the corresponding GO enrichment analysis for these differentially bound genes. Sheet 4 shows RNAseq counts for genes with increased binding of PolII at the TSS." article_processing_charge: No author: - first_name: Christoph full_name: Dotter, Christoph id: 4C66542E-F248-11E8-B48F-1D18A9856A87 last_name: Dotter orcid: 0000-0002-9033-9096 - first_name: Gaia full_name: Novarino, Gaia id: 3E57A680-F248-11E8-B48F-1D18A9856A87 last_name: Novarino orcid: 0000-0002-7673-7178 citation: ama: Dotter C, Novarino G. Supplementary data for the research paper “Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition.” 2019. doi:10.15479/AT:ISTA:6074 apa: Dotter, C., & Novarino, G. (2019). Supplementary data for the research paper “Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6074 chicago: Dotter, Christoph, and Gaia Novarino. “Supplementary Data for the Research Paper ‘Haploinsufficiency of the Intellectual Disability Gene SETD5 Disturbs Developmental Gene Expression and Cognition.’” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6074. ieee: C. Dotter and G. Novarino, “Supplementary data for the research paper ‘Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition.’” Institute of Science and Technology Austria, 2019. ista: Dotter C, Novarino G. 2019. Supplementary data for the research paper ‘Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:6074. mla: Dotter, Christoph, and Gaia Novarino. Supplementary Data for the Research Paper “Haploinsufficiency of the Intellectual Disability Gene SETD5 Disturbs Developmental Gene Expression and Cognition.” Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6074. short: C. Dotter, G. Novarino, (2019). date_created: 2019-03-07T13:32:35Z date_published: 2019-01-09T00:00:00Z date_updated: 2024-02-21T13:41:01Z day: '09' ddc: - '570' department: - _id: GaNo doi: 10.15479/AT:ISTA:6074 file: - access_level: open_access checksum: bc1b285edca9e98a2c63d153c79bb75b content_type: application/zip creator: dernst date_created: 2019-03-07T13:37:19Z date_updated: 2020-07-14T12:47:18Z file_id: '6084' file_name: Setd5_paper.zip file_size: 33202743 relation: supplementary_material file_date_updated: 2020-07-14T12:47:18Z has_accepted_license: '1' month: '01' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '3' relation: research_paper status: public status: public title: Supplementary data for the research paper "Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition" type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2019' ... --- _id: '6062' abstract: - lang: eng text: Open the files in Jupyter Notebook (reccomended https://www.anaconda.com/distribution/#download-section with Python 3.7). article_processing_charge: No author: - first_name: Michele full_name: Nardin, Michele id: 30BD0376-F248-11E8-B48F-1D18A9856A87 last_name: Nardin orcid: 0000-0001-8849-6570 citation: ama: Nardin M. Supplementary Code and Data for the paper “The Entorhinal Cognitive Map is Attracted to Goals.” 2019. doi:10.15479/AT:ISTA:6062 apa: Nardin, M. (2019). Supplementary Code and Data for the paper “The Entorhinal Cognitive Map is Attracted to Goals.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6062 chicago: Nardin, Michele. “Supplementary Code and Data for the Paper ‘The Entorhinal Cognitive Map Is Attracted to Goals.’” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6062. ieee: M. Nardin, “Supplementary Code and Data for the paper ‘The Entorhinal Cognitive Map is Attracted to Goals.’” Institute of Science and Technology Austria, 2019. ista: Nardin M. 2019. Supplementary Code and Data for the paper ‘The Entorhinal Cognitive Map is Attracted to Goals’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:6062. mla: Nardin, Michele. Supplementary Code and Data for the Paper “The Entorhinal Cognitive Map Is Attracted to Goals.” Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6062. short: M. Nardin, (2019). date_created: 2019-03-04T14:20:58Z date_published: 2019-03-29T00:00:00Z date_updated: 2024-02-21T12:46:04Z day: '29' department: - _id: JoCs doi: 10.15479/AT:ISTA:6062 file: - access_level: open_access checksum: 48e7b9a02939b763417733239522a236 content_type: application/zip creator: mnardin date_created: 2019-03-05T09:29:37Z date_updated: 2020-07-14T12:47:18Z file_id: '6068' file_name: Online_data.zip file_size: 37002186 relation: main_file title: Data for the paper "The Entorhinal Cognitive Map is Attracted to Goals" file_date_updated: 2020-07-14T12:47:18Z has_accepted_license: '1' month: '03' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '6194' relation: research_paper status: public status: public title: Supplementary Code and Data for the paper "The Entorhinal Cognitive Map is Attracted to Goals" tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2019' ... --- _id: '5573' abstract: - lang: eng text: Graph matching problems for large displacement optical flow of RGB-D images. article_processing_charge: No author: - first_name: Hassan full_name: Alhaija, Hassan last_name: Alhaija - first_name: Anita full_name: Sellent, Anita last_name: Sellent - first_name: Daniel full_name: Kondermann, Daniel last_name: Kondermann - first_name: Carsten full_name: Rother, Carsten last_name: Rother citation: ama: Alhaija H, Sellent A, Kondermann D, Rother C. Graph matching problems for GraphFlow – 6D Large Displacement Scene Flow. 2018. doi:10.15479/AT:ISTA:82 apa: Alhaija, H., Sellent, A., Kondermann, D., & Rother, C. (2018). Graph matching problems for GraphFlow – 6D Large Displacement Scene Flow. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:82 chicago: Alhaija, Hassan, Anita Sellent, Daniel Kondermann, and Carsten Rother. “Graph Matching Problems for GraphFlow – 6D Large Displacement Scene Flow.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:82. ieee: H. Alhaija, A. Sellent, D. Kondermann, and C. Rother, “Graph matching problems for GraphFlow – 6D Large Displacement Scene Flow.” Institute of Science and Technology Austria, 2018. ista: Alhaija H, Sellent A, Kondermann D, Rother C. 2018. Graph matching problems for GraphFlow – 6D Large Displacement Scene Flow, Institute of Science and Technology Austria, 10.15479/AT:ISTA:82. mla: Alhaija, Hassan, et al. Graph Matching Problems for GraphFlow – 6D Large Displacement Scene Flow. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:82. short: H. Alhaija, A. Sellent, D. Kondermann, C. Rother, (2018). contributor: - contributor_type: researcher first_name: Paul id: 446560C6-F248-11E8-B48F-1D18A9856A87 last_name: Swoboda datarep_id: '82' date_created: 2018-12-12T12:31:36Z date_published: 2018-01-04T00:00:00Z date_updated: 2024-02-21T13:41:17Z day: '04' ddc: - '001' department: - _id: VlKo doi: 10.15479/AT:ISTA:82 file: - access_level: open_access checksum: 53c17082848e12f3c2e1b4185b578208 content_type: application/zip creator: system date_created: 2018-12-12T13:02:34Z date_updated: 2020-07-14T12:47:05Z file_id: '5600' file_name: IST-2018-82-v1+1_GraphFlowMatchingProblems.zip file_size: 1737958 relation: main_file file_date_updated: 2020-07-14T12:47:05Z has_accepted_license: '1' keyword: - graph matching - quadratic assignment problem< month: '01' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: link: - relation: research_paper url: https://doi.org/10.1007/978-3-319-24947-6_23 status: public title: Graph matching problems for GraphFlow – 6D Large Displacement Scene Flow tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5577' abstract: - lang: ger text: Data on Austrian open access publication output at Emerald from 2013-2017 including data analysis. article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. Emerald Austrian Publications 2013-2017. 2018. doi:10.15479/AT:ISTA:89 apa: Villányi, M. (2018). Emerald Austrian Publications 2013-2017. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:89 chicago: Villányi, Márton. “Emerald Austrian Publications 2013-2017.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:89. ieee: M. Villányi, “Emerald Austrian Publications 2013-2017.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. Emerald Austrian Publications 2013-2017, Institute of Science and Technology Austria, 10.15479/AT:ISTA:89. mla: Villányi, Márton. Emerald Austrian Publications 2013-2017. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:89. short: M. Villányi, (2018). datarep_id: '89' date_created: 2018-12-12T12:31:37Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:41:32Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:89 file: - access_level: open_access checksum: 786b599abfae6c355dee87835f414549 content_type: application/zip creator: system date_created: 2018-12-12T13:02:39Z date_updated: 2020-07-14T12:47:06Z file_id: '5604' file_name: IST-2018-89-v1+1_Emerald_Austrian_Publications_2013-2017.zip file_size: 222011 relation: main_file file_date_updated: 2020-07-14T12:47:06Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: Emerald Austrian Publications 2013-2017 tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5578' abstract: - lang: ger text: Data on Austrian open access publication output at IOP from 2012-2015 including data analysis. article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. IOP Austrian Publications 2012-2015. 2018. doi:10.15479/AT:ISTA:90 apa: Villányi, M. (2018). IOP Austrian Publications 2012-2015. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:90 chicago: Villányi, Márton. “IOP Austrian Publications 2012-2015.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:90. ieee: M. Villányi, “IOP Austrian Publications 2012-2015.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. IOP Austrian Publications 2012-2015, Institute of Science and Technology Austria, 10.15479/AT:ISTA:90. mla: Villányi, Márton. IOP Austrian Publications 2012-2015. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:90. short: M. Villányi, (2018). datarep_id: '90' date_created: 2018-12-12T12:31:38Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:42:36Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:90 file: - access_level: open_access checksum: a4f1bf041ccd4c35912e2d595b0c2883 content_type: application/zip creator: system date_created: 2018-12-12T13:03:06Z date_updated: 2020-07-14T12:47:06Z file_id: '5624' file_name: IST-2018-90-v1+1_IOP_Austrian_Publications_2012-2015.zip file_size: 237067 relation: main_file file_date_updated: 2020-07-14T12:47:06Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: IOP Austrian Publications 2012-2015 tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5574' abstract: - lang: ger text: 'Comparison of Scopus'' and publisher''s data on Austrian publication output at IOP. ' article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. Data Check IOP Scopus vs. Publisher. 2018. doi:10.15479/AT:ISTA:86 apa: Villányi, M. (2018). Data Check IOP Scopus vs. Publisher. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:86 chicago: Villányi, Márton. “Data Check IOP Scopus vs. Publisher.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:86. ieee: M. Villányi, “Data Check IOP Scopus vs. Publisher.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. Data Check IOP Scopus vs. Publisher, Institute of Science and Technology Austria, 10.15479/AT:ISTA:86. mla: Villányi, Márton. Data Check IOP Scopus vs. Publisher. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:86. short: M. Villányi, (2018). datarep_id: '86' date_created: 2018-12-12T12:31:37Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:42:21Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:86 file: - access_level: open_access checksum: c7a61147bd15cb4ae45878d270628c06 content_type: application/zip creator: system date_created: 2018-12-12T13:05:14Z date_updated: 2020-07-14T12:47:05Z file_id: '5642' file_name: IST-2018-86-v1+1_Data_Check_IOP_Scopus_vs._Publisher.zip file_size: 12283857 relation: main_file file_date_updated: 2020-07-14T12:47:05Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: Data Check IOP Scopus vs. Publisher tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5588' abstract: - lang: eng text: Script to perform a simple exponential lifetime fit of a ROI on time stacks acquired with a FLIM X16 TCSPC detector (+example data) article_processing_charge: No author: - first_name: Robert full_name: Hauschild, Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild orcid: 0000-0001-9843-3522 citation: ama: Hauschild R. Fluorescence lifetime analysis of FLIM X16 TCSPC data. 2018. doi:10.15479/AT:ISTA:0113 apa: Hauschild, R. (2018). Fluorescence lifetime analysis of FLIM X16 TCSPC data. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:0113 chicago: Hauschild, Robert. “Fluorescence Lifetime Analysis of FLIM X16 TCSPC Data.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:0113. ieee: R. Hauschild, “Fluorescence lifetime analysis of FLIM X16 TCSPC data.” Institute of Science and Technology Austria, 2018. ista: Hauschild R. 2018. Fluorescence lifetime analysis of FLIM X16 TCSPC data, Institute of Science and Technology Austria, 10.15479/AT:ISTA:0113. mla: Hauschild, Robert. Fluorescence Lifetime Analysis of FLIM X16 TCSPC Data. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:0113. short: R. Hauschild, (2018). datarep_id: '113' date_created: 2018-12-12T12:31:41Z date_published: 2018-11-07T00:00:00Z date_updated: 2024-02-21T13:44:21Z day: '07' ddc: - '570' department: - _id: Bio doi: 10.15479/AT:ISTA:0113 file: - access_level: open_access checksum: a4e160054c9114600624cf89a925fd7d content_type: application/x-zip-compressed creator: rhauschild date_created: 2019-04-11T18:15:01Z date_updated: 2020-07-14T12:47:08Z file_id: '6296' file_name: IST-2018-113-v1+1_FLIMX16TCSPCLifeTimeFit.zip file_size: 47866557 relation: main_file file_date_updated: 2020-07-14T12:47:08Z has_accepted_license: '1' keyword: - FLIM - FRET - fluorescence lifetime imaging month: '11' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: Fluorescence lifetime analysis of FLIM X16 TCSPC data tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5582' abstract: - lang: eng text: Data on Austrian open access publication output at Taylor&Francis from 2013-2017 including data analysis. article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. Taylor&Francis Austrian Publications 2013-2017. 2018. doi:10.15479/AT:ISTA:94 apa: Villányi, M. (2018). Taylor&Francis Austrian Publications 2013-2017. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:94 chicago: Villányi, Márton. “Taylor&Francis Austrian Publications 2013-2017.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:94. ieee: M. Villányi, “Taylor&Francis Austrian Publications 2013-2017.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. Taylor&Francis Austrian Publications 2013-2017, Institute of Science and Technology Austria, 10.15479/AT:ISTA:94. mla: Villányi, Márton. Taylor&Francis Austrian Publications 2013-2017. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:94. short: M. Villányi, (2018). datarep_id: '94' date_created: 2018-12-12T12:31:39Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:43:41Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:94 file: - access_level: open_access checksum: 3e000daf15d7eb9a47b234f3d20dd4b8 content_type: application/zip creator: system date_created: 2018-12-12T13:02:59Z date_updated: 2020-07-14T12:47:07Z file_id: '5617' file_name: IST-2018-94-v1+1_Taylor_Francis_Austrian_Publications_2013-2017.zip file_size: 2552326 relation: main_file file_date_updated: 2020-07-14T12:47:07Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: Taylor&Francis Austrian Publications 2013-2017 tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5581' abstract: - lang: ger text: Data on Austrian open access publication output at Springer from 2013-2016 including data analysis. article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. Springer Austrian Publications 2013-2016. 2018. doi:10.15479/AT:ISTA:93 apa: Villányi, M. (2018). Springer Austrian Publications 2013-2016. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:93 chicago: Villányi, Márton. “Springer Austrian Publications 2013-2016.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:93. ieee: M. Villányi, “Springer Austrian Publications 2013-2016.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. Springer Austrian Publications 2013-2016, Institute of Science and Technology Austria, 10.15479/AT:ISTA:93. mla: Villányi, Márton. Springer Austrian Publications 2013-2016. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:93. short: M. Villányi, (2018). datarep_id: '93' date_created: 2018-12-12T12:31:39Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:43:53Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:93 file: - access_level: open_access checksum: 7cc8274975162a99ea4681dc344b927d content_type: application/zip creator: system date_created: 2018-12-12T13:05:20Z date_updated: 2020-07-14T12:47:06Z file_id: '5646' file_name: IST-2018-93-v1+1_Springer_Austrian_Publications_2013-2016.zip file_size: 304018 relation: main_file file_date_updated: 2020-07-14T12:47:06Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: Springer Austrian Publications 2013-2016 tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5580' abstract: - lang: ger text: Data on Austrian open access publication output at SAGE from 2013-2017 including data analysis. article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. SAGE Austrian Publications 2013-2017. 2018. doi:10.15479/AT:ISTA:92 apa: Villányi, M. (2018). SAGE Austrian Publications 2013-2017. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:92 chicago: Villányi, Márton. “SAGE Austrian Publications 2013-2017.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:92. ieee: M. Villányi, “SAGE Austrian Publications 2013-2017.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. SAGE Austrian Publications 2013-2017, Institute of Science and Technology Austria, 10.15479/AT:ISTA:92. mla: Villányi, Márton. SAGE Austrian Publications 2013-2017. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:92. short: M. Villányi, (2018). datarep_id: '92' date_created: 2018-12-12T12:31:38Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:44:07Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:92 file: - access_level: open_access checksum: 1ed83efc33aab2fc5dbe5ffe95de5c2b content_type: application/zip creator: system date_created: 2018-12-12T13:03:01Z date_updated: 2020-07-14T12:47:06Z file_id: '5619' file_name: IST-2018-92-v1+1_SAGE_Austrian_Publications_2013-2017.zip file_size: 724017 relation: main_file file_date_updated: 2020-07-14T12:47:06Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: SAGE Austrian Publications 2013-2017 tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5579' abstract: - lang: eng text: Data on Austrian open access publication output at RSC from 2013-2017 including data analysis. article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. RSC Austrian Publications 2013-2017. 2018. doi:10.15479/AT:ISTA:91 apa: Villányi, M. (2018). RSC Austrian Publications 2013-2017. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:91 chicago: Villányi, Márton. “RSC Austrian Publications 2013-2017.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:91. ieee: M. Villányi, “RSC Austrian Publications 2013-2017.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. RSC Austrian Publications 2013-2017, Institute of Science and Technology Austria, 10.15479/AT:ISTA:91. mla: Villányi, Márton. RSC Austrian Publications 2013-2017. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:91. short: M. Villányi, (2018). datarep_id: '91' date_created: 2018-12-12T12:31:38Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:42:53Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:91 file: - access_level: open_access checksum: 2a73efc5f94f8deb00e2b08c3dff8547 content_type: application/zip creator: system date_created: 2018-12-12T13:02:40Z date_updated: 2020-07-14T12:47:06Z file_id: '5605' file_name: IST-2018-91-v1+1_RSC_Austrian__Publications_2013-2017.zip file_size: 791408 relation: main_file file_date_updated: 2020-07-14T12:47:06Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: RSC Austrian Publications 2013-2017 tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5576' abstract: - lang: ger text: Comparison of Scopus' and FWF's data on Austrian publication output at T&F. article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. Data Check T&F Scopus vs. FWF. 2018. doi:10.15479/AT:ISTA:88 apa: Villányi, M. (2018). Data Check T&F Scopus vs. FWF. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:88 chicago: Villányi, Márton. “Data Check T&F Scopus vs. FWF.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:88. ieee: M. Villányi, “Data Check T&F Scopus vs. FWF.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. Data Check T&F Scopus vs. FWF, Institute of Science and Technology Austria, 10.15479/AT:ISTA:88. mla: Villányi, Márton. Data Check T&F Scopus vs. FWF. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:88. short: M. Villányi, (2018). datarep_id: '88' date_created: 2018-12-12T12:31:37Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:43:10Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:88 file: - access_level: open_access checksum: a887246c2b41b98df90ccbc1d62b4487 content_type: application/zip creator: system date_created: 2018-12-12T13:02:32Z date_updated: 2020-07-14T12:47:05Z file_id: '5598' file_name: IST-2018-88-v1+1_Data_Check_T_F_Scopus_vs._FWF.zip file_size: 741195 relation: main_file file_date_updated: 2020-07-14T12:47:05Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: Data Check T&F Scopus vs. FWF tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5575' abstract: - lang: ger text: 'Comparison of Scopus'' and FWF''s data on Austrian publication output at RSC. ' article_processing_charge: No author: - first_name: Márton full_name: Villányi, Márton id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87 last_name: Villányi orcid: 0000-0001-8126-0426 citation: ama: Villányi M. Data Check RSC Scopus vs. FWF. 2018. doi:10.15479/AT:ISTA:87 apa: Villányi, M. (2018). Data Check RSC Scopus vs. FWF. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:87 chicago: Villányi, Márton. “Data Check RSC Scopus vs. FWF.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:87. ieee: M. Villányi, “Data Check RSC Scopus vs. FWF.” Institute of Science and Technology Austria, 2018. ista: Villányi M. 2018. Data Check RSC Scopus vs. FWF, Institute of Science and Technology Austria, 10.15479/AT:ISTA:87. mla: Villányi, Márton. Data Check RSC Scopus vs. FWF. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:87. short: M. Villányi, (2018). datarep_id: '87' date_created: 2018-12-12T12:31:37Z date_published: 2018-01-16T00:00:00Z date_updated: 2024-02-21T13:43:25Z day: '16' ddc: - '020' department: - _id: E-Lib doi: 10.15479/AT:ISTA:87 file: - access_level: open_access checksum: 563cc5266c0bac354007873c92be777b content_type: application/zip creator: system date_created: 2018-12-12T13:02:44Z date_updated: 2020-07-14T12:47:05Z file_id: '5610' file_name: IST-2018-87-v1+1_Data_Check_RSC_Scopus_vs._FWF.zip file_size: 277078 relation: main_file file_date_updated: 2020-07-14T12:47:05Z has_accepted_license: '1' keyword: - Publication analysis - Bibliography - Open Access month: '01' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '278' relation: part_of_dissertation status: public status: public title: Data Check RSC Scopus vs. FWF tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5584' abstract: - lang: eng text: "This package contains data for the publication \"Nonlinear decoding of a complex movie from the mammalian retina\" by Deny S. et al, PLOS Comput Biol (2018). \r\n\r\nThe data consists of\r\n(i) 91 spike sorted, isolated rat retinal ganglion cells that pass stability and quality criteria, recorded on the multi-electrode array, in response to the presentation of the complex movie with many randomly moving dark discs. The responses are represented as 648000 x 91 binary matrix, where the first index indicates the timebin of duration 12.5 ms, and the second index the neural identity. The matrix entry is 0/1 if the neuron didn't/did spike in the particular time bin.\r\n(ii) README file and a graphical illustration of the structure of the experiment, specifying how the 648000 timebins are split into epochs where 1, 2, 4, or 10 discs were displayed, and which stimulus segments are exact repeats or unique ball trajectories.\r\n(iii) a 648000 x 400 matrix of luminance traces for each of the 20 x 20 positions (\"sites\") in the movie frame, with time that is locked to the recorded raster. The luminance traces are produced as described in the manuscript by filtering the raw disc movie with a small gaussian spatial kernel. " article_processing_charge: No author: - first_name: Stephane full_name: Deny, Stephane last_name: Deny - first_name: Olivier full_name: Marre, Olivier last_name: Marre - first_name: Vicente full_name: Botella-Soler, Vicente last_name: Botella-Soler - first_name: Georg S full_name: Martius, Georg S id: 3A276B68-F248-11E8-B48F-1D18A9856A87 last_name: Martius - first_name: Gasper full_name: Tkacik, Gasper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkacik orcid: 0000-0002-6699-1455 citation: ama: Deny S, Marre O, Botella-Soler V, Martius GS, Tkačik G. Nonlinear decoding of a complex movie from the mammalian retina. 2018. doi:10.15479/AT:ISTA:98 apa: Deny, S., Marre, O., Botella-Soler, V., Martius, G. S., & Tkačik, G. (2018). Nonlinear decoding of a complex movie from the mammalian retina. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:98 chicago: Deny, Stephane, Olivier Marre, Vicente Botella-Soler, Georg S Martius, and Gašper Tkačik. “Nonlinear Decoding of a Complex Movie from the Mammalian Retina.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:98. ieee: S. Deny, O. Marre, V. Botella-Soler, G. S. Martius, and G. Tkačik, “Nonlinear decoding of a complex movie from the mammalian retina.” Institute of Science and Technology Austria, 2018. ista: Deny S, Marre O, Botella-Soler V, Martius GS, Tkačik G. 2018. Nonlinear decoding of a complex movie from the mammalian retina, Institute of Science and Technology Austria, 10.15479/AT:ISTA:98. mla: Deny, Stephane, et al. Nonlinear Decoding of a Complex Movie from the Mammalian Retina. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:98. short: S. Deny, O. Marre, V. Botella-Soler, G.S. Martius, G. Tkačik, (2018). datarep_id: '98' date_created: 2018-12-12T12:31:39Z date_published: 2018-03-29T00:00:00Z date_updated: 2024-02-21T13:45:26Z day: '29' ddc: - '570' department: - _id: ChLa - _id: GaTk doi: 10.15479/AT:ISTA:98 file: - access_level: open_access checksum: 6808748837b9afbbbabc2a356ca2b88a content_type: application/octet-stream creator: system date_created: 2018-12-12T13:02:24Z date_updated: 2020-07-14T12:47:07Z file_id: '5590' file_name: IST-2018-98-v1+1_BBalls_area2_tile2_20x20.mat file_size: 1142543971 relation: main_file - access_level: open_access checksum: d6d6cd07743038fe3a12352983fcf9dd content_type: application/pdf creator: system date_created: 2018-12-12T13:02:25Z date_updated: 2020-07-14T12:47:07Z file_id: '5591' file_name: IST-2018-98-v1+2_ExperimentStructure.pdf file_size: 702336 relation: main_file - access_level: open_access checksum: 0c9cfb4dab35bb3dc25a04395600b1c8 content_type: application/octet-stream creator: system date_created: 2018-12-12T13:02:26Z date_updated: 2020-07-14T12:47:07Z file_id: '5592' file_name: IST-2018-98-v1+3_GoodLocations_area2_20x20.mat file_size: 432 relation: main_file - access_level: open_access checksum: 2a83b011012e21e934b4596285b1a183 content_type: text/plain creator: system date_created: 2018-12-12T13:02:26Z date_updated: 2020-07-14T12:47:07Z file_id: '5593' file_name: IST-2018-98-v1+4_README.txt file_size: 986 relation: main_file file_date_updated: 2020-07-14T12:47:07Z has_accepted_license: '1' keyword: - retina - decoding - regression - neural networks - complex stimulus month: '03' oa: 1 oa_version: Published Version project: - _id: 254D1A94-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P 25651-N26 name: Sensitivity to higher-order statistics in natural scenes publisher: Institute of Science and Technology Austria related_material: record: - id: '292' relation: used_in_publication status: public status: public title: Nonlinear decoding of a complex movie from the mammalian retina tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5586' abstract: - lang: eng text: Input files and scripts from "Evolution of gene dosage on the Z-chromosome of schistosome parasites" by Picard M.A.L., et al (2018). article_processing_charge: No author: - first_name: Beatriz full_name: Vicoso, Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 citation: ama: Vicoso B. Input files and scripts from “Evolution of gene dosage on the Z-chromosome of schistosome parasites” by Picard M.A.L., et al (2018). 2018. doi:10.15479/AT:ISTA:109 apa: Vicoso, B. (2018). Input files and scripts from “Evolution of gene dosage on the Z-chromosome of schistosome parasites” by Picard M.A.L., et al (2018). Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:109 chicago: Vicoso, Beatriz. “Input Files and Scripts from ‘Evolution of Gene Dosage on the Z-Chromosome of Schistosome Parasites’ by Picard M.A.L., et Al (2018).” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:109. ieee: B. Vicoso, “Input files and scripts from ‘Evolution of gene dosage on the Z-chromosome of schistosome parasites’ by Picard M.A.L., et al (2018).” Institute of Science and Technology Austria, 2018. ista: Vicoso B. 2018. Input files and scripts from ‘Evolution of gene dosage on the Z-chromosome of schistosome parasites’ by Picard M.A.L., et al (2018), Institute of Science and Technology Austria, 10.15479/AT:ISTA:109. mla: Vicoso, Beatriz. Input Files and Scripts from “Evolution of Gene Dosage on the Z-Chromosome of Schistosome Parasites” by Picard M.A.L., et Al (2018). Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:109. short: B. Vicoso, (2018). contributor: - first_name: Marion A id: 2C921A7A-F248-11E8-B48F-1D18A9856A87 last_name: Picard orcid: 0000-0002-8101-2518 datarep_id: '109' date_created: 2018-12-12T12:31:40Z date_published: 2018-07-24T00:00:00Z date_updated: 2024-02-21T13:45:12Z day: '24' ddc: - '570' department: - _id: BeVi doi: 10.15479/AT:ISTA:109 file: - access_level: open_access checksum: e60b484bd6f55c08eb66a189cb72c923 content_type: application/zip creator: system date_created: 2018-12-12T13:02:35Z date_updated: 2020-07-14T12:47:08Z file_id: '5601' file_name: IST-2018-109-v1+1_SupplementaryMethods.zip file_size: 11918144 relation: main_file file_date_updated: 2020-07-14T12:47:08Z has_accepted_license: '1' keyword: - schistosoma - Z-chromosome - gene expression month: '07' oa: 1 oa_version: Published Version project: - _id: 250ED89C-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P28842-B22 name: Sex chromosome evolution under male- and female- heterogamety publisher: Institute of Science and Technology Austria related_material: record: - id: '131' relation: research_paper status: public status: public title: Input files and scripts from "Evolution of gene dosage on the Z-chromosome of schistosome parasites" by Picard M.A.L., et al (2018) tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5583' abstract: - lang: eng text: "Data and scripts are provided in support of the manuscript \"Efficient inference of paternity and sibship inference given known maternity via hierarchical clustering\", and the associated Python package FAPS, available from www.github.com/ellisztamas/faps.\r\n\r\nSimulation scripts cover:\r\n1. Performance under different mating scenarios.\r\n2. Comparison with Colony2.\r\n3. Effect of changing the number of Monte Carlo draws\r\n\r\nThe final script covers the analysis of half-sib arrays from wild-pollinated seed in an Antirrhinum majus hybrid zone." article_processing_charge: No author: - first_name: Thomas full_name: Ellis, Thomas id: 3153D6D4-F248-11E8-B48F-1D18A9856A87 last_name: Ellis orcid: 0000-0002-8511-0254 citation: ama: Ellis T. Data and Python scripts supporting Python package FAPS. 2018. doi:10.15479/AT:ISTA:95 apa: Ellis, T. (2018). Data and Python scripts supporting Python package FAPS. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:95 chicago: Ellis, Thomas. “Data and Python Scripts Supporting Python Package FAPS.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:95. ieee: T. Ellis, “Data and Python scripts supporting Python package FAPS.” Institute of Science and Technology Austria, 2018. ista: Ellis T. 2018. Data and Python scripts supporting Python package FAPS, Institute of Science and Technology Austria, 10.15479/AT:ISTA:95. mla: Ellis, Thomas. Data and Python Scripts Supporting Python Package FAPS. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:95. short: T. Ellis, (2018). contributor: - first_name: David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field - first_name: Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton datarep_id: '95' date_created: 2018-12-12T12:31:39Z date_published: 2018-02-12T00:00:00Z date_updated: 2024-02-21T13:45:01Z day: '12' department: - _id: NiBa doi: 10.15479/AT:ISTA:95 file: - access_level: open_access checksum: fc6aab51439f2622ba6df8632e66fd4f content_type: text/csv creator: system date_created: 2018-12-12T13:02:41Z date_updated: 2020-07-14T12:47:07Z file_id: '5606' file_name: IST-2018-95-v1+1_amajus_GPS_2012.csv file_size: 122048 relation: main_file - access_level: open_access checksum: 92347586ae4f8a6eb7c04354797bf314 content_type: text/csv creator: system date_created: 2018-12-12T13:02:42Z date_updated: 2020-07-14T12:47:07Z file_id: '5607' file_name: IST-2018-95-v1+2_offspring_SNPs_2012.csv file_size: 235980 relation: main_file - access_level: open_access checksum: 3300813645a54e6c5c39f41917228354 content_type: text/csv creator: system date_created: 2018-12-12T13:02:43Z date_updated: 2020-07-14T12:47:07Z file_id: '5608' file_name: IST-2018-95-v1+3_parents_SNPs_2012.csv file_size: 311712 relation: main_file - access_level: open_access checksum: e739fc473567fd8f39438b445fc46147 content_type: application/zip creator: system date_created: 2018-12-12T13:02:44Z date_updated: 2020-07-14T12:47:07Z file_id: '5609' file_name: IST-2018-95-v1+4_faps_scripts.zip file_size: 342090 relation: main_file file_date_updated: 2020-07-14T12:47:07Z has_accepted_license: '1' month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '286' relation: research_paper status: public status: public title: Data and Python scripts supporting Python package FAPS tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5569' abstract: - lang: eng text: "Nela Nikolic, Tobias Bergmiller, Alexandra Vandervelde, Tanino G. Albanese, Lendert Gelens, and Isabella Moll (2018)\r\n“Autoregulation of mazEF expression underlies growth heterogeneity in bacterial populations” Nucleic Acids Research, doi: 10.15479/AT:ISTA:74;\r\nmicroscopy experiments by Tobias Bergmiller; image and data analysis by Nela Nikolic." article_processing_charge: No author: - first_name: Tobias full_name: Bergmiller, Tobias id: 2C471CFA-F248-11E8-B48F-1D18A9856A87 last_name: Bergmiller orcid: 0000-0001-5396-4346 - first_name: Nela full_name: Nikolic, Nela id: 42D9CABC-F248-11E8-B48F-1D18A9856A87 last_name: Nikolic orcid: 0000-0001-9068-6090 citation: ama: Bergmiller T, Nikolic N. Time-lapse microscopy data. 2018. doi:10.15479/AT:ISTA:74 apa: Bergmiller, T., & Nikolic, N. (2018). Time-lapse microscopy data. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:74 chicago: Bergmiller, Tobias, and Nela Nikolic. “Time-Lapse Microscopy Data.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:74. ieee: T. Bergmiller and N. Nikolic, “Time-lapse microscopy data.” Institute of Science and Technology Austria, 2018. ista: Bergmiller T, Nikolic N. 2018. Time-lapse microscopy data, Institute of Science and Technology Austria, 10.15479/AT:ISTA:74. mla: Bergmiller, Tobias, and Nela Nikolic. Time-Lapse Microscopy Data. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:74. short: T. Bergmiller, N. Nikolic, (2018). datarep_id: '74' date_created: 2018-12-12T12:31:35Z date_published: 2018-02-07T00:00:00Z date_updated: 2024-02-21T13:44:45Z day: '07' ddc: - '579' department: - _id: CaGu doi: 10.15479/AT:ISTA:74 file: - access_level: open_access checksum: 61ebb92213cfffeba3ddbaff984b81af content_type: application/zip creator: system date_created: 2018-12-12T13:04:39Z date_updated: 2020-07-14T12:47:04Z file_id: '5637' file_name: IST-2018-74-v1+2_15-11-05.zip file_size: 3558703796 relation: main_file - access_level: open_access checksum: bf26649af310ef6892d68576515cde6d content_type: application/zip creator: system date_created: 2018-12-12T13:04:55Z date_updated: 2020-07-14T12:47:04Z file_id: '5638' file_name: IST-2018-74-v1+3_15-07-31.zip file_size: 1830422606 relation: main_file - access_level: open_access checksum: 8e46eedce06f22acb2be1a9b9d3f56bd content_type: application/zip creator: system date_created: 2018-12-12T13:05:11Z date_updated: 2020-07-14T12:47:04Z file_id: '5639' file_name: IST-2018-74-v1+4_Images_for_analysis.zip file_size: 2140849248 relation: main_file file_date_updated: 2020-07-14T12:47:04Z has_accepted_license: '1' keyword: - microscopy - microfluidics month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria publist_id: '7385' related_material: record: - id: '438' relation: research_paper status: public status: public title: Time-lapse microscopy data tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5587' abstract: - lang: eng text: "Supporting material to the article \r\nSTATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH\r\n\r\nboundscoli.dat\r\nFlux Bounds of the E. coli catabolic core model iAF1260 in a glucose limited minimal medium. \r\n\r\npolcoli.dat\r\nMatrix enconding the polytope of the E. coli catabolic core model iAF1260 in a glucose limited minimal medium, \r\nobtained from the soichiometric matrix by standard linear algebra (reduced row echelon form).\r\n\r\nellis.dat\r\nApproximate Lowner-John ellipsoid rounding the polytope of the E. coli catabolic core model iAF1260 in a glucose limited minimal medium\r\nobtained with the Lovasz method.\r\n\r\npoint0.dat\r\nCenter of the approximate Lowner-John ellipsoid rounding the polytope of the E. coli catabolic core model iAF1260 in a glucose limited minimal medium\r\nobtained with the Lovasz method.\r\n\r\nlovasz.cpp \r\nThis c++ code file receives in input the polytope of the feasible steady states of a metabolic network, \r\n(matrix and bounds), and it gives in output an approximate Lowner-John ellipsoid rounding the polytope\r\nwith the Lovasz method \r\nNB inputs are referred by defaults to the catabolic core of the E.Coli network iAF1260. \r\nFor further details we refer to PLoS ONE 10.4 e0122670 (2015).\r\n\r\nsampleHRnew.cpp \r\nThis c++ code file receives in input the polytope of the feasible steady states of a metabolic network, \r\n(matrix and bounds), the ellipsoid rounding the polytope, a point inside and \r\nit gives in output a max entropy sampling at fixed average growth rate \r\nof the steady states by performing an Hit-and-Run Monte Carlo Markov chain.\r\nNB inputs are referred by defaults to the catabolic core of the E.Coli network iAF1260. \r\nFor further details we refer to PLoS ONE 10.4 e0122670 (2015)." article_processing_charge: No author: - first_name: Daniele full_name: De Martino, Daniele id: 3FF5848A-F248-11E8-B48F-1D18A9856A87 last_name: De Martino orcid: 0000-0002-5214-4706 - first_name: Gasper full_name: Tkacik, Gasper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkacik orcid: 0000-0002-6699-1455 citation: ama: De Martino D, Tkačik G. Supporting materials “STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.” 2018. doi:10.15479/AT:ISTA:62 apa: De Martino, D., & Tkačik, G. (2018). Supporting materials “STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:62 chicago: De Martino, Daniele, and Gašper Tkačik. “Supporting Materials ‘STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.’” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:62. ieee: D. De Martino and G. Tkačik, “Supporting materials ‘STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.’” Institute of Science and Technology Austria, 2018. ista: De Martino D, Tkačik G. 2018. Supporting materials ‘STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:62. mla: De Martino, Daniele, and Gašper Tkačik. Supporting Materials “STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.” Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:62. short: D. De Martino, G. Tkačik, (2018). datarep_id: '111' date_created: 2018-12-12T12:31:41Z date_published: 2018-09-21T00:00:00Z date_updated: 2024-02-21T13:45:39Z day: '21' ddc: - '530' department: - _id: GaTk doi: 10.15479/AT:ISTA:62 ec_funded: 1 file: - access_level: open_access checksum: 97992e3e8cf8544ec985a48971708726 content_type: application/zip creator: system date_created: 2018-12-12T13:05:13Z date_updated: 2020-07-14T12:47:08Z file_id: '5641' file_name: IST-2018-111-v1+1_CODES.zip file_size: 14376 relation: main_file file_date_updated: 2020-07-14T12:47:08Z has_accepted_license: '1' keyword: - metabolic networks - e.coli core - maximum entropy - monte carlo markov chain sampling - ellipsoidal rounding month: '09' oa: 1 oa_version: Published Version project: - _id: 25681D80-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '291734' name: International IST Postdoc Fellowship Programme - _id: 254E9036-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P28844-B27 name: Biophysics of information processing in gene regulation publisher: Institute of Science and Technology Austria related_material: record: - id: '161' relation: research_paper status: public status: public title: Supporting materials "STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH" tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5757' abstract: - lang: eng text: "File S1. Variant Calling Format file of the ingroup: 197 haploid sequences of D. melanogaster from Zambia (Africa) aligned to the D. melanogaster 5.57 reference genome.\r\n\r\nFile S2. Variant Calling Format file of the outgroup: 1 haploid sequence of D. simulans aligned to the D. melanogaster 5.57 reference genome.\r\n\r\nFile S3. Annotations of each transcript in coding regions with SNPeff: Ps (# of synonymous polymorphic sites); Pn (# of non-synonymous polymorphic sites); Ds (# of synonymous divergent sites); Dn (# of non-synonymous divergent sites); DoS; ⍺ MK . All variants were included.\r\n\r\nFile S4. Annotations of each transcript in non-coding regions with SNPeff: Ps (# of synonymous polymorphic sites); Pu (# of UTR polymorphic sites); Ds (# of synonymous divergent sites); Du (# of UTR divergent sites); DoS; ⍺ MK . All variants were included.\r\n\r\nFile S5. Annotations of each transcript in coding regions with SNPGenie: Ps (# of synonymous polymorphic sites); πs (synonymous diversity); Ss_p (total # of synonymous sites in the polymorphism data); Pn (# of non-synonymous polymorphic sites); πn (non-synonymous diversity); Sn_p (total # of non-synonymous sites in the polymorphism data); Ds (# of synonymous divergent sites); ks (synonymous evolutionary rate); Ss_d (total # of synonymous sites in the divergence data); Dn (# of non-synonymous divergent sites); kn (non-synonymous evolutionary rate); Sn_d (total # of non-\r\nsynonymous sites in the divergence data); DoS; ⍺ MK . All variants were included.\r\n\r\nFile S6. Gene expression values (RPKM summed over all transcripts) for each sample. Values were quantile-normalized across all samples.\r\n\r\nFile S7. Final dataset with all covariates, ⍺ MK , ωA MK and DoS for coding sites, excluding variants below 5% frequency.\r\n\r\nFile S8. Final dataset with all covariates, ⍺ MK , ωA MK and DoS for non-coding sites, excluding variants below 5%\r\nfrequency.\r\n\r\nFile S9. Final dataset with all covariates, ⍺ EWK , ωA EWK and deleterious SFS for coding sites obtained with the Eyre-Walker and Keightley method on binned data and using all variants." article_processing_charge: No author: - first_name: Christelle full_name: Fraisse, Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse orcid: 0000-0001-8441-5075 citation: ama: Fraisse C. Supplementary Files for “Pleiotropy modulates the efficacy of selection in Drosophila melanogaster.” 2018. doi:10.15479/at:ista:/5757 apa: Fraisse, C. (2018). Supplementary Files for “Pleiotropy modulates the efficacy of selection in Drosophila melanogaster.” Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:/5757 chicago: Fraisse, Christelle. “Supplementary Files for ‘Pleiotropy Modulates the Efficacy of Selection in Drosophila Melanogaster.’” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/at:ista:/5757. ieee: C. Fraisse, “Supplementary Files for ‘Pleiotropy modulates the efficacy of selection in Drosophila melanogaster.’” Institute of Science and Technology Austria, 2018. ista: Fraisse C. 2018. Supplementary Files for ‘Pleiotropy modulates the efficacy of selection in Drosophila melanogaster’, Institute of Science and Technology Austria, 10.15479/at:ista:/5757. mla: Fraisse, Christelle. Supplementary Files for “Pleiotropy Modulates the Efficacy of Selection in Drosophila Melanogaster.” Institute of Science and Technology Austria, 2018, doi:10.15479/at:ista:/5757. short: C. Fraisse, (2018). contributor: - first_name: Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse - first_name: Gemma id: 33AB266C-F248-11E8-B48F-1D18A9856A87 last_name: Puixeu Sala - first_name: Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 date_created: 2018-12-19T14:22:35Z date_published: 2018-12-19T00:00:00Z date_updated: 2024-02-21T13:59:18Z day: '19' ddc: - '576' department: - _id: BeVi - _id: NiBa doi: 10.15479/at:ista:/5757 ec_funded: 1 file: - access_level: open_access checksum: aed7ee9ca3f4dc07d8a66945f68e13cd content_type: application/zip creator: cfraisse date_created: 2018-12-19T14:19:52Z date_updated: 2020-07-14T12:47:11Z file_id: '5758' file_name: FileS1.zip file_size: 369837892 relation: main_file - access_level: open_access checksum: 3592e467b4d8206650860b612d6e12f3 content_type: application/zip creator: cfraisse date_created: 2018-12-19T14:19:49Z date_updated: 2020-07-14T12:47:11Z file_id: '5759' file_name: FileS2.zip file_size: 84856909 relation: main_file - access_level: open_access checksum: c37ac5d5437c457338afc128c1240655 content_type: text/plain creator: cfraisse date_created: 2018-12-19T14:19:49Z date_updated: 2020-07-14T12:47:11Z file_id: '5760' file_name: FileS3.txt file_size: 881133 relation: main_file - access_level: open_access checksum: 943dfd14da61817441e33e3e3cb8cdb9 content_type: text/plain creator: cfraisse date_created: 2018-12-19T14:19:49Z date_updated: 2020-07-14T12:47:11Z file_id: '5761' file_name: FileS4.txt file_size: 883742 relation: main_file - access_level: open_access checksum: 1c669b6c4690ec1bbca3e2da9f566d17 content_type: text/plain creator: cfraisse date_created: 2018-12-19T14:19:49Z date_updated: 2020-07-14T12:47:11Z file_id: '5762' file_name: FileS5.txt file_size: 2495437 relation: main_file - access_level: open_access checksum: f40f661b987ca6fb6b47f650cbbb04e6 content_type: text/plain creator: cfraisse date_created: 2018-12-19T14:19:50Z date_updated: 2020-07-14T12:47:11Z file_id: '5763' file_name: FileS6.txt file_size: 15913457 relation: main_file - access_level: open_access checksum: 25f41e5b8a075669c6c88d4c6713bf6f content_type: text/plain creator: cfraisse date_created: 2018-12-19T14:19:50Z date_updated: 2020-07-14T12:47:11Z file_id: '5764' file_name: FileS7.txt file_size: 2584120 relation: main_file - access_level: open_access checksum: f6c0bd3e63e14ddf5445bd69b43a9152 content_type: text/plain creator: cfraisse date_created: 2018-12-19T14:19:50Z date_updated: 2020-07-14T12:47:11Z file_id: '5765' file_name: FileS8.txt file_size: 2446059 relation: main_file - access_level: open_access checksum: 0fe7a58a030b11bf3b9c8ff7a7addcae content_type: text/plain creator: cfraisse date_created: 2018-12-19T14:19:50Z date_updated: 2020-07-14T12:47:11Z file_id: '5766' file_name: FileS9.txt file_size: 100737 relation: main_file file_date_updated: 2020-07-14T12:47:11Z has_accepted_license: '1' keyword: - (mal)adaptation - pleiotropy - selective constraint - evo-devo - gene expression - Drosophila melanogaster month: '12' oa: 1 oa_version: Published Version project: - _id: 25681D80-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '291734' name: International IST Postdoc Fellowship Programme publisher: Institute of Science and Technology Austria related_material: record: - id: '6089' relation: research_paper status: public status: public title: Supplementary Files for "Pleiotropy modulates the efficacy of selection in Drosophila melanogaster" type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5585' abstract: - lang: eng text: Mean repression values and standard error of the mean are given for all operator mutant libraries. article_processing_charge: No author: - first_name: Claudia full_name: Igler, Claudia id: 46613666-F248-11E8-B48F-1D18A9856A87 last_name: Igler - first_name: Mato full_name: Lagator, Mato id: 345D25EC-F248-11E8-B48F-1D18A9856A87 last_name: Lagator - first_name: Gasper full_name: Tkacik, Gasper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkacik orcid: 0000-0002-6699-1455 - first_name: Jonathan P full_name: Bollback, Jonathan P id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87 last_name: Bollback orcid: 0000-0002-4624-4612 - first_name: Calin C full_name: Guet, Calin C id: 47F8433E-F248-11E8-B48F-1D18A9856A87 last_name: Guet orcid: 0000-0001-6220-2052 citation: ama: Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring. 2018. doi:10.15479/AT:ISTA:108 apa: Igler, C., Lagator, M., Tkačik, G., Bollback, J. P., & Guet, C. C. (2018). Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:108 chicago: Igler, Claudia, Mato Lagator, Gašper Tkačik, Jonathan P Bollback, and Calin C Guet. “Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring.” Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:108. ieee: C. Igler, M. Lagator, G. Tkačik, J. P. Bollback, and C. C. Guet, “Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring.” Institute of Science and Technology Austria, 2018. ista: Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring, Institute of Science and Technology Austria, 10.15479/AT:ISTA:108. mla: Igler, Claudia, et al. Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:108. short: C. Igler, M. Lagator, G. Tkačik, J.P. Bollback, C.C. Guet, (2018). datarep_id: '108' date_created: 2018-12-12T12:31:40Z date_published: 2018-07-20T00:00:00Z date_updated: 2024-03-27T23:30:48Z day: '20' ddc: - '576' department: - _id: CaGu - _id: GaTk doi: 10.15479/AT:ISTA:108 ec_funded: 1 file: - access_level: open_access checksum: 1435781526c77413802adee0d4583cce content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet creator: system date_created: 2018-12-12T13:02:45Z date_updated: 2020-07-14T12:47:07Z file_id: '5611' file_name: IST-2018-108-v1+1_data_figures.xlsx file_size: 16507 relation: main_file file_date_updated: 2020-07-14T12:47:07Z has_accepted_license: '1' month: '07' oa: 1 oa_version: Published Version project: - _id: 25681D80-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '291734' name: International IST Postdoc Fellowship Programme - _id: 2578D616-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '648440' name: Selective Barriers to Horizontal Gene Transfer - _id: 251EE76E-B435-11E9-9278-68D0E5697425 grant_number: '24573' name: Design principles underlying genetic switch architecture (DOC Fellowship) publisher: Institute of Science and Technology Austria related_material: record: - id: '67' relation: research_paper status: public - id: '6371' relation: research_paper status: public status: public title: Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2018' ... --- _id: '5562' abstract: - lang: eng text: "This data was collected as part of the study [1]. It consists of preprocessed multi-electrode array recording from 160 salamander retinal ganglion cells responding to 297 repeats of a 19 s natural movie. The data is available in two formats: (1) a .mat file containing an array with dimensions “number of repeats” x “number of neurons” x “time in a repeat”; (2) a zipped .txt file containing the same data represented as an array with dimensions “number of neurons” x “number of samples”, where the number of samples is equal to the product of the number of repeats and timebins within a repeat. The time dimension is divided into 20 ms time windows, and the array is binary indicating whether a given cell elicited at least one spike in a given time window during a particular repeat. See the reference below for details regarding collection and preprocessing:\r\n\r\n[1] Tkačik G, Marre O, Amodei D, Schneidman E, Bialek W, Berry MJ II. Searching for Collective Behavior in a Large Network of Sensory Neurons. PLoS Comput Biol. 2014;10(1):e1003408." article_processing_charge: No author: - first_name: Olivier full_name: Marre, Olivier last_name: Marre - first_name: Gasper full_name: Tkacik, Gasper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkacik orcid: 0000-0002-6699-1455 - first_name: Dario full_name: Amodei, Dario last_name: Amodei - first_name: Elad full_name: Schneidman, Elad last_name: Schneidman - first_name: William full_name: Bialek, William last_name: Bialek - first_name: Michael full_name: Berry, Michael last_name: Berry citation: ama: Marre O, Tkačik G, Amodei D, Schneidman E, Bialek W, Berry M. Multi-electrode array recording from salamander retinal ganglion cells. 2017. doi:10.15479/AT:ISTA:61 apa: Marre, O., Tkačik, G., Amodei, D., Schneidman, E., Bialek, W., & Berry, M. (2017). Multi-electrode array recording from salamander retinal ganglion cells. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:61 chicago: Marre, Olivier, Gašper Tkačik, Dario Amodei, Elad Schneidman, William Bialek, and Michael Berry. “Multi-Electrode Array Recording from Salamander Retinal Ganglion Cells.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:61. ieee: O. Marre, G. Tkačik, D. Amodei, E. Schneidman, W. Bialek, and M. Berry, “Multi-electrode array recording from salamander retinal ganglion cells.” Institute of Science and Technology Austria, 2017. ista: Marre O, Tkačik G, Amodei D, Schneidman E, Bialek W, Berry M. 2017. Multi-electrode array recording from salamander retinal ganglion cells, Institute of Science and Technology Austria, 10.15479/AT:ISTA:61. mla: Marre, Olivier, et al. Multi-Electrode Array Recording from Salamander Retinal Ganglion Cells. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:61. short: O. Marre, G. Tkačik, D. Amodei, E. Schneidman, W. Bialek, M. Berry, (2017). datarep_id: '61' date_created: 2018-12-12T12:31:33Z date_published: 2017-02-27T00:00:00Z date_updated: 2024-02-21T13:46:14Z day: '27' ddc: - '570' department: - _id: GaTk doi: 10.15479/AT:ISTA:61 file: - access_level: open_access checksum: e620eff260646f57b479a69492c8b765 content_type: application/octet-stream creator: system date_created: 2018-12-12T13:03:04Z date_updated: 2020-07-14T12:47:03Z file_id: '5622' file_name: IST-2017-61-v1+1_bint_fishmovie32_100.mat file_size: 1336936 relation: main_file - access_level: open_access checksum: de83f9b81ea0aae3cddfc3ed982e0759 content_type: application/zip creator: system date_created: 2018-12-12T13:03:05Z date_updated: 2020-07-14T12:47:03Z file_id: '5623' file_name: IST-2017-61-v1+2_bint_fishmovie32_100.zip file_size: 1897543 relation: main_file file_date_updated: 2020-07-14T12:47:03Z has_accepted_license: '1' keyword: - multi-electrode recording - retinal ganglion cells month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '2257' relation: research_paper status: public status: public title: Multi-electrode array recording from salamander retinal ganglion cells tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5561' abstract: - lang: eng text: 'Graph matching problems as described in "Active Graph Matching for Automatic Joint Segmentation and Annotation of C. Elegans." by Kainmueller, Dagmar and Jug, Florian and Rother, Carsten and Myers, Gene, MICCAI 2014. Problems are in OpenGM2 hdf5 format (see http://hciweb2.iwr.uni-heidelberg.de/opengm/) and a custom text format used by the feature matching solver described in "Feature Correspondence via Graph Matching: Models and Global Optimization." by Lorenzo Torresani, Vladimir Kolmogorov and Carsten Rother, ECCV 2008, code at http://pub.ist.ac.at/~vnk/software/GraphMatching-v1.02.src.zip. ' acknowledgement: We thank Vladimir Kolmogorov and Stephan Saalfeld forinspiring discussions. article_processing_charge: No author: - first_name: Dagmar full_name: Kainmueller, Dagmar last_name: Kainmueller - first_name: Florian full_name: Jug, Florian last_name: Jug - first_name: Carsten full_name: Rother, Carsten last_name: Rother - first_name: Gene full_name: Meyers, Gene last_name: Meyers citation: ama: Kainmueller D, Jug F, Rother C, Meyers G. Graph matching problems for annotating C. Elegans. 2017. doi:10.15479/AT:ISTA:57 apa: Kainmueller, D., Jug, F., Rother, C., & Meyers, G. (2017). Graph matching problems for annotating C. Elegans. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:57 chicago: Kainmueller, Dagmar, Florian Jug, Carsten Rother, and Gene Meyers. “Graph Matching Problems for Annotating C. Elegans.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:57. ieee: D. Kainmueller, F. Jug, C. Rother, and G. Meyers, “Graph matching problems for annotating C. Elegans.” Institute of Science and Technology Austria, 2017. ista: Kainmueller D, Jug F, Rother C, Meyers G. 2017. Graph matching problems for annotating C. Elegans, Institute of Science and Technology Austria, 10.15479/AT:ISTA:57. mla: Kainmueller, Dagmar, et al. Graph Matching Problems for Annotating C. Elegans. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:57. short: D. Kainmueller, F. Jug, C. Rother, G. Meyers, (2017). datarep_id: '57' date_created: 2018-12-12T12:31:32Z date_published: 2017-02-13T00:00:00Z date_updated: 2024-02-21T13:46:31Z day: '13' ddc: - '000' department: - _id: VlKo doi: 10.15479/AT:ISTA:57 file: - access_level: open_access checksum: 3dc3e1306a66028a34181ebef2923139 content_type: application/zip creator: system date_created: 2018-12-12T13:02:54Z date_updated: 2020-07-14T12:47:03Z file_id: '5614' file_name: IST-2017-57-v1+1_wormMatchingProblems.zip file_size: 327042819 relation: main_file file_date_updated: 2020-07-14T12:47:03Z has_accepted_license: '1' keyword: - graph matching - feature matching - QAP - MAP-inference month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: Graph matching problems for annotating C. Elegans tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5563' abstract: - lang: eng text: "MATLAB code and processed datasets available for reproducing the results in: \r\nLukačišin, M.*, Landon, M.*, Jajoo, R*. (2016) Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.\r\n*equal contributions" article_processing_charge: No author: - first_name: Martin full_name: Lukacisin, Martin id: 298FFE8C-F248-11E8-B48F-1D18A9856A87 last_name: Lukacisin orcid: 0000-0001-6549-4177 citation: ama: Lukacisin M. MATLAB analysis code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” 2017. doi:10.15479/AT:ISTA:64 apa: Lukacisin, M. (2017). MATLAB analysis code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:64 chicago: Lukacisin, Martin. “MATLAB Analysis Code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.’” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:64. ieee: M. Lukacisin, “MATLAB analysis code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.’” Institute of Science and Technology Austria, 2017. ista: Lukacisin M. 2017. MATLAB analysis code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:64. mla: Lukacisin, Martin. MATLAB Analysis Code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:64. short: M. Lukacisin, (2017). datarep_id: '64' date_created: 2018-12-12T12:31:33Z date_published: 2017-03-20T00:00:00Z date_updated: 2024-02-21T13:46:47Z day: '20' ddc: - '571' department: - _id: ToBo doi: 10.15479/AT:ISTA:64 file: - access_level: open_access checksum: ee697f2b1ade4dc14d6ac0334dd832ab content_type: application/zip creator: system date_created: 2018-12-12T13:02:37Z date_updated: 2020-07-14T12:47:03Z file_id: '5602' file_name: IST-2016-45-v1+1_PaperCode.zip file_size: 296722548 relation: main_file file_date_updated: 2020-07-14T12:47:03Z has_accepted_license: '1' month: '03' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: MATLAB analysis code for 'Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast' tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5564' abstract: - lang: eng text: Compressed Fastq files with whole-genome sequencing data of IS-wt strain D and clones from four evolved populations (A11, C08, C10, D08). Information on this data collection is available in the Methods Section of the primary publication. article_processing_charge: No author: - first_name: Magdalena full_name: Steinrück, Magdalena id: 2C023F40-F248-11E8-B48F-1D18A9856A87 last_name: Steinrück orcid: 0000-0003-1229-9719 - first_name: Calin C full_name: Guet, Calin C id: 47F8433E-F248-11E8-B48F-1D18A9856A87 last_name: Guet orcid: 0000-0001-6220-2052 citation: ama: Steinrück M, Guet CC. Fastq files for “Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection.” 2017. doi:10.15479/AT:ISTA:65 apa: Steinrück, M., & Guet, C. C. (2017). Fastq files for “Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:65 chicago: Steinrück, Magdalena, and Calin C Guet. “Fastq Files for ‘Complex Chromosomal Neighborhood Effects Determine the Adaptive Potential of a Gene under Selection.’” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:65. ieee: M. Steinrück and C. C. Guet, “Fastq files for ‘Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection.’” Institute of Science and Technology Austria, 2017. ista: Steinrück M, Guet CC. 2017. Fastq files for ‘Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:65. mla: Steinrück, Magdalena, and Calin C. Guet. Fastq Files for “Complex Chromosomal Neighborhood Effects Determine the Adaptive Potential of a Gene under Selection.” Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:65. short: M. Steinrück, C.C. Guet, (2017). datarep_id: '65' date_created: 2018-12-12T12:31:33Z date_published: 2017-04-11T00:00:00Z date_updated: 2024-02-21T13:47:28Z day: '11' ddc: - '576' department: - _id: CaGu doi: 10.15479/AT:ISTA:65 file: - access_level: open_access checksum: 31a0c01d022721073241a23d192cc37e content_type: application/zip creator: system date_created: 2018-12-12T13:03:18Z date_updated: 2020-07-14T12:47:03Z file_id: '5627' file_name: IST-2017-65-v1+1_D_anc_1.fastq.zip file_size: 1225959109 relation: main_file - access_level: open_access checksum: d8f26f83ce7e7e45436121f9c6cd9b83 content_type: application/zip creator: system date_created: 2018-12-12T13:03:30Z date_updated: 2020-07-14T12:47:03Z file_id: '5628' file_name: IST-2017-65-v1+1_D_anc_2.fastq.zip file_size: 1422656107 relation: main_file - access_level: open_access checksum: e07b99bcfe55b5f132ca03b8b48c8cbc content_type: application/zip creator: system date_created: 2018-12-12T13:03:33Z date_updated: 2020-07-14T12:47:03Z file_id: '5629' file_name: IST-2017-65-v1+2_D_A11_1.fastq.zip file_size: 565014975 relation: main_file - access_level: open_access checksum: eda86143d5f32d844b54f8530041e32b content_type: application/zip creator: system date_created: 2018-12-12T13:03:42Z date_updated: 2020-07-14T12:47:03Z file_id: '5630' file_name: IST-2017-65-v1+3_D_A11_2.fastq.zip file_size: 564490030 relation: main_file - access_level: open_access checksum: 906d44f950c1626d9b99f34fbf89cb12 content_type: application/zip creator: system date_created: 2018-12-12T13:03:46Z date_updated: 2020-07-14T12:47:03Z file_id: '5631' file_name: IST-2017-65-v1+4_D_C10_1.fastq.zip file_size: 875430169 relation: main_file - access_level: open_access checksum: 6ca14a032a79e0c787106bdf635725c9 content_type: application/zip creator: system date_created: 2018-12-12T13:03:54Z date_updated: 2020-07-14T12:47:03Z file_id: '5632' file_name: IST-2017-65-v1+6_D_C08_2.fastq.zip file_size: 638298201 relation: main_file - access_level: open_access checksum: 66ab16ddb5ba64b2e263ef746ebf2893 content_type: application/zip creator: system date_created: 2018-12-12T13:04:01Z date_updated: 2020-07-14T12:47:03Z file_id: '5633' file_name: IST-2017-65-v1+5_D_C10_2.fastq.zip file_size: 894702866 relation: main_file - access_level: open_access checksum: 82607970174f8d37773b7d3acc712195 content_type: application/zip creator: system date_created: 2018-12-12T13:04:07Z date_updated: 2020-07-14T12:47:03Z file_id: '5634' file_name: IST-2017-65-v1+7_D_C08_1.fastq.zip file_size: 623648989 relation: main_file - access_level: open_access checksum: 225c30b243268c7dda9d6f8327933252 content_type: application/zip creator: system date_created: 2018-12-12T13:04:11Z date_updated: 2020-07-14T12:47:03Z file_id: '5635' file_name: IST-2017-65-v1+8_D_D08_1.fastq.zip file_size: 259359583 relation: main_file file_date_updated: 2020-07-14T12:47:03Z has_accepted_license: '1' month: '04' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '704' relation: research_paper status: public status: public title: Fastq files for "Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection" tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5568' abstract: - lang: eng text: Includes source codes, test cases, and example data used in the thesis Brittle Fracture Simulation with Boundary Elements for Computer Graphics. Also includes pre-built binaries of the HyENA library, but not sources - please contact the HyENA authors to obtain these sources if required (https://mech.tugraz.at/hyena) article_processing_charge: No author: - first_name: David full_name: Hahn, David id: 357A6A66-F248-11E8-B48F-1D18A9856A87 last_name: Hahn citation: ama: 'Hahn D. Source codes: Brittle fracture simulation with boundary elements for computer graphics. 2017. doi:10.15479/AT:ISTA:73' apa: 'Hahn, D. (2017). Source codes: Brittle fracture simulation with boundary elements for computer graphics. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:73' chicago: 'Hahn, David. “Source Codes: Brittle Fracture Simulation with Boundary Elements for Computer Graphics.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:73.' ieee: 'D. Hahn, “Source codes: Brittle fracture simulation with boundary elements for computer graphics.” Institute of Science and Technology Austria, 2017.' ista: 'Hahn D. 2017. Source codes: Brittle fracture simulation with boundary elements for computer graphics, Institute of Science and Technology Austria, 10.15479/AT:ISTA:73.' mla: 'Hahn, David. Source Codes: Brittle Fracture Simulation with Boundary Elements for Computer Graphics. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:73.' short: D. Hahn, (2017). datarep_id: '73' date_created: 2018-12-12T12:31:35Z date_published: 2017-08-16T00:00:00Z date_updated: 2024-02-21T13:48:02Z day: '16' ddc: - '004' department: - _id: ChWo doi: 10.15479/AT:ISTA:73 ec_funded: 1 file: - access_level: open_access checksum: 2323a755842a3399cbc47d76545fc9a0 content_type: application/zip creator: system date_created: 2018-12-12T13:02:57Z date_updated: 2020-07-14T12:47:04Z file_id: '5615' file_name: IST-2017-73-v1+1_FractureRB_v1.1_2017_07_20_final_public.zip file_size: 199353471 relation: main_file file_date_updated: 2020-07-14T12:47:04Z has_accepted_license: '1' keyword: - Boundary elements - brittle fracture - computer graphics - fracture simulation month: '08' oa: 1 oa_version: Published Version project: - _id: 2533E772-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '638176' name: Efficient Simulation of Natural Phenomena at Extremely Large Scales publisher: Institute of Science and Technology Austria related_material: record: - id: '839' relation: research_paper status: public status: public title: 'Source codes: Brittle fracture simulation with boundary elements for computer graphics' tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '7163' abstract: - lang: eng text: The de novo genome assemblies generated for this study, and the associated metadata. article_processing_charge: No author: - first_name: Christelle full_name: Fraisse, Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse orcid: 0000-0001-8441-5075 citation: ama: Fraisse C. Supplementary Files for “The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.” 2017. doi:10.15479/AT:ISTA:7163 apa: Fraisse, C. (2017). Supplementary Files for “The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7163 chicago: Fraisse, Christelle. “Supplementary Files for ‘The Deep Conservation of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.’” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:7163. ieee: C. Fraisse, “Supplementary Files for ‘The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.’” Institute of Science and Technology Austria, 2017. ista: Fraisse C. 2017. Supplementary Files for ‘The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7163. mla: Fraisse, Christelle. Supplementary Files for “The Deep Conservation of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.” Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:7163. short: C. Fraisse, (2017). contributor: - first_name: Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse orcid: 0000-0001-8441-5075 - first_name: Marion A L id: 2C921A7A-F248-11E8-B48F-1D18A9856A87 last_name: Picard orcid: 0000-0002-8101-2518 - first_name: Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 date_created: 2019-12-09T23:03:03Z date_published: 2017-12-01T00:00:00Z date_updated: 2024-02-21T13:47:47Z day: '01' ddc: - '576' department: - _id: BeVi - _id: NiBa doi: 10.15479/AT:ISTA:7163 file: - access_level: open_access checksum: 3cae8a2e3cbf8703399b9c483aaba7f3 content_type: application/zip creator: cfraisse date_created: 2019-12-10T08:46:46Z date_updated: 2020-07-14T12:47:50Z file_id: '7164' file_name: Vicoso_Cohridella_Ndegeerella_Tsylvina_genome_assemblies.zip file_size: 841375478 relation: main_file file_date_updated: 2020-07-14T12:47:50Z has_accepted_license: '1' month: '12' oa: 1 oa_version: Published Version project: - _id: 250ED89C-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P28842-B22 name: Sex chromosome evolution under male- and female- heterogamety publisher: Institute of Science and Technology Austria related_material: record: - id: '614' relation: research_paper status: public status: public title: Supplementary Files for "The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W" tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5570' abstract: - lang: eng text: Matlab script to calculate the forward migration indexes (/) from TrackMate spot-statistics files. article_processing_charge: No author: - first_name: Robert full_name: Hauschild, Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild orcid: 0000-0001-9843-3522 citation: ama: Hauschild R. Forward migration indexes. 2017. doi:10.15479/AT:ISTA:75 apa: Hauschild, R. (2017). Forward migration indexes. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:75 chicago: Hauschild, Robert. “Forward Migration Indexes.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:75. ieee: R. Hauschild, “Forward migration indexes.” Institute of Science and Technology Austria, 2017. ista: Hauschild R. 2017. Forward migration indexes, Institute of Science and Technology Austria, 10.15479/AT:ISTA:75. mla: Hauschild, Robert. Forward Migration Indexes. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:75. short: R. Hauschild, (2017). datarep_id: '75' date_created: 2018-12-12T12:31:35Z date_published: 2017-10-04T00:00:00Z date_updated: 2024-02-21T13:47:14Z day: '04' ddc: - '570' department: - _id: Bio doi: 10.15479/AT:ISTA:75 file: - access_level: open_access checksum: cb7a2fa622460eca6231d659ce590e32 content_type: application/octet-stream creator: system date_created: 2018-12-12T13:02:29Z date_updated: 2020-07-14T12:47:04Z file_id: '5596' file_name: IST-2017-75-v1+1_FMI.m file_size: 799 relation: main_file file_date_updated: 2020-07-14T12:47:04Z has_accepted_license: '1' keyword: - Cell migration - tracking - forward migration index - FMI month: '10' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: Forward migration indexes tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5567' abstract: - lang: eng text: Immunological synapse DC-Tcells article_processing_charge: No author: - first_name: Alexander F full_name: Leithner, Alexander F id: 3B1B77E4-F248-11E8-B48F-1D18A9856A87 last_name: Leithner orcid: 0000-0002-1073-744X citation: ama: Leithner AF. Immunological synapse DC-Tcells. 2017. doi:10.15479/AT:ISTA:71 apa: Leithner, A. F. (2017). Immunological synapse DC-Tcells. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:71 chicago: Leithner, Alexander F. “Immunological Synapse DC-Tcells.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:71. ieee: A. F. Leithner, “Immunological synapse DC-Tcells.” Institute of Science and Technology Austria, 2017. ista: Leithner AF. 2017. Immunological synapse DC-Tcells, Institute of Science and Technology Austria, 10.15479/AT:ISTA:71. mla: Leithner, Alexander F. Immunological Synapse DC-Tcells. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:71. short: A.F. Leithner, (2017). datarep_id: '71' date_created: 2018-12-12T12:31:34Z date_published: 2017-08-09T00:00:00Z date_updated: 2024-02-21T13:47:00Z day: '09' ddc: - '570' department: - _id: MiSi doi: 10.15479/AT:ISTA:71 file: - access_level: open_access checksum: 3d6942d47d0737d064706b5728c4d8c8 content_type: video/x-msvideo creator: system date_created: 2018-12-12T13:02:47Z date_updated: 2020-07-14T12:47:04Z file_id: '5612' file_name: IST-2017-71-v1+1_Synapse_1.avi file_size: 236204020 relation: main_file - access_level: open_access checksum: 4850006c047b0147a9e85b3c2f6f0af4 content_type: video/x-msvideo creator: system date_created: 2018-12-12T13:02:51Z date_updated: 2020-07-14T12:47:04Z file_id: '5613' file_name: IST-2017-71-v1+2_Synapse_2.avi file_size: 226232496 relation: main_file file_date_updated: 2020-07-14T12:47:04Z has_accepted_license: '1' keyword: - Immunological synapse month: '08' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: Immunological synapse DC-Tcells tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5560' abstract: - lang: eng text: "This repository contains the data collected for the manuscript \"Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity\".\r\nThe data is compressed into a single archive. Within the archive, different folders correspond to figures of the main text and the SI of the related publication.\r\nData is saved as plain text, with each folder containing a separate readme file describing the format. Typically, the data is from fluorescence microscopy measurements of single cells growing in a microfluidic \"mother machine\" device, and consists of relevant values (primarily arbitrary unit or normalized fluorescence measurements, and division times / growth rates) after raw microscopy images have been processed, segmented, and their features extracted, as described in the methods section of the related publication." article_processing_charge: No author: - first_name: Tobias full_name: Bergmiller, Tobias id: 2C471CFA-F248-11E8-B48F-1D18A9856A87 last_name: Bergmiller orcid: 0000-0001-5396-4346 - first_name: Anna M full_name: Andersson, Anna M id: 2B8A40DA-F248-11E8-B48F-1D18A9856A87 last_name: Andersson orcid: 0000-0003-2912-6769 - first_name: Kathrin full_name: Tomasek, Kathrin id: 3AEC8556-F248-11E8-B48F-1D18A9856A87 last_name: Tomasek orcid: 0000-0003-3768-877X - first_name: Enrique full_name: Balleza, Enrique last_name: Balleza - first_name: Daniel full_name: Kiviet, Daniel last_name: Kiviet - first_name: Robert full_name: Hauschild, Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild orcid: 0000-0001-9843-3522 - first_name: Gasper full_name: Tkacik, Gasper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkacik orcid: 0000-0002-6699-1455 - first_name: Calin C full_name: Guet, Calin C id: 47F8433E-F248-11E8-B48F-1D18A9856A87 last_name: Guet orcid: 0000-0001-6220-2052 citation: ama: Bergmiller T, Andersson AM, Tomasek K, et al. Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity. 2017. doi:10.15479/AT:ISTA:53 apa: Bergmiller, T., Andersson, A. M., Tomasek, K., Balleza, E., Kiviet, D., Hauschild, R., … Guet, C. C. (2017). Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:53 chicago: Bergmiller, Tobias, Anna M Andersson, Kathrin Tomasek, Enrique Balleza, Daniel Kiviet, Robert Hauschild, Gašper Tkačik, and Calin C Guet. “Biased Partitioning of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:53. ieee: T. Bergmiller et al., “Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity.” Institute of Science and Technology Austria, 2017. ista: Bergmiller T, Andersson AM, Tomasek K, Balleza E, Kiviet D, Hauschild R, Tkačik G, Guet CC. 2017. Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity, Institute of Science and Technology Austria, 10.15479/AT:ISTA:53. mla: Bergmiller, Tobias, et al. Biased Partitioning of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:53. short: T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkačik, C.C. Guet, (2017). datarep_id: '53' date_created: 2018-12-12T12:31:32Z date_published: 2017-03-10T00:00:00Z date_updated: 2024-02-21T13:49:00Z day: '10' ddc: - '571' department: - _id: CaGu - _id: GaTk - _id: Bio doi: 10.15479/AT:ISTA:53 file: - access_level: open_access checksum: d77859af757ac8025c50c7b12b52eaf3 content_type: application/zip creator: system date_created: 2018-12-12T13:02:38Z date_updated: 2020-07-14T12:47:03Z file_id: '5603' file_name: IST-2017-53-v1+1_Data_MDE.zip file_size: 6773204 relation: main_file file_date_updated: 2020-07-14T12:47:03Z has_accepted_license: '1' keyword: - single cell microscopy - mother machine microfluidic device - AcrAB-TolC pump - multi-drug efflux - Escherichia coli month: '03' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '665' relation: research_paper status: public status: public title: Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5571' abstract: - lang: eng text: "This folder contains all the data used in each of the main figures of \"The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology\" (Kelemen, R., Vicoso, B.), as well as in the supplementary figures. \r\n" article_processing_charge: No author: - first_name: Beatriz full_name: Vicoso, Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 citation: ama: Vicoso B. Data for “The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology.” 2017. doi:10.15479/AT:ISTA:78 apa: Vicoso, B. (2017). Data for “The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:78 chicago: Vicoso, Beatriz. “Data for ‘The Genomic Characterization of the t-Haplotype, a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.’” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:78. ieee: B. Vicoso, “Data for ‘The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology.’” Institute of Science and Technology Austria, 2017. ista: Vicoso B. 2017. Data for ‘The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:78. mla: Vicoso, Beatriz. Data for “The Genomic Characterization of the t-Haplotype, a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.” Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:78. short: B. Vicoso, (2017). contributor: - contributor_type: contact_person first_name: Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso datarep_id: '78' date_created: 2018-12-12T12:31:36Z date_published: 2017-11-06T00:00:00Z date_updated: 2024-02-21T13:48:16Z day: '06' ddc: - '576' department: - _id: BeVi doi: 10.15479/AT:ISTA:78 file: - access_level: open_access checksum: 4520eb2b8379417ee916995719158f16 content_type: application/zip creator: system date_created: 2018-12-12T13:03:00Z date_updated: 2020-07-14T12:47:04Z file_id: '5618' file_name: IST-2017-78-v1+1_Data.zip file_size: 143697895 relation: main_file file_date_updated: 2020-07-14T12:47:04Z has_accepted_license: '1' month: '11' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '542' relation: research_paper status: public status: public title: Data for "The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology" tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5559' abstract: - lang: eng text: Strong amplifiers of natural selection article_processing_charge: No author: - first_name: Andreas full_name: Pavlogiannis, Andreas id: 49704004-F248-11E8-B48F-1D18A9856A87 last_name: Pavlogiannis orcid: 0000-0002-8943-0722 - first_name: Josef full_name: Tkadlec, Josef id: 3F24CCC8-F248-11E8-B48F-1D18A9856A87 last_name: Tkadlec orcid: 0000-0002-1097-9684 - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Martin full_name: Nowak , Martin last_name: 'Nowak ' citation: ama: Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. Strong amplifiers of natural selection. 2017. doi:10.15479/AT:ISTA:51 apa: Pavlogiannis, A., Tkadlec, J., Chatterjee, K., & Nowak , M. (2017). Strong amplifiers of natural selection. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:51 chicago: Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak . “Strong Amplifiers of Natural Selection.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:51. ieee: A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak , “Strong amplifiers of natural selection.” Institute of Science and Technology Austria, 2017. ista: Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2017. Strong amplifiers of natural selection, Institute of Science and Technology Austria, 10.15479/AT:ISTA:51. mla: Pavlogiannis, Andreas, et al. Strong Amplifiers of Natural Selection. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:51. short: A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak , (2017). datarep_id: '51' date_created: 2018-12-12T12:31:32Z date_published: 2017-01-02T00:00:00Z date_updated: 2024-02-21T13:48:42Z day: '02' ddc: - '519' department: - _id: KrCh doi: 10.15479/AT:ISTA:51 ec_funded: 1 file: - access_level: open_access checksum: b427dd46a30096a1911b245640c47af8 content_type: video/mp4 creator: system date_created: 2018-12-12T13:05:18Z date_updated: 2020-07-14T12:47:02Z file_id: '5644' file_name: IST-2017-51-v1+2_illustration.mp4 file_size: 32987015 relation: main_file file_date_updated: 2020-07-14T12:47:02Z has_accepted_license: '1' keyword: - natural selection month: '01' oa: 1 oa_version: Published Version project: - _id: 2581B60A-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '279307' name: 'Quantitative Graph Games: Theory and Applications' publisher: Institute of Science and Technology Austria related_material: record: - id: '5452' relation: research_paper status: public - id: '5751' relation: research_paper status: public status: public title: Strong amplifiers of natural selection type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5572' abstract: - lang: eng text: Code described in the Supplementary Methods of "The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology" (Kelemen, R., Vicoso, B.) article_processing_charge: No author: - first_name: Beatriz full_name: Vicoso, Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 citation: ama: Vicoso B. Code for “The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology.” 2017. doi:10.15479/AT:ISTA:79 apa: Vicoso, B. (2017). Code for “The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:79 chicago: Vicoso, Beatriz. “Code for ‘The Genomic Characterization of the t-Haplotype, a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.’” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:79 . ieee: B. Vicoso, “Code for ‘The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology.’” Institute of Science and Technology Austria, 2017. ista: Vicoso B. 2017. Code for ‘The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:79 . mla: Vicoso, Beatriz. Code for “The Genomic Characterization of the t-Haplotype, a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.” Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:79 . short: B. Vicoso, (2017). datarep_id: '79' date_created: 2018-12-12T12:31:36Z date_published: 2017-11-06T00:00:00Z date_updated: 2024-02-21T13:48:28Z day: '06' ddc: - '576' department: - _id: BeVi doi: '10.15479/AT:ISTA:79 ' file: - access_level: open_access checksum: 3e70a7bcd6ff0c38b79e4c8a7d137034 content_type: application/zip creator: system date_created: 2018-12-12T13:05:15Z date_updated: 2020-07-14T12:47:05Z file_id: '5643' file_name: IST-2017-79-v1+1_Code.zip file_size: 49823 relation: main_file file_date_updated: 2020-07-14T12:47:05Z has_accepted_license: '1' month: '11' oa: 1 oa_version: Submitted Version publisher: Institute of Science and Technology Austria related_material: record: - id: '542' relation: research_paper status: public status: public title: Code for "The genomic characterization of the t-haplotype, a mouse meiotic driver, highlights its complex history and specialized biology" tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5565' abstract: - lang: eng text: "One of the key questions in understanding plant development is how single cells behave in a larger context of the tissue. Therefore, it requires the observation of the whole organ with a high spatial- as well as temporal resolution over prolonged periods of time, which may cause photo-toxic effects. This protocol shows a plant sample preparation method for light-sheet microscopy, which is characterized by mounting the plant vertically on the surface of a gel. The plant is mounted in such a way that the roots are submerged in a liquid medium while the leaves remain in the air. In order to ensure photosynthetic activity of the plant, a custom-made lighting system illuminates the leaves. To keep the roots in darkness the water surface is covered with sheets of black plastic foil. This method allows long-term imaging of plant organ development in standardized conditions. \r\nThe Video is licensed under a CC BY NC ND license. " acknowledgement: 'fund: FP7-ERC 0101109' article_processing_charge: No author: - first_name: Daniel full_name: Von Wangenheim, Daniel id: 49E91952-F248-11E8-B48F-1D18A9856A87 last_name: Von Wangenheim orcid: 0000-0002-6862-1247 - first_name: Robert full_name: Hauschild, Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild orcid: 0000-0001-9843-3522 - first_name: Jirí full_name: Friml, Jirí id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: von Wangenheim D, Hauschild R, Friml J. Light Sheet Fluorescence microscopy of plant roots growing on the surface of a gel. 2017. doi:10.15479/AT:ISTA:66 apa: von Wangenheim, D., Hauschild, R., & Friml, J. (2017). Light Sheet Fluorescence microscopy of plant roots growing on the surface of a gel. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:66 chicago: Wangenheim, Daniel von, Robert Hauschild, and Jiří Friml. “Light Sheet Fluorescence Microscopy of Plant Roots Growing on the Surface of a Gel.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:66. ieee: D. von Wangenheim, R. Hauschild, and J. Friml, “Light Sheet Fluorescence microscopy of plant roots growing on the surface of a gel.” Institute of Science and Technology Austria, 2017. ista: von Wangenheim D, Hauschild R, Friml J. 2017. Light Sheet Fluorescence microscopy of plant roots growing on the surface of a gel, Institute of Science and Technology Austria, 10.15479/AT:ISTA:66. mla: von Wangenheim, Daniel, et al. Light Sheet Fluorescence Microscopy of Plant Roots Growing on the Surface of a Gel. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:66. short: D. von Wangenheim, R. Hauschild, J. Friml, (2017). datarep_id: '66' date_created: 2018-12-12T12:31:34Z date_published: 2017-04-10T00:00:00Z date_updated: 2024-02-21T13:49:13Z day: '10' ddc: - '580' department: - _id: JiFr - _id: Bio doi: 10.15479/AT:ISTA:66 ec_funded: 1 file: - access_level: open_access checksum: b7552fc23540a85dc5a22fd4484eae71 content_type: video/mp4 creator: system date_created: 2018-12-12T13:02:33Z date_updated: 2020-07-14T12:47:03Z file_id: '5599' file_name: IST-2017-66-v1+1_WangenheimHighResolution55044-NEW_1.mp4 file_size: 101497758 relation: main_file file_date_updated: 2020-07-14T12:47:03Z has_accepted_license: '1' month: '04' oa: 1 oa_version: Published Version project: - _id: 25681D80-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '291734' name: International IST Postdoc Fellowship Programme publisher: Institute of Science and Technology Austria publist_id: '6302' related_material: record: - id: '1078' relation: research_paper status: public status: public title: Light Sheet Fluorescence microscopy of plant roots growing on the surface of a gel type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5566' abstract: - lang: eng text: Current minimal version of TipTracker article_processing_charge: No author: - first_name: Robert full_name: Hauschild, Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild orcid: 0000-0001-9843-3522 citation: ama: Hauschild R. Live tracking of moving samples in confocal microscopy for vertically grown roots. 2017. doi:10.15479/AT:ISTA:69 apa: Hauschild, R. (2017). Live tracking of moving samples in confocal microscopy for vertically grown roots. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:69 chicago: Hauschild, Robert. “Live Tracking of Moving Samples in Confocal Microscopy for Vertically Grown Roots.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:69. ieee: R. Hauschild, “Live tracking of moving samples in confocal microscopy for vertically grown roots.” Institute of Science and Technology Austria, 2017. ista: Hauschild R. 2017. Live tracking of moving samples in confocal microscopy for vertically grown roots, Institute of Science and Technology Austria, 10.15479/AT:ISTA:69. mla: Hauschild, Robert. Live Tracking of Moving Samples in Confocal Microscopy for Vertically Grown Roots. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:69. short: R. Hauschild, (2017). datarep_id: '69' date_created: 2018-12-12T12:31:34Z date_published: 2017-07-21T00:00:00Z date_updated: 2024-02-21T13:49:34Z day: '21' ddc: - '570' department: - _id: Bio doi: 10.15479/AT:ISTA:69 file: - access_level: open_access checksum: a976000e6715106724a271cc9422be4a content_type: application/zip creator: system date_created: 2018-12-12T13:04:12Z date_updated: 2020-07-14T12:47:04Z file_id: '5636' file_name: IST-2017-69-v1+2_TipTrackerZeissLSM700.zip file_size: 1587986 relation: main_file file_date_updated: 2020-07-14T12:47:04Z has_accepted_license: '1' keyword: - tool - tracking - confocal microscopy month: '07' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '946' relation: research_paper status: public status: public title: Live tracking of moving samples in confocal microscopy for vertically grown roots tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2017' ... --- _id: '5550' abstract: - lang: eng text: "We collected flower colour information on species in the tribe Antirrhineae from taxonomic literature. We also retreived molecular data from GenBank for as many of these species as possible to estimate phylogenetic relationships among these taxa. We then used the R package 'diversitree' to examine patterns of evolutionary transitions between anthocyanin and yellow pigmentation across the phylogeny.\r\n\r\nFor full details of the methods see:\r\nEllis TJ and Field DL \"Repeated gains in yellow and anthocyanin pigmentation in flower colour transitions in the Antirrhineae”, Annals of Botany (in press)" article_processing_charge: No author: - first_name: Thomas full_name: Ellis, Thomas id: 3153D6D4-F248-11E8-B48F-1D18A9856A87 last_name: Ellis orcid: 0000-0002-8511-0254 - first_name: David full_name: Field, David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field orcid: 0000-0002-4014-8478 citation: ama: Ellis T, Field D. Flower colour data and phylogeny (NEXUS) files. 2016. doi:10.15479/AT:ISTA:34 apa: Ellis, T., & Field, D. (2016). Flower colour data and phylogeny (NEXUS) files. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:34 chicago: Ellis, Thomas, and David Field. “Flower Colour Data and Phylogeny (NEXUS) Files.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:34. ieee: T. Ellis and D. Field, “Flower colour data and phylogeny (NEXUS) files.” Institute of Science and Technology Austria, 2016. ista: Ellis T, Field D. 2016. Flower colour data and phylogeny (NEXUS) files, Institute of Science and Technology Austria, 10.15479/AT:ISTA:34. mla: Ellis, Thomas, and David Field. Flower Colour Data and Phylogeny (NEXUS) Files. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:34. short: T. Ellis, D. Field, (2016). datarep_id: '34' date_created: 2018-12-12T12:31:29Z date_published: 2016-02-19T00:00:00Z date_updated: 2024-02-21T13:49:54Z day: '19' ddc: - '576' department: - _id: NiBa doi: 10.15479/AT:ISTA:34 file: - access_level: open_access checksum: 950f85b80427d357bfeff09608ba02e9 content_type: application/zip creator: system date_created: 2018-12-12T13:02:27Z date_updated: 2020-07-14T12:47:00Z file_id: '5594' file_name: IST-2016-34-v1+1_tellis_flower_colour_data.zip file_size: 4468543 relation: main_file file_date_updated: 2020-07-14T12:47:00Z has_accepted_license: '1' month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria publist_id: '5828' related_material: record: - id: '1382' relation: research_paper status: public status: public title: Flower colour data and phylogeny (NEXUS) files tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5555' abstract: - lang: eng text: This FIJI script calculates the population average of the migration speed as a function of time of all cells from wide field microscopy movies. article_processing_charge: No author: - first_name: Robert full_name: Hauschild, Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild orcid: 0000-0001-9843-3522 citation: ama: Hauschild R. Fiji script to determine average speed and direction of migration of cells. 2016. doi:10.15479/AT:ISTA:44 apa: Hauschild, R. (2016). Fiji script to determine average speed and direction of migration of cells. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:44 chicago: Hauschild, Robert. “Fiji Script to Determine Average Speed and Direction of Migration of Cells.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:44. ieee: R. Hauschild, “Fiji script to determine average speed and direction of migration of cells.” Institute of Science and Technology Austria, 2016. ista: Hauschild R. 2016. Fiji script to determine average speed and direction of migration of cells, Institute of Science and Technology Austria, 10.15479/AT:ISTA:44. mla: Hauschild, Robert. Fiji Script to Determine Average Speed and Direction of Migration of Cells. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:44. short: R. Hauschild, (2016). datarep_id: '44' date_created: 2018-12-12T12:31:31Z date_published: 2016-07-08T00:00:00Z date_updated: 2024-02-21T13:50:06Z day: '08' ddc: - '570' department: - _id: Bio doi: 10.15479/AT:ISTA:44 file: - access_level: open_access checksum: 9f96cddbcd4ed689f48712ffe234d5e5 content_type: application/zip creator: system date_created: 2018-12-12T13:03:03Z date_updated: 2020-07-14T12:47:02Z file_id: '5621' file_name: IST-2016-44-v1+1_migrationAnalyzer.zip file_size: 20692 relation: main_file file_date_updated: 2020-07-14T12:47:02Z has_accepted_license: '1' keyword: - cell migration - wide field microscopy - FIJI month: '07' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: Fiji script to determine average speed and direction of migration of cells tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5557' abstract: - lang: eng text: "Small synthetic discrete tomography problems.\r\nSizes are 32x32, 64z64 and 256x256.\r\nProjection angles are 2, 4, and 6.\r\nNumber of labels are 3 and 5." article_processing_charge: No author: - first_name: Paul full_name: Swoboda, Paul id: 446560C6-F248-11E8-B48F-1D18A9856A87 last_name: Swoboda citation: ama: Swoboda P. Synthetic discrete tomography problems. 2016. doi:10.15479/AT:ISTA:46 apa: Swoboda, P. (2016). Synthetic discrete tomography problems. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:46 chicago: Swoboda, Paul. “Synthetic Discrete Tomography Problems.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:46. ieee: P. Swoboda, “Synthetic discrete tomography problems.” Institute of Science and Technology Austria, 2016. ista: Swoboda P. 2016. Synthetic discrete tomography problems, Institute of Science and Technology Austria, 10.15479/AT:ISTA:46. mla: Swoboda, Paul. Synthetic Discrete Tomography Problems. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:46. short: P. Swoboda, (2016). contributor: - contributor_type: data_collector first_name: Jan last_name: Kuske datarep_id: '46' date_created: 2018-12-12T12:31:31Z date_published: 2016-09-20T00:00:00Z date_updated: 2024-02-21T13:50:21Z day: '20' ddc: - '006' department: - _id: VlKo doi: 10.15479/AT:ISTA:46 file: - access_level: open_access checksum: aa5a16a0dc888da7186fb8fc45e88439 content_type: application/zip creator: system date_created: 2018-12-12T13:05:19Z date_updated: 2020-07-14T12:47:02Z file_id: '5645' file_name: IST-2016-46-v1+1_discrete_tomography_synthetic.zip file_size: 36058401 relation: main_file file_date_updated: 2020-07-14T12:47:02Z has_accepted_license: '1' keyword: - discrete tomography month: '09' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria status: public title: Synthetic discrete tomography problems tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5553' abstract: - lang: eng text: "Genotypic, phenotypic and demographic data for 2128 wild snapdragons and 1127 open-pollinated progeny from a natural hybrid zone, collected as part of Tom Ellis' PhD thesis (submitted) February 2016).\r\n\r\nTissue samples were sent to LGC Genomics in Berlin for DNA extraction, and genotyping at 70 SNP markers by KASPR genotyping. 29 of these SNPs failed to amplify reliably, and have been removed from this dataset.\r\n\r\nOther data were retreived from an online database of this population at www.antspec.org." article_processing_charge: No author: - first_name: David full_name: Field, David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field orcid: 0000-0002-4014-8478 - first_name: Thomas full_name: Ellis, Thomas id: 3153D6D4-F248-11E8-B48F-1D18A9856A87 last_name: Ellis orcid: 0000-0002-8511-0254 citation: ama: Field D, Ellis T. Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012. 2016. doi:10.15479/AT:ISTA:37 apa: Field, D., & Ellis, T. (2016). Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:37 chicago: Field, David, and Thomas Ellis. “Inference of Mating Patterns among Wild Snapdragons in a Natural Hybrid Zone in 2012.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:37. ieee: D. Field and T. Ellis, “Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012.” Institute of Science and Technology Austria, 2016. ista: Field D, Ellis T. 2016. Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012, Institute of Science and Technology Austria, 10.15479/AT:ISTA:37. mla: Field, David, and Thomas Ellis. Inference of Mating Patterns among Wild Snapdragons in a Natural Hybrid Zone in 2012. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:37. short: D. Field, T. Ellis, (2016). contributor: - contributor_type: project_manager first_name: Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 datarep_id: '37' date_created: 2018-12-12T12:31:30Z date_published: 2016-02-19T00:00:00Z date_updated: 2024-02-21T13:51:14Z day: '19' ddc: - '576' department: - _id: NiBa doi: 10.15479/AT:ISTA:37 file: - access_level: open_access checksum: 4ae751b1fa4897fa216241f975a57313 content_type: application/zip creator: system date_created: 2018-12-12T13:03:02Z date_updated: 2020-07-14T12:47:01Z file_id: '5620' file_name: IST-2016-37-v1+1_paternity_archive.zip file_size: 132808 relation: main_file file_date_updated: 2020-07-14T12:47:01Z has_accepted_license: '1' keyword: - paternity assignment - pedigree - matting patterns - assortative mating - Antirrhinum majus - frequency-dependent selection - plant-pollinator interaction month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '1398' relation: research_paper status: public status: public title: Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012 tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5551' abstract: - lang: eng text: "Data from array experiments investigating pollinator behaviour on snapdragons in controlled conditions, and their effect on plant mating. Data were collected as part of Tom Ellis' PhD thesis , submitted February 2016.\r\n\r\nWe placed a total of 36 plants in a grid inside a closed organza tent, with a single hive of commercially bred bumblebees (Bombus hortorum). We used only the yellow-flowered Antirrhinum majus striatum and the magenta-flowered Antirrhinum majus pseudomajus, at ratios of 6:36, 12:24, 18:18, 24:12 and 30:6.\r\n\r\nAfter 24 hours to learn how to deal with snapdragons, I observed pollinators foraging on plants, and recorded the transitions between plants. Thereafter seeds on plants were allowed to develops. A sample of these were grown to maturity when their flower colour could be determined, and they were scored as yellow, magenta, or hybrid." article_processing_charge: No author: - first_name: Thomas full_name: Ellis, Thomas id: 3153D6D4-F248-11E8-B48F-1D18A9856A87 last_name: Ellis orcid: 0000-0002-8511-0254 citation: ama: Ellis T. Data on pollinator observations and offpsring phenotypes. 2016. doi:10.15479/AT:ISTA:35 apa: Ellis, T. (2016). Data on pollinator observations and offpsring phenotypes. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:35 chicago: Ellis, Thomas. “Data on Pollinator Observations and Offpsring Phenotypes.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:35. ieee: T. Ellis, “Data on pollinator observations and offpsring phenotypes.” Institute of Science and Technology Austria, 2016. ista: Ellis T. 2016. Data on pollinator observations and offpsring phenotypes, Institute of Science and Technology Austria, 10.15479/AT:ISTA:35. mla: Ellis, Thomas. Data on Pollinator Observations and Offpsring Phenotypes. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:35. short: T. Ellis, (2016). contributor: - first_name: David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field - first_name: Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 datarep_id: '35' date_created: 2018-12-12T12:31:29Z date_published: 2016-02-19T00:00:00Z date_updated: 2024-02-21T13:51:27Z day: '19' department: - _id: NiBa doi: 10.15479/AT:ISTA:35 file: - access_level: open_access checksum: aa3eb85d52b110cd192aa23147c4d4f3 content_type: application/zip creator: system date_created: 2018-12-12T13:05:12Z date_updated: 2020-07-14T12:47:01Z file_id: '5640' file_name: IST-2016-35-v1+1_array_data.zip file_size: 32775 relation: main_file file_date_updated: 2020-07-14T12:47:01Z has_accepted_license: '1' month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '1398' relation: research_paper status: public status: public title: Data on pollinator observations and offpsring phenotypes tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5552' abstract: - lang: eng text: "Data on pollinator visitation to wild snapdragons in a natural hybrid zone, collected as part of Tom Ellis' PhD thesis (submitted February 2016).\r\n\r\nSnapdragon flowers have a mouth-like structure which pollinators must open to access nectar. We placed 5mm cellophane tags in these mouths, which are held in place by the pressure of the flower until a pollinator visits. When she opens the flower, the tag drops out, and one can infer a visit. We surveyed plants over multiple days in 2010, 2011 and 2012.\r\n\r\nAlso included are data on phenotypic and demographic variables which may be explanatory variables for pollinator visitation." article_processing_charge: No author: - first_name: Thomas full_name: Ellis, Thomas id: 3153D6D4-F248-11E8-B48F-1D18A9856A87 last_name: Ellis orcid: 0000-0002-8511-0254 citation: ama: Ellis T. Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data. 2016. doi:10.15479/AT:ISTA:36 apa: Ellis, T. (2016). Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:36 chicago: Ellis, Thomas. “Pollinator Visitation Data for Wild Antirrhinum Majus Plants, with Phenotypic and Frequency Data.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:36. ieee: T. Ellis, “Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data.” Institute of Science and Technology Austria, 2016. ista: Ellis T. 2016. Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data., Institute of Science and Technology Austria, 10.15479/AT:ISTA:36. mla: Ellis, Thomas. Pollinator Visitation Data for Wild Antirrhinum Majus Plants, with Phenotypic and Frequency Data. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:36. short: T. Ellis, (2016). contributor: - first_name: David id: 419049E2-F248-11E8-B48F-1D18A9856A87 last_name: Field - first_name: Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 datarep_id: '36' date_created: 2018-12-12T12:31:30Z date_published: 2016-02-19T00:00:00Z date_updated: 2024-02-21T13:51:40Z day: '19' department: - _id: NiBa doi: 10.15479/AT:ISTA:36 file: - access_level: open_access checksum: cbc61b523d4d475a04a737d50dc470ef content_type: application/zip creator: system date_created: 2018-12-12T13:03:07Z date_updated: 2020-07-14T12:47:01Z file_id: '5625' file_name: IST-2016-36-v1+1_tag_assay_archive.zip file_size: 44905 relation: main_file file_date_updated: 2020-07-14T12:47:01Z has_accepted_license: '1' month: '02' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '1398' relation: research_paper status: public status: public title: Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data. type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5554' abstract: - lang: eng text: "The data stored here is used in Murat Tugrul's PhD thesis (Chapter 3), which is related to the evolution of bacterial RNA polymerase binding.\r\nMagdalena Steinrueck (PhD Student in Calin Guet's group at IST Austria) performed the experiments and created the data on de novo promoter evolution. Fabienne Jesse (PhD Student in Jon Bollback's group at IST Austria) performed the experiments and created the data on lac promoter evolution." article_processing_charge: No author: - first_name: Murat full_name: Tugrul, Murat id: 37C323C6-F248-11E8-B48F-1D18A9856A87 last_name: Tugrul orcid: 0000-0002-8523-0758 citation: ama: Tugrul M. Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase. 2016. doi:10.15479/AT:ISTA:43 apa: Tugrul, M. (2016). Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:43 chicago: Tugrul, Murat. “Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:43. ieee: M. Tugrul, “Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase.” Institute of Science and Technology Austria, 2016. ista: Tugrul M. 2016. Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase, Institute of Science and Technology Austria, 10.15479/AT:ISTA:43. mla: Tugrul, Murat. Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:43. short: M. Tugrul, (2016). contributor: - contributor_type: researcher first_name: Magdalena id: 2C023F40-F248-11E8-B48F-1D18A9856A87 last_name: Steinrück - contributor_type: researcher first_name: Fabienne id: 4C8C26A4-F248-11E8-B48F-1D18A9856A87 last_name: Jesse datarep_id: '43' date_created: 2018-12-12T12:31:30Z date_published: 2016-05-12T00:00:00Z date_updated: 2024-02-21T13:50:34Z day: '12' department: - _id: NiBa - _id: JoBo doi: 10.15479/AT:ISTA:43 file: - access_level: open_access checksum: 1fc0a10bb7ce110fcb5e1fbe3cf0c4e2 content_type: application/zip creator: system date_created: 2018-12-12T13:03:08Z date_updated: 2020-07-14T12:47:01Z file_id: '5626' file_name: IST-2016-43-v1+1_DATA_MTugrul_PhDThesis_Chapter3.zip file_size: 1123495 relation: main_file file_date_updated: 2020-07-14T12:47:01Z has_accepted_license: '1' keyword: - RNAP binding - de novo promoter evolution - lac promoter month: '05' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '1131' relation: used_in_publication status: public status: public title: Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5558' abstract: - lang: eng text: PhD thesis LaTeX source code article_processing_charge: No author: - first_name: Morten full_name: Bojsen-Hansen, Morten id: 439F0C8C-F248-11E8-B48F-1D18A9856A87 last_name: Bojsen-Hansen orcid: 0000-0002-4417-3224 citation: ama: Bojsen-Hansen M. Tracking, Correcting and Absorbing Water Surface Waves. 2016. doi:10.15479/AT:ISTA:48 apa: Bojsen-Hansen, M. (2016). Tracking, Correcting and Absorbing Water Surface Waves. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:48 chicago: Bojsen-Hansen, Morten. “Tracking, Correcting and Absorbing Water Surface Waves.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:48. ieee: M. Bojsen-Hansen, “Tracking, Correcting and Absorbing Water Surface Waves.” Institute of Science and Technology Austria, 2016. ista: Bojsen-Hansen M. 2016. Tracking, Correcting and Absorbing Water Surface Waves, Institute of Science and Technology Austria, 10.15479/AT:ISTA:48. mla: Bojsen-Hansen, Morten. Tracking, Correcting and Absorbing Water Surface Waves. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:48. short: M. Bojsen-Hansen, (2016). datarep_id: '48' date_created: 2018-12-12T12:31:31Z date_published: 2016-09-23T00:00:00Z date_updated: 2024-02-21T13:50:48Z day: '23' ddc: - '004' department: - _id: ChWo doi: 10.15479/AT:ISTA:48 file: - access_level: open_access checksum: 5b1b256ad796fbddb4b7729f5e45e444 content_type: application/x-bzip2 creator: system date_created: 2018-12-12T13:02:18Z date_updated: 2020-07-14T12:47:02Z file_id: '5589' file_name: IST-2016-48-v1+1_2016_Bojsen-Hansen_TCaAWSW.tar.bz2 file_size: 55237885 relation: main_file file_date_updated: 2020-07-14T12:47:02Z has_accepted_license: '1' month: '09' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria publist_id: '6238' pubrep_id: '640' related_material: record: - id: '1122' relation: other status: public status: public title: Tracking, Correcting and Absorbing Water Surface Waves tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5556' abstract: - lang: eng text: "MATLAB code and processed datasets available for reproducing the results in: \r\nLukačišin, M.*, Landon, M.*, Jajoo, R*. (2016) Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.\r\n*equal contributions" article_processing_charge: No author: - first_name: Martin full_name: Lukacisin, Martin id: 298FFE8C-F248-11E8-B48F-1D18A9856A87 last_name: Lukacisin orcid: 0000-0001-6549-4177 - first_name: Matthieu full_name: Landon, Matthieu last_name: Landon - first_name: Rishi full_name: Jajoo, Rishi last_name: Jajoo citation: ama: Lukacisin M, Landon M, Jajoo R. MATLAB analysis code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” 2016. doi:10.15479/AT:ISTA:45 apa: Lukacisin, M., Landon, M., & Jajoo, R. (2016). MATLAB analysis code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:45 chicago: Lukacisin, Martin, Matthieu Landon, and Rishi Jajoo. “MATLAB Analysis Code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.’” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:45. ieee: M. Lukacisin, M. Landon, and R. Jajoo, “MATLAB analysis code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.’” Institute of Science and Technology Austria, 2016. ista: Lukacisin M, Landon M, Jajoo R. 2016. MATLAB analysis code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:45. mla: Lukacisin, Martin, et al. MATLAB Analysis Code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:45. short: M. Lukacisin, M. Landon, R. Jajoo, (2016). datarep_id: '45' date_created: 2018-12-12T12:31:31Z date_published: 2016-08-25T00:00:00Z date_updated: 2024-02-21T13:51:53Z day: '25' ddc: - '571' department: - _id: ToBo doi: 10.15479/AT:ISTA:45 file: - access_level: open_access checksum: ee697f2b1ade4dc14d6ac0334dd832ab content_type: application/zip creator: system date_created: 2018-12-12T13:02:58Z date_updated: 2020-07-14T12:47:02Z file_id: '5616' file_name: IST-2016-45-v1+1_PaperCode.zip file_size: 296722548 relation: main_file file_date_updated: 2020-07-14T12:47:02Z has_accepted_license: '1' keyword: - transcription - pausing - backtracking - polymerase - RNA - NET-seq - nucleosome - basepairing month: '08' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '8431' relation: used_in_publication status: deleted - id: '1029' relation: research_paper status: public status: public title: MATLAB analysis code for 'Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast' tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '5549' abstract: - lang: eng text: "This repository contains the experimental part of the CAV 2015 publication Counterexample Explanation by Learning Small Strategies in Markov Decision Processes.\r\nWe extended the probabilistic model checker PRISM to represent strategies of Markov Decision Processes as Decision Trees.\r\nThe archive contains a java executable version of the extended tool (prism_dectree.jar) together with a few examples of the PRISM benchmark library.\r\nTo execute the program, please have a look at the README.txt, which provides instructions and further information on the archive.\r\nThe archive contains scripts that (if run often enough) reproduces the data presented in the publication." article_processing_charge: No author: - first_name: Andreas full_name: Fellner, Andreas id: 42BABFB4-F248-11E8-B48F-1D18A9856A87 last_name: Fellner citation: ama: 'Fellner A. Experimental part of CAV 2015 publication: Counterexample Explanation by Learning Small Strategies in Markov Decision Processes. 2015. doi:10.15479/AT:ISTA:28' apa: 'Fellner, A. (2015). Experimental part of CAV 2015 publication: Counterexample Explanation by Learning Small Strategies in Markov Decision Processes. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:28' chicago: 'Fellner, Andreas. “Experimental Part of CAV 2015 Publication: Counterexample Explanation by Learning Small Strategies in Markov Decision Processes.” Institute of Science and Technology Austria, 2015. https://doi.org/10.15479/AT:ISTA:28.' ieee: 'A. Fellner, “Experimental part of CAV 2015 publication: Counterexample Explanation by Learning Small Strategies in Markov Decision Processes.” Institute of Science and Technology Austria, 2015.' ista: 'Fellner A. 2015. Experimental part of CAV 2015 publication: Counterexample Explanation by Learning Small Strategies in Markov Decision Processes, Institute of Science and Technology Austria, 10.15479/AT:ISTA:28.' mla: 'Fellner, Andreas. Experimental Part of CAV 2015 Publication: Counterexample Explanation by Learning Small Strategies in Markov Decision Processes. Institute of Science and Technology Austria, 2015, doi:10.15479/AT:ISTA:28.' short: A. Fellner, (2015). contributor: - first_name: Jan id: 44CEF464-F248-11E8-B48F-1D18A9856A87 last_name: Kretinsky datarep_id: '28' date_created: 2018-12-12T12:31:29Z date_published: 2015-08-13T00:00:00Z date_updated: 2024-02-21T13:52:07Z day: '13' ddc: - '004' department: - _id: KrCh - _id: ToHe doi: 10.15479/AT:ISTA:28 ec_funded: 1 file: - access_level: open_access checksum: b8bcb43c0893023cda66c1b69c16ac62 content_type: application/zip creator: system date_created: 2018-12-12T13:02:31Z date_updated: 2020-07-14T12:47:00Z file_id: '5597' file_name: IST-2015-28-v1+2_Fellner_DataRep.zip file_size: 49557109 relation: main_file file_date_updated: 2020-07-14T12:47:00Z has_accepted_license: '1' keyword: - Markov Decision Process - Decision Tree - Probabilistic Verification - Counterexample Explanation month: '08' oa: 1 oa_version: Published Version project: - _id: 2581B60A-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '279307' name: 'Quantitative Graph Games: Theory and Applications' - _id: 25832EC2-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: S 11407_N23 name: Rigorous Systems Engineering publisher: Institute of Science and Technology Austria publist_id: '5564' related_material: record: - id: '1603' relation: popular_science status: public status: public title: 'Experimental part of CAV 2015 publication: Counterexample Explanation by Learning Small Strategies in Markov Decision Processes' tmp: image: /images/cc_0.png legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode name: Creative Commons Public Domain Dedication (CC0 1.0) short: CC0 (1.0) type: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2015' ...