--- _id: '14104' abstract: - lang: eng text: 'Thorne–Żytkow objects (TŻO) are potential end products of the merger of a neutron star with a non-degenerate star. In this work, we have computed the first grid of evolutionary models of TŻOs with the MESA stellar evolution code. With these models, we predict several observational properties of TŻOs, including their surface temperatures and luminosities, pulsation periods, and nucleosynthetic products. We expand the range of possible TŻO solutions to cover 3.45≲log(Teff/K)≲3.65 and 4.85≲log(L/L⊙)≲5.5⁠. Due to the much higher densities our TŻOs reach compared to previous models, if TŻOs form we expect them to be stable over a larger mass range than previously predicted, without exhibiting a gap in their mass distribution. Using the GYRE stellar pulsation code we show that TŻOs should have fundamental pulsation periods of 1000–2000 d, and period ratios of ≈0.2–0.3. Models computed with a large 399 isotope fully coupled nuclear network show a nucleosynthetic signal that is different to previously predicted. We propose a new nucleosynthetic signal to determine a star’s status as a TŻO: the isotopologues 44TiO2 and 44TiO⁠, which will have a shift in their spectral features as compared to stable titanium-containing molecules. We find that in the local Universe (∼SMC metallicities and above) TŻOs show little heavy metal enrichment, potentially explaining the difficulty in finding TŻOs to-date.' article_processing_charge: No article_type: original author: - first_name: R full_name: Farmer, R last_name: Farmer - first_name: M full_name: Renzo, M last_name: Renzo - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 - first_name: E full_name: Bellinger, E last_name: Bellinger - first_name: S full_name: Justham, S last_name: Justham - first_name: S E full_name: de Mink, S E last_name: de Mink citation: ama: Farmer R, Renzo M, Götberg YLL, Bellinger E, Justham S, de Mink SE. Observational predictions for Thorne–Żytkow objects. Monthly Notices of the Royal Astronomical Society. 2023;524(2):1692-1709. doi:10.1093/mnras/stad1977 apa: Farmer, R., Renzo, M., Götberg, Y. L. L., Bellinger, E., Justham, S., & de Mink, S. E. (2023). Observational predictions for Thorne–Żytkow objects. Monthly Notices of the Royal Astronomical Society. Oxford University Press. https://doi.org/10.1093/mnras/stad1977 chicago: Farmer, R, M Renzo, Ylva Louise Linsdotter Götberg, E Bellinger, S Justham, and S E de Mink. “Observational Predictions for Thorne–Żytkow Objects.” Monthly Notices of the Royal Astronomical Society. Oxford University Press, 2023. https://doi.org/10.1093/mnras/stad1977. ieee: R. Farmer, M. Renzo, Y. L. L. Götberg, E. Bellinger, S. Justham, and S. E. de Mink, “Observational predictions for Thorne–Żytkow objects,” Monthly Notices of the Royal Astronomical Society, vol. 524, no. 2. Oxford University Press, pp. 1692–1709, 2023. ista: Farmer R, Renzo M, Götberg YLL, Bellinger E, Justham S, de Mink SE. 2023. Observational predictions for Thorne–Żytkow objects. Monthly Notices of the Royal Astronomical Society. 524(2), 1692–1709. mla: Farmer, R., et al. “Observational Predictions for Thorne–Żytkow Objects.” Monthly Notices of the Royal Astronomical Society, vol. 524, no. 2, Oxford University Press, 2023, pp. 1692–709, doi:10.1093/mnras/stad1977. short: R. Farmer, M. Renzo, Y.L.L. Götberg, E. Bellinger, S. Justham, S.E. de Mink, Monthly Notices of the Royal Astronomical Society 524 (2023) 1692–1709. date_created: 2023-08-21T10:13:56Z date_published: 2023-09-01T00:00:00Z date_updated: 2023-08-21T12:12:48Z day: '01' doi: 10.1093/mnras/stad1977 extern: '1' external_id: arxiv: - '2305.07337' intvolume: ' 524' issue: '2' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2305.07337 month: '09' oa: 1 oa_version: Preprint page: 1692-1709 publication: Monthly Notices of the Royal Astronomical Society publication_identifier: eissn: - 1365-2966 issn: - 0035-8711 publication_status: published publisher: Oxford University Press quality_controlled: '1' scopus_import: '1' status: public title: Observational predictions for Thorne–Żytkow objects type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 524 year: '2023' ... --- _id: '13989' abstract: - lang: eng text: Characterizing and controlling entanglement in quantum materials is crucial for the development of next-generation quantum technologies. However, defining a quantifiable figure of merit for entanglement in macroscopic solids is theoretically and experimentally challenging. At equilibrium the presence of entanglement can be diagnosed by extracting entanglement witnesses from spectroscopic observables and a nonequilibrium extension of this method could lead to the discovery of novel dynamical phenomena. Here, we propose a systematic approach to quantify the time-dependent quantum Fisher information and entanglement depth of transient states of quantum materials with time-resolved resonant inelastic x-ray scattering. Using a quarter-filled extended Hubbard model as an example, we benchmark the efficiency of this approach and predict a light-enhanced many-body entanglement due to the proximity to a phase boundary. Our work sets the stage for experimentally witnessing and controlling entanglement in light-driven quantum materials via ultrafast spectroscopic measurements. article_number: '3512' article_processing_charge: No article_type: original author: - first_name: Jordyn full_name: Hales, Jordyn last_name: Hales - first_name: Utkarsh full_name: Bajpai, Utkarsh last_name: Bajpai - first_name: Tongtong full_name: Liu, Tongtong last_name: Liu - first_name: Denitsa Rangelova full_name: Baykusheva, Denitsa Rangelova id: 71b4d059-2a03-11ee-914d-dfa3beed6530 last_name: Baykusheva - first_name: Mingda full_name: Li, Mingda last_name: Li - first_name: Matteo full_name: Mitrano, Matteo last_name: Mitrano - first_name: Yao full_name: Wang, Yao last_name: Wang citation: ama: Hales J, Bajpai U, Liu T, et al. Witnessing light-driven entanglement using time-resolved resonant inelastic X-ray scattering. Nature Communications. 2023;14. doi:10.1038/s41467-023-38540-3 apa: Hales, J., Bajpai, U., Liu, T., Baykusheva, D. R., Li, M., Mitrano, M., & Wang, Y. (2023). Witnessing light-driven entanglement using time-resolved resonant inelastic X-ray scattering. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-023-38540-3 chicago: Hales, Jordyn, Utkarsh Bajpai, Tongtong Liu, Denitsa Rangelova Baykusheva, Mingda Li, Matteo Mitrano, and Yao Wang. “Witnessing Light-Driven Entanglement Using Time-Resolved Resonant Inelastic X-Ray Scattering.” Nature Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-38540-3. ieee: J. Hales et al., “Witnessing light-driven entanglement using time-resolved resonant inelastic X-ray scattering,” Nature Communications, vol. 14. Springer Nature, 2023. ista: Hales J, Bajpai U, Liu T, Baykusheva DR, Li M, Mitrano M, Wang Y. 2023. Witnessing light-driven entanglement using time-resolved resonant inelastic X-ray scattering. Nature Communications. 14, 3512. mla: Hales, Jordyn, et al. “Witnessing Light-Driven Entanglement Using Time-Resolved Resonant Inelastic X-Ray Scattering.” Nature Communications, vol. 14, 3512, Springer Nature, 2023, doi:10.1038/s41467-023-38540-3. short: J. Hales, U. Bajpai, T. Liu, D.R. Baykusheva, M. Li, M. Mitrano, Y. Wang, Nature Communications 14 (2023). date_created: 2023-08-09T13:06:59Z date_published: 2023-06-14T00:00:00Z date_updated: 2023-08-22T06:50:04Z day: '14' doi: 10.1038/s41467-023-38540-3 extern: '1' external_id: arxiv: - '2209.02283' pmid: - '37316515' intvolume: ' 14' keyword: - General Physics and Astronomy - General Biochemistry - Genetics and Molecular Biology - General Chemistry - Multidisciplinary language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1038/s41467-023-38540-3 month: '06' oa: 1 oa_version: Published Version pmid: 1 publication: Nature Communications publication_identifier: eissn: - 2041-1723 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Witnessing light-driven entanglement using time-resolved resonant inelastic X-ray scattering type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 14 year: '2023' ... --- _id: '13990' abstract: - lang: eng text: Many-body entanglement in condensed matter systems can be diagnosed from equilibrium response functions through the use of entanglement witnesses and operator-specific quantum bounds. Here, we investigate the applicability of this approach for detecting entangled states in quantum systems driven out of equilibrium. We use a multipartite entanglement witness, the quantum Fisher information, to study the dynamics of a paradigmatic fermion chain undergoing a time-dependent change of the Coulomb interaction. Our results show that the quantum Fisher information is able to witness distinct signatures of multipartite entanglement both near and far from equilibrium that are robust against decoherence. We discuss implications of these findings for probing entanglement in light-driven quantum materials with time-resolved optical and x-ray scattering methods. article_number: '106902' article_processing_charge: No article_type: original author: - first_name: Denitsa Rangelova full_name: Baykusheva, Denitsa Rangelova id: 71b4d059-2a03-11ee-914d-dfa3beed6530 last_name: Baykusheva - first_name: Mona H. full_name: Kalthoff, Mona H. last_name: Kalthoff - first_name: Damian full_name: Hofmann, Damian last_name: Hofmann - first_name: Martin full_name: Claassen, Martin last_name: Claassen - first_name: Dante M. full_name: Kennes, Dante M. last_name: Kennes - first_name: Michael A. full_name: Sentef, Michael A. last_name: Sentef - first_name: Matteo full_name: Mitrano, Matteo last_name: Mitrano citation: ama: Baykusheva DR, Kalthoff MH, Hofmann D, et al. Witnessing nonequilibrium entanglement dynamics in a strongly correlated fermionic chain. Physical Review Letters. 2023;130(10). doi:10.1103/physrevlett.130.106902 apa: Baykusheva, D. R., Kalthoff, M. H., Hofmann, D., Claassen, M., Kennes, D. M., Sentef, M. A., & Mitrano, M. (2023). Witnessing nonequilibrium entanglement dynamics in a strongly correlated fermionic chain. Physical Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.130.106902 chicago: Baykusheva, Denitsa Rangelova, Mona H. Kalthoff, Damian Hofmann, Martin Claassen, Dante M. Kennes, Michael A. Sentef, and Matteo Mitrano. “Witnessing Nonequilibrium Entanglement Dynamics in a Strongly Correlated Fermionic Chain.” Physical Review Letters. American Physical Society, 2023. https://doi.org/10.1103/physrevlett.130.106902. ieee: D. R. Baykusheva et al., “Witnessing nonequilibrium entanglement dynamics in a strongly correlated fermionic chain,” Physical Review Letters, vol. 130, no. 10. American Physical Society, 2023. ista: Baykusheva DR, Kalthoff MH, Hofmann D, Claassen M, Kennes DM, Sentef MA, Mitrano M. 2023. Witnessing nonequilibrium entanglement dynamics in a strongly correlated fermionic chain. Physical Review Letters. 130(10), 106902. mla: Baykusheva, Denitsa Rangelova, et al. “Witnessing Nonequilibrium Entanglement Dynamics in a Strongly Correlated Fermionic Chain.” Physical Review Letters, vol. 130, no. 10, 106902, American Physical Society, 2023, doi:10.1103/physrevlett.130.106902. short: D.R. Baykusheva, M.H. Kalthoff, D. Hofmann, M. Claassen, D.M. Kennes, M.A. Sentef, M. Mitrano, Physical Review Letters 130 (2023). date_created: 2023-08-09T13:07:24Z date_published: 2023-03-10T00:00:00Z date_updated: 2023-08-22T07:18:01Z day: '10' doi: 10.1103/physrevlett.130.106902 extern: '1' external_id: arxiv: - '2209.02081' pmid: - '36962013' intvolume: ' 130' issue: '10' keyword: - General Physics and Astronomy language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2209.02081 month: '03' oa: 1 oa_version: Preprint pmid: 1 publication: Physical Review Letters publication_identifier: eissn: - 1079-7114 issn: - 0031-9007 publication_status: published publisher: American Physical Society quality_controlled: '1' scopus_import: '1' status: public title: Witnessing nonequilibrium entanglement dynamics in a strongly correlated fermionic chain type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 130 year: '2023' ... --- _id: '12697' abstract: - lang: eng text: Models for same-material contact electrification in granular media often rely on a local charge-driving parameter whose spatial variations lead to a stochastic origin for charge exchange. Measuring the charge transfer from individual granular spheres after contacts with substrates of the same material, we find instead a “global” charging behavior, coherent over the sample’s whole surface. Cleaning and baking samples fully resets charging magnitude and direction, which indicates the underlying global parameter is not intrinsic to the material, but acquired from its history. Charging behavior is randomly and irreversibly affected by changes in relative humidity, hinting at a mechanism where adsorbates, in particular, water, are fundamental to the charge-transfer process. acknowledgement: "We would like to thank Troy Shinbrot, Victor Lee and Daniele Foresti for helpful discussions. This project has received funding from the European Research Council Grant Agreement No. 949120 and from the the Marie Sk lodowska-Curie Grant Agreement No. 754411 under\r\nthe European Union’s Horizon 2020 research and innovation program." article_number: '098202' article_processing_charge: No article_type: original author: - first_name: Galien M full_name: Grosjean, Galien M id: 0C5FDA4A-9CF6-11E9-8939-FF05E6697425 last_name: Grosjean orcid: 0000-0001-5154-417X - first_name: Scott R full_name: Waitukaitis, Scott R id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87 last_name: Waitukaitis orcid: 0000-0002-2299-3176 citation: ama: Grosjean GM, Waitukaitis SR. Single-collision statistics reveal a global mechanism driven by sample history for contact electrification in granular media. Physical Review Letters. 2023;130(9). doi:10.1103/physrevlett.130.098202 apa: Grosjean, G. M., & Waitukaitis, S. R. (2023). Single-collision statistics reveal a global mechanism driven by sample history for contact electrification in granular media. Physical Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.130.098202 chicago: Grosjean, Galien M, and Scott R Waitukaitis. “Single-Collision Statistics Reveal a Global Mechanism Driven by Sample History for Contact Electrification in Granular Media.” Physical Review Letters. American Physical Society, 2023. https://doi.org/10.1103/physrevlett.130.098202. ieee: G. M. Grosjean and S. R. Waitukaitis, “Single-collision statistics reveal a global mechanism driven by sample history for contact electrification in granular media,” Physical Review Letters, vol. 130, no. 9. American Physical Society, 2023. ista: Grosjean GM, Waitukaitis SR. 2023. Single-collision statistics reveal a global mechanism driven by sample history for contact electrification in granular media. Physical Review Letters. 130(9), 098202. mla: Grosjean, Galien M., and Scott R. Waitukaitis. “Single-Collision Statistics Reveal a Global Mechanism Driven by Sample History for Contact Electrification in Granular Media.” Physical Review Letters, vol. 130, no. 9, 098202, American Physical Society, 2023, doi:10.1103/physrevlett.130.098202. short: G.M. Grosjean, S.R. Waitukaitis, Physical Review Letters 130 (2023). date_created: 2023-02-28T12:14:46Z date_published: 2023-03-03T00:00:00Z date_updated: 2023-08-22T08:41:32Z day: '03' ddc: - '530' - '537' department: - _id: ScWa doi: 10.1103/physrevlett.130.098202 ec_funded: 1 external_id: arxiv: - '2211.02488' isi: - '000946178200008' file: - access_level: open_access checksum: c4f2f6eea0408811f8f4898e15890355 content_type: application/pdf creator: ggrosjea date_created: 2023-02-28T12:20:27Z date_updated: 2023-02-28T12:20:27Z file_id: '12698' file_name: Main_Preprint.pdf file_size: 2301864 relation: main_file success: 1 - access_level: open_access checksum: 6af6ed6c97a977f923de4162294b43c4 content_type: application/pdf creator: ggrosjea date_created: 2023-02-28T12:20:55Z date_updated: 2023-02-28T12:20:55Z file_id: '12699' file_name: Suppl_info.pdf file_size: 1138625 relation: main_file success: 1 - access_level: open_access checksum: 3f20365fb9515bdba3a111d912c8d8b4 content_type: video/mp4 creator: ggrosjea date_created: 2023-02-28T12:37:54Z date_updated: 2023-02-28T12:37:54Z file_id: '12700' file_name: Suppl_vid1.mp4 file_size: 793449 relation: main_file success: 1 - access_level: open_access checksum: 90cecacbe0e2f9dea11f91a4ba20c32e content_type: video/mp4 creator: ggrosjea date_created: 2023-02-28T12:37:54Z date_updated: 2023-02-28T12:37:54Z file_id: '12701' file_name: Suppl_vid2.mp4 file_size: 455925 relation: main_file success: 1 file_date_updated: 2023-02-28T12:37:54Z has_accepted_license: '1' intvolume: ' 130' isi: 1 issue: '9' keyword: - General Physics - Electrostatics - Triboelectricity - Soft Matter - Acoustic Levitation - Granular Materials language: - iso: eng license: https://creativecommons.org/licenses/by/4.0/ main_file_link: - open_access: '1' url: https://arxiv.org/abs/2211.02488 month: '03' oa: 1 oa_version: Preprint project: - _id: 0aa60e99-070f-11eb-9043-a6de6bdc3afa call_identifier: H2020 grant_number: '949120' name: 'Tribocharge: a multi-scale approach to an enduring problem in physics' - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Physical Review Letters publication_identifier: eissn: - 1079-7114 issn: - 0031-9007 publication_status: published publisher: American Physical Society quality_controlled: '1' related_material: record: - id: '8101' relation: research_paper status: public status: public title: Single-collision statistics reveal a global mechanism driven by sample history for contact electrification in granular media 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: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 130 year: '2023' ... --- _id: '14103' abstract: - lang: eng text: Observations of individual massive stars, super-luminous supernovae, gamma-ray bursts, and gravitational wave events involving spectacular black hole mergers indicate that the low-metallicity Universe is fundamentally different from our own Galaxy. Many transient phenomena will remain enigmatic until we achieve a firm understanding of the physics and evolution of massive stars at low metallicity (Z). The Hubble Space Telescope has devoted 500 orbits to observing ∼250 massive stars at low Z in the ultraviolet (UV) with the COS and STIS spectrographs under the ULLYSES programme. The complementary X-Shooting ULLYSES (XShootU) project provides an enhanced legacy value with high-quality optical and near-infrared spectra obtained with the wide-wavelength coverage X-shooter spectrograph at ESO’s Very Large Telescope. We present an overview of the XShootU project, showing that combining ULLYSES UV and XShootU optical spectra is critical for the uniform determination of stellar parameters such as effective temperature, surface gravity, luminosity, and abundances, as well as wind properties such as mass-loss rates as a function of Z. As uncertainties in stellar and wind parameters percolate into many adjacent areas of astrophysics, the data and modelling of the XShootU project is expected to be a game changer for our physical understanding of massive stars at low Z. To be able to confidently interpret James Webb Space Telescope spectra of the first stellar generations, the individual spectra of low-Z stars need to be understood, which is exactly where XShootU can deliver. article_number: A154 article_processing_charge: No article_type: original author: - first_name: Jorick S. full_name: Vink, Jorick S. last_name: Vink - first_name: A. full_name: Mehner, A. last_name: Mehner - first_name: P. A. full_name: Crowther, P. A. last_name: Crowther - first_name: A. full_name: Fullerton, A. last_name: Fullerton - first_name: M. full_name: Garcia, M. last_name: Garcia - first_name: F. full_name: Martins, F. last_name: Martins - first_name: N. full_name: Morrell, N. last_name: Morrell - first_name: L. M. full_name: Oskinova, L. M. last_name: Oskinova - first_name: N. full_name: St-Louis, N. last_name: St-Louis - first_name: A. full_name: ud-Doula, A. last_name: ud-Doula - first_name: A. A. C. full_name: Sander, A. A. C. last_name: Sander - first_name: H. full_name: Sana, H. last_name: Sana - first_name: J.-C. full_name: Bouret, J.-C. last_name: Bouret - first_name: B. full_name: Kubátová, B. last_name: Kubátová - first_name: P. full_name: Marchant, P. last_name: Marchant - first_name: L. P. full_name: Martins, L. P. last_name: Martins - first_name: A. full_name: Wofford, A. last_name: Wofford - first_name: J. Th. full_name: van Loon, J. Th. last_name: van Loon - first_name: O. full_name: Grace Telford, O. last_name: Grace Telford - first_name: Ylva Louise Linsdotter full_name: Götberg, Ylva Louise Linsdotter id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d last_name: Götberg orcid: 0000-0002-6960-6911 - first_name: D. M. full_name: Bowman, D. M. last_name: Bowman - first_name: C. full_name: Erba, C. last_name: Erba - first_name: V. M. full_name: Kalari, V. M. last_name: Kalari - first_name: M. full_name: Abdul-Masih, M. last_name: Abdul-Masih - first_name: T. full_name: Alkousa, T. last_name: Alkousa - first_name: F. full_name: Backs, F. last_name: Backs - first_name: C. L. full_name: Barbosa, C. L. last_name: Barbosa - first_name: S. R. full_name: Berlanas, S. R. last_name: Berlanas - first_name: M. full_name: Bernini-Peron, M. last_name: Bernini-Peron - first_name: J. M. full_name: Bestenlehner, J. M. last_name: Bestenlehner - first_name: R. full_name: Blomme, R. last_name: Blomme - first_name: J. full_name: Bodensteiner, J. last_name: Bodensteiner - first_name: S. A. full_name: Brands, S. A. last_name: Brands - first_name: C. J. full_name: Evans, C. J. last_name: Evans - first_name: A. full_name: David-Uraz, A. last_name: David-Uraz - first_name: F. A. full_name: Driessen, F. A. last_name: Driessen - first_name: K. full_name: Dsilva, K. last_name: Dsilva - first_name: S. full_name: Geen, S. last_name: Geen - first_name: V. M. A. full_name: Gómez-González, V. M. A. last_name: Gómez-González - first_name: L. full_name: Grassitelli, L. last_name: Grassitelli - first_name: W.-R. full_name: Hamann, W.-R. last_name: Hamann - first_name: C. full_name: Hawcroft, C. last_name: Hawcroft - first_name: A. full_name: Herrero, A. last_name: Herrero - first_name: E. R. full_name: Higgins, E. R. last_name: Higgins - first_name: D. full_name: John Hillier, D. last_name: John Hillier - first_name: R. full_name: Ignace, R. last_name: Ignace - first_name: A. G. full_name: Istrate, A. G. last_name: Istrate - first_name: L. full_name: Kaper, L. last_name: Kaper - first_name: N. D. full_name: Kee, N. D. last_name: Kee - first_name: C. full_name: Kehrig, C. last_name: Kehrig - first_name: Z. full_name: Keszthelyi, Z. last_name: Keszthelyi - first_name: J. full_name: Klencki, J. last_name: Klencki - first_name: A. full_name: de Koter, A. last_name: de Koter - first_name: R. full_name: Kuiper, R. last_name: Kuiper - first_name: E. full_name: Laplace, E. last_name: Laplace - first_name: C. J. K. full_name: Larkin, C. J. K. last_name: Larkin - first_name: R. R. full_name: Lefever, R. R. last_name: Lefever - first_name: C. full_name: Leitherer, C. last_name: Leitherer - first_name: D. J. full_name: Lennon, D. J. last_name: Lennon - first_name: L. full_name: Mahy, L. last_name: Mahy - first_name: J. full_name: Maíz Apellániz, J. last_name: Maíz Apellániz - first_name: G. full_name: Maravelias, G. last_name: Maravelias - first_name: W. full_name: Marcolino, W. last_name: Marcolino - first_name: A. F. full_name: McLeod, A. F. last_name: McLeod - first_name: S. E. full_name: de Mink, S. E. last_name: de Mink - first_name: F. full_name: Najarro, F. last_name: Najarro - first_name: M. S. full_name: Oey, M. S. last_name: Oey - first_name: T. N. full_name: Parsons, T. N. last_name: Parsons - first_name: D. full_name: Pauli, D. last_name: Pauli - first_name: M. G. full_name: Pedersen, M. G. last_name: Pedersen - first_name: R. K. full_name: Prinja, R. K. last_name: Prinja - first_name: V. full_name: Ramachandran, V. last_name: Ramachandran - first_name: M. C. full_name: Ramírez-Tannus, M. C. last_name: Ramírez-Tannus - first_name: G. N. full_name: Sabhahit, G. N. last_name: Sabhahit - first_name: A. full_name: Schootemeijer, A. last_name: Schootemeijer - first_name: S. full_name: Reyero Serantes, S. last_name: Reyero Serantes - first_name: T. full_name: Shenar, T. last_name: Shenar - first_name: G. S. full_name: Stringfellow, G. S. last_name: Stringfellow - first_name: N. full_name: Sudnik, N. last_name: Sudnik - first_name: F. full_name: Tramper, F. last_name: Tramper - first_name: L. full_name: Wang, L. last_name: Wang citation: ama: 'Vink JS, Mehner A, Crowther PA, et al. X-shooting ULLYSES: Massive stars at low metallicity. I. Project description. Astronomy & Astrophysics. 2023;675. doi:10.1051/0004-6361/202245650' apa: 'Vink, J. S., Mehner, A., Crowther, P. A., Fullerton, A., Garcia, M., Martins, F., … Wang, L. (2023). X-shooting ULLYSES: Massive stars at low metallicity. I. Project description. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/202245650' chicago: 'Vink, Jorick S., A. Mehner, P. A. Crowther, A. Fullerton, M. Garcia, F. Martins, N. Morrell, et al. “X-Shooting ULLYSES: Massive Stars at Low Metallicity. I. Project Description.” Astronomy & Astrophysics. EDP Sciences, 2023. https://doi.org/10.1051/0004-6361/202245650.' ieee: 'J. S. Vink et al., “X-shooting ULLYSES: Massive stars at low metallicity. I. Project description,” Astronomy & Astrophysics, vol. 675. EDP Sciences, 2023.' ista: 'Vink JS, Mehner A, Crowther PA, Fullerton A, Garcia M, Martins F, Morrell N, Oskinova LM, St-Louis N, ud-Doula A, Sander AAC, Sana H, Bouret J-C, Kubátová B, Marchant P, Martins LP, Wofford A, van Loon JT, Grace Telford O, Götberg YLL, Bowman DM, Erba C, Kalari VM, Abdul-Masih M, Alkousa T, Backs F, Barbosa CL, Berlanas SR, Bernini-Peron M, Bestenlehner JM, Blomme R, Bodensteiner J, Brands SA, Evans CJ, David-Uraz A, Driessen FA, Dsilva K, Geen S, Gómez-González VMA, Grassitelli L, Hamann W-R, Hawcroft C, Herrero A, Higgins ER, John Hillier D, Ignace R, Istrate AG, Kaper L, Kee ND, Kehrig C, Keszthelyi Z, Klencki J, de Koter A, Kuiper R, Laplace E, Larkin CJK, Lefever RR, Leitherer C, Lennon DJ, Mahy L, Maíz Apellániz J, Maravelias G, Marcolino W, McLeod AF, de Mink SE, Najarro F, Oey MS, Parsons TN, Pauli D, Pedersen MG, Prinja RK, Ramachandran V, Ramírez-Tannus MC, Sabhahit GN, Schootemeijer A, Reyero Serantes S, Shenar T, Stringfellow GS, Sudnik N, Tramper F, Wang L. 2023. X-shooting ULLYSES: Massive stars at low metallicity. I. Project description. Astronomy & Astrophysics. 675, A154.' mla: 'Vink, Jorick S., et al. “X-Shooting ULLYSES: Massive Stars at Low Metallicity. I. Project Description.” Astronomy & Astrophysics, vol. 675, A154, EDP Sciences, 2023, doi:10.1051/0004-6361/202245650.' short: J.S. Vink, A. Mehner, P.A. Crowther, A. Fullerton, M. Garcia, F. Martins, N. Morrell, L.M. Oskinova, N. St-Louis, A. ud-Doula, A.A.C. Sander, H. Sana, J.-C. Bouret, B. Kubátová, P. Marchant, L.P. Martins, A. Wofford, J.T. van Loon, O. Grace Telford, Y.L.L. Götberg, D.M. Bowman, C. Erba, V.M. Kalari, M. Abdul-Masih, T. Alkousa, F. Backs, C.L. Barbosa, S.R. Berlanas, M. Bernini-Peron, J.M. Bestenlehner, R. Blomme, J. Bodensteiner, S.A. Brands, C.J. Evans, A. David-Uraz, F.A. Driessen, K. Dsilva, S. Geen, V.M.A. Gómez-González, L. Grassitelli, W.-R. Hamann, C. Hawcroft, A. Herrero, E.R. Higgins, D. John Hillier, R. Ignace, A.G. Istrate, L. Kaper, N.D. Kee, C. Kehrig, Z. Keszthelyi, J. Klencki, A. de Koter, R. Kuiper, E. Laplace, C.J.K. Larkin, R.R. Lefever, C. Leitherer, D.J. Lennon, L. Mahy, J. Maíz Apellániz, G. Maravelias, W. Marcolino, A.F. McLeod, S.E. de Mink, F. Najarro, M.S. Oey, T.N. Parsons, D. Pauli, M.G. Pedersen, R.K. Prinja, V. Ramachandran, M.C. Ramírez-Tannus, G.N. Sabhahit, A. Schootemeijer, S. Reyero Serantes, T. Shenar, G.S. Stringfellow, N. Sudnik, F. Tramper, L. Wang, Astronomy & Astrophysics 675 (2023). date_created: 2023-08-21T10:12:35Z date_published: 2023-07-01T00:00:00Z date_updated: 2023-08-22T11:01:07Z day: '01' doi: 10.1051/0004-6361/202245650 extern: '1' external_id: arxiv: - '2305.06376' intvolume: ' 675' keyword: - Space and Planetary Science - Astronomy and Astrophysics language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1051/0004-6361/202245650 month: '07' oa: 1 oa_version: Published Version publication: Astronomy & Astrophysics publication_identifier: eissn: - 1432-0746 issn: - 0004-6361 publication_status: published publisher: EDP Sciences quality_controlled: '1' scopus_import: '1' status: public title: 'X-shooting ULLYSES: Massive stars at low metallicity. I. Project description' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 675 year: '2023' ... --- _id: '13175' abstract: - lang: eng text: "About a 100 years ago, we discovered that our universe is inherently noisy, that is, measuring any physical quantity with a precision beyond a certain point is not possible because of an omnipresent inherent noise. We call this - the quantum noise. Certain physical processes allow this quantum noise to get correlated in conjugate physical variables. These quantum correlations can be used to go beyond the potential of our inherently noisy universe and obtain a quantum advantage over the classical applications. \r\n\r\nQuantum noise being inherent also means that, at the fundamental level, the physical quantities are not well defined and therefore, objects can stay in multiple states at the same time. For example, the position of a particle not being well defined means that the particle is in multiple positions at the same time. About 4 decades ago, we started exploring the possibility of using objects which can be in multiple states at the same time to increase the dimensionality in computation. Thus, the field of quantum computing was born. We discovered that using quantum entanglement, a property closely related to quantum correlations, can be used to speed up computation of certain problems, such as factorisation of large numbers, faster than any known classical algorithm. Thus began the pursuit to make quantum computers a reality. \r\n\r\nTill date, we have explored quantum control over many physical systems including photons, spins, atoms, ions and even simple circuits made up of superconducting material. However, there persists one ubiquitous theme. The more readily a system interacts with an external field or matter, the more easily we can control it. But this also means that such a system can easily interact with a noisy environment and quickly lose its coherence. Consequently, such systems like electron spins need to be protected from the environment to ensure the longevity of their coherence. Other systems like nuclear spins are naturally protected as they do not interact easily with the environment. But, due to the same reason, it is harder to interact with such systems. \r\n\r\nAfter decades of experimentation with various systems, we are convinced that no one type of quantum system would be the best for all the quantum applications. We would need hybrid systems which are all interconnected - much like the current internet where all sorts of devices can all talk to each other - but now for quantum devices. A quantum internet. \r\n\r\nOptical photons are the best contenders to carry information for the quantum internet. They can carry quantum information cheaply and without much loss - the same reasons which has made them the backbone of our current internet. Following this direction, many systems, like trapped ions, have already demonstrated successful quantum links over a large distances using optical photons. However, some of the most promising contenders for quantum computing which are based on microwave frequencies have been left behind. This is because high energy optical photons can adversely affect fragile low-energy microwave systems. \r\n\r\nIn this thesis, we present substantial progress on this missing quantum link between microwave and optics using electrooptical nonlinearities in lithium niobate. The nonlinearities are enhanced by using resonant cavities for all the involved modes leading to observation of strong direct coupling between optical and microwave frequencies. With this strong coupling we are not only able to achieve almost 100\\% internal conversion efficiency with low added noise, thus presenting a quantum-enabled transducer, but also we are able to observe novel effects such as cooling of a microwave mode using optics. The strong coupling regime also leads to direct observation of dynamical backaction effect between microwave and optical frequencies which are studied in detail here. Finally, we also report first observation of microwave-optics entanglement in form of two-mode squeezed vacuum squeezed 0.7dB below vacuum level. \r\nWith this new bridge between microwave and optics, the microwave-based quantum technologies can finally be a part of a quantum network which is based on optical photons - putting us one step closer to a future with quantum internet. " acknowledged_ssus: - _id: M-Shop - _id: SSU - _id: NanoFab alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Rishabh full_name: Sahu, Rishabh id: 47D26E34-F248-11E8-B48F-1D18A9856A87 last_name: Sahu orcid: 0000-0001-6264-2162 citation: ama: Sahu R. Cavity quantum electrooptics. 2023. doi:10.15479/at:ista:13175 apa: Sahu, R. (2023). Cavity quantum electrooptics. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:13175 chicago: Sahu, Rishabh. “Cavity Quantum Electrooptics.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/at:ista:13175. ieee: R. Sahu, “Cavity quantum electrooptics,” Institute of Science and Technology Austria, 2023. ista: Sahu R. 2023. Cavity quantum electrooptics. Institute of Science and Technology Austria. mla: Sahu, Rishabh. Cavity Quantum Electrooptics. Institute of Science and Technology Austria, 2023, doi:10.15479/at:ista:13175. short: R. Sahu, Cavity Quantum Electrooptics, Institute of Science and Technology Austria, 2023. date_created: 2023-06-30T08:07:43Z date_published: 2023-05-05T00:00:00Z date_updated: 2023-08-24T11:16:35Z day: '05' ddc: - '537' - '535' - '539' degree_awarded: PhD department: - _id: GradSch - _id: JoFi doi: 10.15479/at:ista:13175 ec_funded: 1 file: - access_level: open_access checksum: 7d03f1a5a5258ee43dfc3323dea4e08f content_type: application/pdf creator: cchlebak date_created: 2023-06-30T08:17:25Z date_updated: 2023-06-30T08:17:25Z file_id: '13176' file_name: thesis_pdfa.pdf file_size: 18688376 relation: main_file success: 1 - access_level: closed checksum: c3b45317ae58e0527533f98c202d81b7 content_type: application/x-zip-compressed creator: cchlebak date_created: 2023-07-06T11:35:15Z date_updated: 2023-07-06T11:35:15Z file_id: '13196' file_name: thesis.zip file_size: 37847025 relation: source_file file_date_updated: 2023-07-06T11:35:15Z has_accepted_license: '1' keyword: - quantum optics - electrooptics - quantum networks - quantum communication - transduction language: - iso: eng license: https://creativecommons.org/licenses/by-nc-sa/4.0/ month: '05' oa: 1 oa_version: Published Version page: '202' project: - _id: 26336814-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '758053' name: A Fiber Optic Transceiver for Superconducting Qubits - _id: 9B868D20-BA93-11EA-9121-9846C619BF3A call_identifier: H2020 grant_number: '899354' name: Quantum Local Area Networks with Superconducting Qubits - _id: bdb108fd-d553-11ed-ba76-83dc74a9864f name: QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits publication_identifier: isbn: - 978-3-99078-030-5 issn: - 2663 - 337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '12900' relation: old_edition status: public - id: '10924' relation: part_of_dissertation status: public - id: '9114' relation: part_of_dissertation status: public status: public supervisor: - first_name: Johannes M full_name: Fink, Johannes M id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X title: Cavity quantum electrooptics 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: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2023' ... --- _id: '14242' abstract: - lang: eng text: We study the problem of training and certifying adversarially robust quantized neural networks (QNNs). Quantization is a technique for making neural networks more efficient by running them using low-bit integer arithmetic and is therefore commonly adopted in industry. Recent work has shown that floating-point neural networks that have been verified to be robust can become vulnerable to adversarial attacks after quantization, and certification of the quantized representation is necessary to guarantee robustness. In this work, we present quantization-aware interval bound propagation (QA-IBP), a novel method for training robust QNNs. Inspired by advances in robust learning of non-quantized networks, our training algorithm computes the gradient of an abstract representation of the actual network. Unlike existing approaches, our method can handle the discrete semantics of QNNs. Based on QA-IBP, we also develop a complete verification procedure for verifying the adversarial robustness of QNNs, which is guaranteed to terminate and produce a correct answer. Compared to existing approaches, the key advantage of our verification procedure is that it runs entirely on GPU or other accelerator devices. We demonstrate experimentally that our approach significantly outperforms existing methods and establish the new state-of-the-art for training and certifying the robustness of QNNs. acknowledgement: "This work was supported in part by the ERC-2020-AdG 101020093, ERC CoG 863818 (FoRM-SMArt) and the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385. Research was sponsored by the United\r\nStates Air Force Research Laboratory and the United States Air Force Artificial Intelligence Accelerator and was accomplished under Cooperative Agreement Number FA8750-19-2-\r\n1000. The views and conclusions contained in this document are those of the authors and should not be interpreted as representing the official policies, either expressed or implied,\r\nof the United States Air Force or the U.S. Government. The U.S. Government is authorized to reproduce and distribute reprints for Government purposes notwithstanding any copyright\r\nnotation herein. The research was also funded in part by the AI2050 program at Schmidt Futures (Grant G-22-63172) and Capgemini SE." article_processing_charge: No author: - first_name: Mathias full_name: Lechner, Mathias id: 3DC22916-F248-11E8-B48F-1D18A9856A87 last_name: Lechner - first_name: Dorde full_name: Zikelic, Dorde id: 294AA7A6-F248-11E8-B48F-1D18A9856A87 last_name: Zikelic orcid: 0000-0002-4681-1699 - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Thomas A full_name: Henzinger, Thomas A id: 40876CD8-F248-11E8-B48F-1D18A9856A87 last_name: Henzinger orcid: 0000-0002-2985-7724 - first_name: Daniela full_name: Rus, Daniela last_name: Rus citation: ama: 'Lechner M, Zikelic D, Chatterjee K, Henzinger TA, Rus D. Quantization-aware interval bound propagation for training certifiably robust quantized neural networks. In: Proceedings of the 37th AAAI Conference on Artificial Intelligence. Vol 37. Association for the Advancement of Artificial Intelligence; 2023:14964-14973. doi:10.1609/aaai.v37i12.26747' apa: 'Lechner, M., Zikelic, D., Chatterjee, K., Henzinger, T. A., & Rus, D. (2023). Quantization-aware interval bound propagation for training certifiably robust quantized neural networks. In Proceedings of the 37th AAAI Conference on Artificial Intelligence (Vol. 37, pp. 14964–14973). Washington, DC, United States: Association for the Advancement of Artificial Intelligence. https://doi.org/10.1609/aaai.v37i12.26747' chicago: Lechner, Mathias, Dorde Zikelic, Krishnendu Chatterjee, Thomas A Henzinger, and Daniela Rus. “Quantization-Aware Interval Bound Propagation for Training Certifiably Robust Quantized Neural Networks.” In Proceedings of the 37th AAAI Conference on Artificial Intelligence, 37:14964–73. Association for the Advancement of Artificial Intelligence, 2023. https://doi.org/10.1609/aaai.v37i12.26747. ieee: M. Lechner, D. Zikelic, K. Chatterjee, T. A. Henzinger, and D. Rus, “Quantization-aware interval bound propagation for training certifiably robust quantized neural networks,” in Proceedings of the 37th AAAI Conference on Artificial Intelligence, Washington, DC, United States, 2023, vol. 37, no. 12, pp. 14964–14973. ista: 'Lechner M, Zikelic D, Chatterjee K, Henzinger TA, Rus D. 2023. Quantization-aware interval bound propagation for training certifiably robust quantized neural networks. Proceedings of the 37th AAAI Conference on Artificial Intelligence. AAAI: Conference on Artificial Intelligence vol. 37, 14964–14973.' mla: Lechner, Mathias, et al. “Quantization-Aware Interval Bound Propagation for Training Certifiably Robust Quantized Neural Networks.” Proceedings of the 37th AAAI Conference on Artificial Intelligence, vol. 37, no. 12, Association for the Advancement of Artificial Intelligence, 2023, pp. 14964–73, doi:10.1609/aaai.v37i12.26747. short: M. Lechner, D. Zikelic, K. Chatterjee, T.A. Henzinger, D. Rus, in:, Proceedings of the 37th AAAI Conference on Artificial Intelligence, Association for the Advancement of Artificial Intelligence, 2023, pp. 14964–14973. conference: end_date: 2023-02-14 location: Washington, DC, United States name: 'AAAI: Conference on Artificial Intelligence' start_date: 2023-02-07 date_created: 2023-08-27T22:01:17Z date_published: 2023-06-26T00:00:00Z date_updated: 2023-09-05T07:06:14Z day: '26' department: - _id: ToHe - _id: KrCh doi: 10.1609/aaai.v37i12.26747 ec_funded: 1 external_id: arxiv: - '2211.16187' intvolume: ' 37' issue: '12' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2211.16187 month: '06' oa: 1 oa_version: Preprint page: 14964-14973 project: - _id: 62781420-2b32-11ec-9570-8d9b63373d4d call_identifier: H2020 grant_number: '101020093' name: Vigilant Algorithmic Monitoring of Software - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program publication: Proceedings of the 37th AAAI Conference on Artificial Intelligence publication_identifier: isbn: - '9781577358800' publication_status: published publisher: Association for the Advancement of Artificial Intelligence quality_controlled: '1' scopus_import: '1' status: public title: Quantization-aware interval bound propagation for training certifiably robust quantized neural networks type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 37 year: '2023' ... --- _id: '14243' abstract: - lang: eng text: 'Two-player zero-sum "graph games" are central in logic, verification, and multi-agent systems. The game proceeds by placing a token on a vertex of a graph, and allowing the players to move it to produce an infinite path, which determines the winner or payoff of the game. Traditionally, the players alternate turns in moving the token. In "bidding games", however, the players have budgets and in each turn, an auction (bidding) determines which player moves the token. So far, bidding games have only been studied as full-information games. In this work we initiate the study of partial-information bidding games: we study bidding games in which a player''s initial budget is drawn from a known probability distribution. We show that while for some bidding mechanisms and objectives, it is straightforward to adapt the results from the full-information setting to the partial-information setting, for others, the analysis is significantly more challenging, requires new techniques, and gives rise to interesting results. Specifically, we study games with "mean-payoff" objectives in combination with "poorman" bidding. We construct optimal strategies for a partially-informed player who plays against a fully-informed adversary. We show that, somewhat surprisingly, the "value" under pure strategies does not necessarily exist in such games.' acknowledgement: This research was supported in part by ISF grant no.1679/21, by the ERC CoG 863818 (ForM-SMArt), and the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385. article_processing_charge: No author: - first_name: Guy full_name: Avni, Guy id: 463C8BC2-F248-11E8-B48F-1D18A9856A87 last_name: Avni orcid: 0000-0001-5588-8287 - first_name: Ismael R full_name: Jecker, Ismael R id: 85D7C63E-7D5D-11E9-9C0F-98C4E5697425 last_name: Jecker - first_name: Dorde full_name: Zikelic, Dorde id: 294AA7A6-F248-11E8-B48F-1D18A9856A87 last_name: Zikelic orcid: 0000-0002-4681-1699 citation: ama: 'Avni G, Jecker IR, Zikelic D. Bidding graph games with partially-observable budgets. In: Proceedings of the 37th AAAI Conference on Artificial Intelligence. Vol 37. ; 2023:5464-5471. doi:10.1609/aaai.v37i5.25679' apa: Avni, G., Jecker, I. R., & Zikelic, D. (2023). Bidding graph games with partially-observable budgets. In Proceedings of the 37th AAAI Conference on Artificial Intelligence (Vol. 37, pp. 5464–5471). Washington, DC, United States. https://doi.org/10.1609/aaai.v37i5.25679 chicago: Avni, Guy, Ismael R Jecker, and Dorde Zikelic. “Bidding Graph Games with Partially-Observable Budgets.” In Proceedings of the 37th AAAI Conference on Artificial Intelligence, 37:5464–71, 2023. https://doi.org/10.1609/aaai.v37i5.25679. ieee: G. Avni, I. R. Jecker, and D. Zikelic, “Bidding graph games with partially-observable budgets,” in Proceedings of the 37th AAAI Conference on Artificial Intelligence, Washington, DC, United States, 2023, vol. 37, no. 5, pp. 5464–5471. ista: 'Avni G, Jecker IR, Zikelic D. 2023. Bidding graph games with partially-observable budgets. Proceedings of the 37th AAAI Conference on Artificial Intelligence. AAAI: Conference on Artificial Intelligence vol. 37, 5464–5471.' mla: Avni, Guy, et al. “Bidding Graph Games with Partially-Observable Budgets.” Proceedings of the 37th AAAI Conference on Artificial Intelligence, vol. 37, no. 5, 2023, pp. 5464–71, doi:10.1609/aaai.v37i5.25679. short: G. Avni, I.R. Jecker, D. Zikelic, in:, Proceedings of the 37th AAAI Conference on Artificial Intelligence, 2023, pp. 5464–5471. conference: end_date: 2023-02-14 location: Washington, DC, United States name: 'AAAI: Conference on Artificial Intelligence' start_date: 2023-02-07 date_created: 2023-08-27T22:01:18Z date_published: 2023-06-27T00:00:00Z date_updated: 2023-09-05T08:37:00Z day: '27' department: - _id: ToHe - _id: KrCh doi: 10.1609/aaai.v37i5.25679 ec_funded: 1 external_id: arxiv: - '2211.13626' intvolume: ' 37' issue: '5' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1609/aaai.v37i5.25679 month: '06' oa: 1 oa_version: Published Version page: 5464-5471 project: - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program publication: Proceedings of the 37th AAAI Conference on Artificial Intelligence publication_identifier: isbn: - '9781577358800' publication_status: published quality_controlled: '1' scopus_import: '1' status: public title: Bidding graph games with partially-observable budgets type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 37 year: '2023' ... --- _id: '14241' abstract: - lang: eng text: We present a technique to optimize the reflectivity of a surface while preserving its overall shape. The naïve optimization of the mesh vertices using the gradients of reflectivity simulations results in undesirable distortion. In contrast, our robust formulation optimizes the surface normal as an independent variable that bridges the reflectivity term with differential rendering, and the regularization term with as-rigid-as-possible elastic energy. We further adaptively subdivide the input mesh to improve the convergence. Consequently, our method can minimize the retroreflectivity of a wide range of input shapes, resulting in sharply creased shapes ubiquitous among stealth aircraft and Sci-Fi vehicles. Furthermore, by changing the reward for the direction of the outgoing light directions, our method can be applied to other reflectivity design tasks, such as the optimization of architectural walls to concentrate light in a specific region. We have tested the proposed method using light-transport simulations and real-world 3D-printed objects. acknowledgement: "The authors would like to thank Yuki Koyama and Takeo Igarashi for early discussions, and Yuta Yaguchi for support in 3D printing. This research is partially supported by the Israel Science Foundation grant number 1390/19.\r\n" article_number: '20' article_processing_charge: No author: - first_name: Kenji full_name: Tojo, Kenji last_name: Tojo - first_name: Ariel full_name: Shamir, Ariel last_name: Shamir - first_name: Bernd full_name: Bickel, Bernd id: 49876194-F248-11E8-B48F-1D18A9856A87 last_name: Bickel orcid: 0000-0001-6511-9385 - first_name: Nobuyuki full_name: Umetani, Nobuyuki last_name: Umetani citation: ama: 'Tojo K, Shamir A, Bickel B, Umetani N. Stealth shaper: Reflectivity optimization as surface stylization. In: SIGGRAPH 2023 Conference Proceedings. Association for Computing Machinery; 2023. doi:10.1145/3588432.3591542' apa: 'Tojo, K., Shamir, A., Bickel, B., & Umetani, N. (2023). Stealth shaper: Reflectivity optimization as surface stylization. In SIGGRAPH 2023 Conference Proceedings. Los Angeles, CA, United States: Association for Computing Machinery. https://doi.org/10.1145/3588432.3591542' chicago: 'Tojo, Kenji, Ariel Shamir, Bernd Bickel, and Nobuyuki Umetani. “Stealth Shaper: Reflectivity Optimization as Surface Stylization.” In SIGGRAPH 2023 Conference Proceedings. Association for Computing Machinery, 2023. https://doi.org/10.1145/3588432.3591542.' ieee: 'K. Tojo, A. Shamir, B. Bickel, and N. Umetani, “Stealth shaper: Reflectivity optimization as surface stylization,” in SIGGRAPH 2023 Conference Proceedings, Los Angeles, CA, United States, 2023.' ista: 'Tojo K, Shamir A, Bickel B, Umetani N. 2023. Stealth shaper: Reflectivity optimization as surface stylization. SIGGRAPH 2023 Conference Proceedings. SIGGRAPH: Computer Graphics and Interactive Techniques Conference, 20.' mla: 'Tojo, Kenji, et al. “Stealth Shaper: Reflectivity Optimization as Surface Stylization.” SIGGRAPH 2023 Conference Proceedings, 20, Association for Computing Machinery, 2023, doi:10.1145/3588432.3591542.' short: K. Tojo, A. Shamir, B. Bickel, N. Umetani, in:, SIGGRAPH 2023 Conference Proceedings, Association for Computing Machinery, 2023. conference: end_date: 2023-08-10 location: Los Angeles, CA, United States name: 'SIGGRAPH: Computer Graphics and Interactive Techniques Conference' start_date: 2023-08-06 date_created: 2023-08-27T22:01:17Z date_published: 2023-07-23T00:00:00Z date_updated: 2023-09-05T07:22:03Z day: '23' department: - _id: BeBi doi: 10.1145/3588432.3591542 external_id: arxiv: - '2305.05944' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2305.05944 month: '07' oa: 1 oa_version: Preprint publication: SIGGRAPH 2023 Conference Proceedings publication_identifier: isbn: - '9798400701597' publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' scopus_import: '1' status: public title: 'Stealth shaper: Reflectivity optimization as surface stylization' type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '13310' abstract: - lang: eng text: Machine-learned systems are in widespread use for making decisions about humans, and it is important that they are fair, i.e., not biased against individuals based on sensitive attributes. We present runtime verification of algorithmic fairness for systems whose models are unknown, but are assumed to have a Markov chain structure. We introduce a specification language that can model many common algorithmic fairness properties, such as demographic parity, equal opportunity, and social burden. We build monitors that observe a long sequence of events as generated by a given system, and output, after each observation, a quantitative estimate of how fair or biased the system was on that run until that point in time. The estimate is proven to be correct modulo a variable error bound and a given confidence level, where the error bound gets tighter as the observed sequence gets longer. Our monitors are of two types, and use, respectively, frequentist and Bayesian statistical inference techniques. While the frequentist monitors compute estimates that are objectively correct with respect to the ground truth, the Bayesian monitors compute estimates that are correct subject to a given prior belief about the system’s model. Using a prototype implementation, we show how we can monitor if a bank is fair in giving loans to applicants from different social backgrounds, and if a college is fair in admitting students while maintaining a reasonable financial burden on the society. Although they exhibit different theoretical complexities in certain cases, in our experiments, both frequentist and Bayesian monitors took less than a millisecond to update their verdicts after each observation. acknowledgement: 'This work is supported by the European Research Council under Grant No.: ERC-2020-AdG101020093.' alternative_title: - LNCS article_processing_charge: Yes (in subscription journal) author: - first_name: Thomas A full_name: Henzinger, Thomas A id: 40876CD8-F248-11E8-B48F-1D18A9856A87 last_name: Henzinger orcid: 0000-0002-2985-7724 - first_name: Mahyar full_name: Karimi, Mahyar id: f1dedef5-2f78-11ee-989a-c4c97bccf506 last_name: Karimi orcid: 0009-0005-0820-1696 - first_name: Konstantin full_name: Kueffner, Konstantin id: 8121a2d0-dc85-11ea-9058-af578f3b4515 last_name: Kueffner orcid: 0000-0001-8974-2542 - first_name: Kaushik full_name: Mallik, Kaushik id: 0834ff3c-6d72-11ec-94e0-b5b0a4fb8598 last_name: Mallik orcid: 0000-0001-9864-7475 citation: ama: 'Henzinger TA, Karimi M, Kueffner K, Mallik K. Monitoring algorithmic fairness. In: Computer Aided Verification. Vol 13965. Springer Nature; 2023:358–382. doi:10.1007/978-3-031-37703-7_17' apa: 'Henzinger, T. A., Karimi, M., Kueffner, K., & Mallik, K. (2023). Monitoring algorithmic fairness. In Computer Aided Verification (Vol. 13965, pp. 358–382). Paris, France: Springer Nature. https://doi.org/10.1007/978-3-031-37703-7_17' chicago: Henzinger, Thomas A, Mahyar Karimi, Konstantin Kueffner, and Kaushik Mallik. “Monitoring Algorithmic Fairness.” In Computer Aided Verification, 13965:358–382. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-37703-7_17. ieee: T. A. Henzinger, M. Karimi, K. Kueffner, and K. Mallik, “Monitoring algorithmic fairness,” in Computer Aided Verification, Paris, France, 2023, vol. 13965, pp. 358–382. ista: 'Henzinger TA, Karimi M, Kueffner K, Mallik K. 2023. Monitoring algorithmic fairness. Computer Aided Verification. CAV: Computer Aided Verification, LNCS, vol. 13965, 358–382.' mla: Henzinger, Thomas A., et al. “Monitoring Algorithmic Fairness.” Computer Aided Verification, vol. 13965, Springer Nature, 2023, pp. 358–382, doi:10.1007/978-3-031-37703-7_17. short: T.A. Henzinger, M. Karimi, K. Kueffner, K. Mallik, in:, Computer Aided Verification, Springer Nature, 2023, pp. 358–382. conference: end_date: 2023-07-22 location: Paris, France name: 'CAV: Computer Aided Verification' start_date: 2023-07-17 date_created: 2023-07-25T18:32:40Z date_published: 2023-07-18T00:00:00Z date_updated: 2023-09-05T15:14:00Z day: '18' ddc: - '000' department: - _id: GradSch - _id: ToHe doi: 10.1007/978-3-031-37703-7_17 ec_funded: 1 external_id: arxiv: - '2305.15979' file: - access_level: open_access checksum: ccaf94bf7d658ba012c016e11869b54c content_type: application/pdf creator: dernst date_created: 2023-07-31T08:11:20Z date_updated: 2023-07-31T08:11:20Z file_id: '13327' file_name: 2023_LNCS_CAV_HenzingerT.pdf file_size: 647760 relation: main_file success: 1 file_date_updated: 2023-07-31T08:11:20Z has_accepted_license: '1' intvolume: ' 13965' language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 358–382 project: - _id: 62781420-2b32-11ec-9570-8d9b63373d4d call_identifier: H2020 grant_number: '101020093' name: Vigilant Algorithmic Monitoring of Software publication: Computer Aided Verification publication_identifier: eisbn: - '9783031377037' eissn: - 1611-3349 isbn: - '9783031377020' issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' status: public title: Monitoring algorithmic fairness 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: conference user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 13965 year: '2023' ... --- _id: '12205' abstract: - lang: eng text: "Background: This study seeks to evaluate the impact of breast cancer (BRCA) gene status on tumor dissemination pattern, surgical outcome and survival in a multicenter cohort of paired primary ovarian cancer (pOC) and recurrent ovarian cancer (rOC).\r\n\r\nPatients and Methods: Medical records and follow-up data from 190 patients were gathered retrospectively. All patients had surgery at pOC and at least one further rOC surgery at four European high-volume centers. Patients were divided into one cohort with confirmed mutation for BRCA1 and/or BRCA2 (BRCAmut) and a second cohort with BRCA wild type or unknown (BRCAwt). Patterns of tumor presentation, surgical outcome and survival data were analyzed between the two groups.\r\n\r\nResults: Patients with BRCAmut disease were on average 4 years younger and had significantly more tumor involvement upon diagnosis. Patients with BRCAmut disease showed higher debulking rates at all stages. Multivariate analysis showed that only patient age had significant predictive value for complete tumor resection in pOC. At rOC, however, only BRCAmut status significantly correlated with optimal debulking. Patients with BRCAmut disease showed significantly prolonged overall survival (OS) by 24.3 months. Progression-free survival (PFS) was prolonged in the BRCAmut group at all stages as well, reaching statistical significance during recurrence.\r\n\r\nConclusions: Patients with BRCAmut disease showed a more aggressive course of disease with earlier onset and more extensive tumor dissemination at pOC. However, surgical outcome and OS were significantly better in patients with BRCAmut disease compared with patients with BRCAwt disease. We therefore propose to consider BRCAmut status in regard to patient selection for cytoreductive surgery, especially in rOC." acknowledgement: "E.I.B. is a Feodor Lynen fellow of the Humboldt Foundation and a participant of the Charité Clinical Scientist Program funded by the Charité Universitätsmedizin Berlin and the Berlin Institute of Health. This work was supported by European Commission’s Seventh Framework Programme under grant agreement no. 279113 (OCTIPS; www.octips.eu).\r\nOpen Access funding enabled and organized by Projekt DEAL." article_processing_charge: No article_type: original author: - first_name: Jacek full_name: Glajzer, Jacek last_name: Glajzer - first_name: Dan Cacsire full_name: Castillo-Tong, Dan Cacsire last_name: Castillo-Tong - first_name: Rolf full_name: Richter, Rolf last_name: Richter - first_name: Ignace full_name: Vergote, Ignace last_name: Vergote - first_name: Hagen full_name: Kulbe, Hagen last_name: Kulbe - first_name: Adriaan full_name: Vanderstichele, Adriaan last_name: Vanderstichele - first_name: Ilary full_name: Ruscito, Ilary last_name: Ruscito - first_name: Fabian full_name: Trillsch, Fabian last_name: Trillsch - first_name: Alexander full_name: Mustea, Alexander last_name: Mustea - first_name: Caroline full_name: Kreuzinger, Caroline id: 382077BA-F248-11E8-B48F-1D18A9856A87 last_name: Kreuzinger - first_name: Charlie full_name: Gourley, Charlie last_name: Gourley - first_name: Hani full_name: Gabra, Hani last_name: Gabra - first_name: Eliane T. full_name: Taube, Eliane T. last_name: Taube - first_name: Oliver full_name: Dorigo, Oliver last_name: Dorigo - first_name: David full_name: Horst, David last_name: Horst - first_name: Carlotta full_name: Keunecke, Carlotta last_name: Keunecke - first_name: Joanna full_name: Baum, Joanna last_name: Baum - first_name: Timothy full_name: Angelotti, Timothy last_name: Angelotti - first_name: Jalid full_name: Sehouli, Jalid last_name: Sehouli - first_name: Elena Ioana full_name: Braicu, Elena Ioana last_name: Braicu citation: ama: 'Glajzer J, Castillo-Tong DC, Richter R, et al. Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome and patient survival in primary and recurrent high-grade serous ovarian cancer: A multicenter retrospective study by the Ovarian Cancer Therapy-Innovative Models Prolong Survival (OCTIPS) consortium. Annals of Surgical Oncology. 2023;30:35-45. doi:10.1245/s10434-022-12459-3' apa: 'Glajzer, J., Castillo-Tong, D. C., Richter, R., Vergote, I., Kulbe, H., Vanderstichele, A., … Braicu, E. I. (2023). Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome and patient survival in primary and recurrent high-grade serous ovarian cancer: A multicenter retrospective study by the Ovarian Cancer Therapy-Innovative Models Prolong Survival (OCTIPS) consortium. Annals of Surgical Oncology. Springer Nature. https://doi.org/10.1245/s10434-022-12459-3' chicago: 'Glajzer, Jacek, Dan Cacsire Castillo-Tong, Rolf Richter, Ignace Vergote, Hagen Kulbe, Adriaan Vanderstichele, Ilary Ruscito, et al. “Impact of BRCA Mutation Status on Tumor Dissemination Pattern, Surgical Outcome and Patient Survival in Primary and Recurrent High-Grade Serous Ovarian Cancer: A Multicenter Retrospective Study by the Ovarian Cancer Therapy-Innovative Models Prolong Survival (OCTIPS) Consortium.” Annals of Surgical Oncology. Springer Nature, 2023. https://doi.org/10.1245/s10434-022-12459-3.' ieee: 'J. Glajzer et al., “Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome and patient survival in primary and recurrent high-grade serous ovarian cancer: A multicenter retrospective study by the Ovarian Cancer Therapy-Innovative Models Prolong Survival (OCTIPS) consortium,” Annals of Surgical Oncology, vol. 30. Springer Nature, pp. 35–45, 2023.' ista: 'Glajzer J, Castillo-Tong DC, Richter R, Vergote I, Kulbe H, Vanderstichele A, Ruscito I, Trillsch F, Mustea A, Kreuzinger C, Gourley C, Gabra H, Taube ET, Dorigo O, Horst D, Keunecke C, Baum J, Angelotti T, Sehouli J, Braicu EI. 2023. Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome and patient survival in primary and recurrent high-grade serous ovarian cancer: A multicenter retrospective study by the Ovarian Cancer Therapy-Innovative Models Prolong Survival (OCTIPS) consortium. Annals of Surgical Oncology. 30, 35–45.' mla: 'Glajzer, Jacek, et al. “Impact of BRCA Mutation Status on Tumor Dissemination Pattern, Surgical Outcome and Patient Survival in Primary and Recurrent High-Grade Serous Ovarian Cancer: A Multicenter Retrospective Study by the Ovarian Cancer Therapy-Innovative Models Prolong Survival (OCTIPS) Consortium.” Annals of Surgical Oncology, vol. 30, Springer Nature, 2023, pp. 35–45, doi:10.1245/s10434-022-12459-3.' short: J. Glajzer, D.C. Castillo-Tong, R. Richter, I. Vergote, H. Kulbe, A. Vanderstichele, I. Ruscito, F. Trillsch, A. Mustea, C. Kreuzinger, C. Gourley, H. Gabra, E.T. Taube, O. Dorigo, D. Horst, C. Keunecke, J. Baum, T. Angelotti, J. Sehouli, E.I. Braicu, Annals of Surgical Oncology 30 (2023) 35–45. date_created: 2023-01-16T09:44:36Z date_published: 2023-01-01T00:00:00Z date_updated: 2023-09-05T15:18:37Z day: '01' ddc: - '610' department: - _id: JoDa doi: 10.1245/s10434-022-12459-3 external_id: isi: - '000852125500006' file: - access_level: open_access checksum: 36a1200e1011f4b2155a8041d0308f34 content_type: application/pdf creator: dernst date_created: 2023-02-02T13:01:20Z date_updated: 2023-02-02T13:01:20Z file_id: '12490' file_name: 2023_AnnalsSurgicalOncology_Glajzer.pdf file_size: 365865 relation: main_file success: 1 file_date_updated: 2023-02-02T13:01:20Z has_accepted_license: '1' intvolume: ' 30' isi: 1 keyword: - Oncology - Surgery language: - iso: eng month: '01' oa: 1 oa_version: Published Version page: 35-45 publication: Annals of Surgical Oncology publication_identifier: eissn: - 1534-4681 issn: - 1068-9265 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '12115' relation: other status: public scopus_import: '1' status: public title: 'Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome and patient survival in primary and recurrent high-grade serous ovarian cancer: A multicenter retrospective study by the Ovarian Cancer Therapy-Innovative Models Prolong Survival (OCTIPS) consortium' 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: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 30 year: '2023' ... --- _id: '12115' acknowledgement: This work was supported by European Commission’s Seventh Framework Programme under Grant Agreement No. 279113 (OCTIPS; www.octips.eu). article_processing_charge: No article_type: original author: - first_name: Jacek full_name: Glajzer, Jacek last_name: Glajzer - first_name: Dan Cacsire full_name: Castillo-Tong, Dan Cacsire last_name: Castillo-Tong - first_name: Rolf full_name: Richter, Rolf last_name: Richter - first_name: Ignace full_name: Vergote, Ignace last_name: Vergote - first_name: Hagen full_name: Kulbe, Hagen last_name: Kulbe - first_name: Adriaan full_name: Vanderstichele, Adriaan last_name: Vanderstichele - first_name: Ilary full_name: Ruscito, Ilary last_name: Ruscito - first_name: Fabian full_name: Trillsch, Fabian last_name: Trillsch - first_name: Alexander full_name: Mustea, Alexander last_name: Mustea - first_name: Caroline full_name: Kreuzinger, Caroline id: 382077BA-F248-11E8-B48F-1D18A9856A87 last_name: Kreuzinger - first_name: Charlie full_name: Gourley, Charlie last_name: Gourley - first_name: Hani full_name: Gabra, Hani last_name: Gabra - first_name: Eliane T. full_name: Taube, Eliane T. last_name: Taube - first_name: Oliver full_name: Dorigo, Oliver last_name: Dorigo - first_name: David full_name: Horst, David last_name: Horst - first_name: Carlotta full_name: Keunecke, Carlotta last_name: Keunecke - first_name: Joanna full_name: Baum, Joanna last_name: Baum - first_name: Timothy full_name: Angelotti, Timothy last_name: Angelotti - first_name: Jalid full_name: Sehouli, Jalid last_name: Sehouli - first_name: Elena Ioana full_name: Braicu, Elena Ioana last_name: Braicu citation: ama: 'Glajzer J, Castillo-Tong DC, Richter R, et al. ASO Visual Abstract: Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome, and patient survival in primary and recurrent high-grade serous ovarian cancer (HGSOC). A multicenter, retrospective study of the ovarian cancer therapy—innovative models prolong survival (OCTIPS) consortium. Annals of Surgical Oncology. 2023;30:46-47. doi:10.1245/s10434-022-12681-z' apa: 'Glajzer, J., Castillo-Tong, D. C., Richter, R., Vergote, I., Kulbe, H., Vanderstichele, A., … Braicu, E. I. (2023). ASO Visual Abstract: Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome, and patient survival in primary and recurrent high-grade serous ovarian cancer (HGSOC). A multicenter, retrospective study of the ovarian cancer therapy—innovative models prolong survival (OCTIPS) consortium. Annals of Surgical Oncology. Springer Nature. https://doi.org/10.1245/s10434-022-12681-z' chicago: 'Glajzer, Jacek, Dan Cacsire Castillo-Tong, Rolf Richter, Ignace Vergote, Hagen Kulbe, Adriaan Vanderstichele, Ilary Ruscito, et al. “ASO Visual Abstract: Impact of BRCA Mutation Status on Tumor Dissemination Pattern, Surgical Outcome, and Patient Survival in Primary and Recurrent High-Grade Serous Ovarian Cancer (HGSOC). A Multicenter, Retrospective Study of the Ovarian Cancer Therapy—Innovative Models Prolong Survival (OCTIPS) Consortium.” Annals of Surgical Oncology. Springer Nature, 2023. https://doi.org/10.1245/s10434-022-12681-z.' ieee: 'J. Glajzer et al., “ASO Visual Abstract: Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome, and patient survival in primary and recurrent high-grade serous ovarian cancer (HGSOC). A multicenter, retrospective study of the ovarian cancer therapy—innovative models prolong survival (OCTIPS) consortium,” Annals of Surgical Oncology, vol. 30. Springer Nature, pp. 46–47, 2023.' ista: 'Glajzer J, Castillo-Tong DC, Richter R, Vergote I, Kulbe H, Vanderstichele A, Ruscito I, Trillsch F, Mustea A, Kreuzinger C, Gourley C, Gabra H, Taube ET, Dorigo O, Horst D, Keunecke C, Baum J, Angelotti T, Sehouli J, Braicu EI. 2023. ASO Visual Abstract: Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome, and patient survival in primary and recurrent high-grade serous ovarian cancer (HGSOC). A multicenter, retrospective study of the ovarian cancer therapy—innovative models prolong survival (OCTIPS) consortium. Annals of Surgical Oncology. 30, 46–47.' mla: 'Glajzer, Jacek, et al. “ASO Visual Abstract: Impact of BRCA Mutation Status on Tumor Dissemination Pattern, Surgical Outcome, and Patient Survival in Primary and Recurrent High-Grade Serous Ovarian Cancer (HGSOC). A Multicenter, Retrospective Study of the Ovarian Cancer Therapy—Innovative Models Prolong Survival (OCTIPS) Consortium.” Annals of Surgical Oncology, vol. 30, Springer Nature, 2023, pp. 46–47, doi:10.1245/s10434-022-12681-z.' short: J. Glajzer, D.C. Castillo-Tong, R. Richter, I. Vergote, H. Kulbe, A. Vanderstichele, I. Ruscito, F. Trillsch, A. Mustea, C. Kreuzinger, C. Gourley, H. Gabra, E.T. Taube, O. Dorigo, D. Horst, C. Keunecke, J. Baum, T. Angelotti, J. Sehouli, E.I. Braicu, Annals of Surgical Oncology 30 (2023) 46–47. date_created: 2023-01-12T11:56:22Z date_published: 2023-01-01T00:00:00Z date_updated: 2023-09-05T15:18:36Z day: '01' department: - _id: JoDa doi: 10.1245/s10434-022-12681-z external_id: isi: - '000879151800001' intvolume: ' 30' isi: 1 keyword: - Oncology - Surgery language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1245/s10434-022-12681-z month: '01' oa: 1 oa_version: Published Version page: 46-47 publication: Annals of Surgical Oncology publication_identifier: eissn: - 1534-4681 issn: - 1068-9265 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '12205' relation: other status: public scopus_import: '1' status: public title: 'ASO Visual Abstract: Impact of BRCA mutation status on tumor dissemination pattern, surgical outcome, and patient survival in primary and recurrent high-grade serous ovarian cancer (HGSOC). A multicenter, retrospective study of the ovarian cancer therapy—innovative models prolong survival (OCTIPS) consortium' type: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 30 year: '2023' ... --- _id: '14253' abstract: - lang: eng text: Junctions between the endoplasmic reticulum (ER) and the plasma membrane (PM) are specialized membrane contacts ubiquitous in eukaryotic cells. Concentration of intracellular signaling machinery near ER-PM junctions allows these domains to serve critical roles in lipid and Ca2+ signaling and homeostasis. Subcellular compartmentalization of protein kinase A (PKA) signaling also regulates essential cellular functions, however, no specific association between PKA and ER-PM junctional domains is known. Here, we show that in brain neurons type I PKA is directed to Kv2.1 channel-dependent ER-PM junctional domains via SPHKAP, a type I PKA-specific anchoring protein. SPHKAP association with type I PKA regulatory subunit RI and ER-resident VAP proteins results in the concentration of type I PKA between stacked ER cisternae associated with ER-PM junctions. This ER-associated PKA signalosome enables reciprocal regulation between PKA and Ca2+ signaling machinery to support Ca2+ influx and excitation-transcription coupling. These data reveal that neuronal ER-PM junctions support a receptor-independent form of PKA signaling driven by membrane depolarization and intracellular Ca2+, allowing conversion of information encoded in electrical signals into biochemical changes universally recognized throughout the cell. acknowledgement: We thank Kayla Templeton and Peter Turcanu for technical assistance, Michelle Salemi for assistance with LC-MS data acquisition and analysis, Dr. Belvin Gong for advice on monoclonal antibody generation, Drs. Maria Casas Prat and Eamonn Dickson for assistance with super-resolution TIRF microscopy, Dr. Oscar Cerda for assistance with the design of TAT-FFAT peptides, Dr. Fernando Santana for helpful discussions, and Dr. Jodi Nunnari for a careful reading of our manuscript. We also thank Dr. Alan Howe, Dr. Sohum Mehta, and Dr. Jin Zhang for providing plasmids used in this study. This project was funded by NIH Grants R01NS114210 and R21NS101648 (J.S.T.), and F32NS108519 (N.C.V.). article_number: '5231' article_processing_charge: Yes article_type: original author: - first_name: Nicholas C. full_name: Vierra, Nicholas C. last_name: Vierra - first_name: Luisa full_name: Ribeiro-Silva, Luisa last_name: Ribeiro-Silva - first_name: Michael full_name: Kirmiz, Michael last_name: Kirmiz - first_name: Deborah full_name: Van Der List, Deborah last_name: Van Der List - first_name: Pradeep full_name: Bhandari, Pradeep id: 45EDD1BC-F248-11E8-B48F-1D18A9856A87 last_name: Bhandari orcid: 0000-0003-0863-4481 - first_name: Olivia A. full_name: Mack, Olivia A. last_name: Mack - first_name: James full_name: Carroll, James last_name: Carroll - first_name: Elodie full_name: Le Monnier, Elodie id: 3B59276A-F248-11E8-B48F-1D18A9856A87 last_name: Le Monnier - first_name: Sue A. full_name: Aicher, Sue A. last_name: Aicher - first_name: Ryuichi full_name: Shigemoto, Ryuichi id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: James S. full_name: Trimmer, James S. last_name: Trimmer citation: ama: Vierra NC, Ribeiro-Silva L, Kirmiz M, et al. Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling. Nature Communications. 2023;14. doi:10.1038/s41467-023-40930-6 apa: Vierra, N. C., Ribeiro-Silva, L., Kirmiz, M., Van Der List, D., Bhandari, P., Mack, O. A., … Trimmer, J. S. (2023). Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-023-40930-6 chicago: Vierra, Nicholas C., Luisa Ribeiro-Silva, Michael Kirmiz, Deborah Van Der List, Pradeep Bhandari, Olivia A. Mack, James Carroll, et al. “Neuronal ER-Plasma Membrane Junctions Couple Excitation to Ca2+-Activated PKA Signaling.” Nature Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-40930-6. ieee: N. C. Vierra et al., “Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling,” Nature Communications, vol. 14. Springer Nature, 2023. ista: Vierra NC, Ribeiro-Silva L, Kirmiz M, Van Der List D, Bhandari P, Mack OA, Carroll J, Le Monnier E, Aicher SA, Shigemoto R, Trimmer JS. 2023. Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling. Nature Communications. 14, 5231. mla: Vierra, Nicholas C., et al. “Neuronal ER-Plasma Membrane Junctions Couple Excitation to Ca2+-Activated PKA Signaling.” Nature Communications, vol. 14, 5231, Springer Nature, 2023, doi:10.1038/s41467-023-40930-6. short: N.C. Vierra, L. Ribeiro-Silva, M. Kirmiz, D. Van Der List, P. Bhandari, O.A. Mack, J. Carroll, E. Le Monnier, S.A. Aicher, R. Shigemoto, J.S. Trimmer, Nature Communications 14 (2023). date_created: 2023-09-03T22:01:14Z date_published: 2023-08-26T00:00:00Z date_updated: 2023-09-06T06:53:32Z day: '26' ddc: - '570' department: - _id: RySh doi: 10.1038/s41467-023-40930-6 external_id: pmid: - '37633939' file: - access_level: open_access checksum: 6ab8aab4e957f626a09a1c73db3388fb content_type: application/pdf creator: dernst date_created: 2023-09-06T06:50:07Z date_updated: 2023-09-06T06:50:07Z file_id: '14270' file_name: 2023_NatureComm_Vierra.pdf file_size: 9412549 relation: main_file success: 1 file_date_updated: 2023-09-06T06:50:07Z has_accepted_license: '1' intvolume: ' 14' language: - iso: eng month: '08' oa: 1 oa_version: Published Version pmid: 1 publication: Nature Communications publication_identifier: eissn: - 2041-1723 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 14 year: '2023' ... --- _id: '14259' abstract: - lang: eng text: "We provide a learning-based technique for guessing a winning strategy in a parity game originating from an LTL synthesis problem. A cheaply obtained guess can be useful in several applications. Not only can the guessed strategy be applied as best-effort in cases where the game’s huge size prohibits rigorous approaches, but it can also increase the scalability of rigorous LTL synthesis in several ways. Firstly, checking whether a guessed strategy is winning is easier than constructing one. Secondly, even if the guess is wrong in some places, it can be fixed by strategy iteration faster than constructing one from scratch. Thirdly, the guess can be used in on-the-fly approaches to prioritize exploration in the most fruitful directions.\r\nIn contrast to previous works, we (i) reflect the highly structured logical information in game’s states, the so-called semantic labelling, coming from the recent LTL-to-automata translations, and (ii) learn to reflect it properly by learning from previously solved games, bringing the solving process closer to human-like reasoning." acknowledgement: This research was funded in part by the German Research Foundation (DFG) project 427755713 Group-By Objectives in Probabilistic Verification (GOPro). alternative_title: - LNCS article_processing_charge: Yes (in subscription journal) author: - first_name: Jan full_name: Kretinsky, Jan id: 44CEF464-F248-11E8-B48F-1D18A9856A87 last_name: Kretinsky orcid: 0000-0002-8122-2881 - first_name: Tobias full_name: Meggendorfer, Tobias id: b21b0c15-30a2-11eb-80dc-f13ca25802e1 last_name: Meggendorfer orcid: 0000-0002-1712-2165 - first_name: Maximilian full_name: Prokop, Maximilian last_name: Prokop - first_name: Sabine full_name: Rieder, Sabine last_name: Rieder citation: ama: 'Kretinsky J, Meggendorfer T, Prokop M, Rieder S. Guessing winning policies in LTL synthesis by semantic learning. In: 35th International Conference on Computer Aided Verification . Vol 13964. Springer Nature; 2023:390-414. doi:10.1007/978-3-031-37706-8_20' apa: 'Kretinsky, J., Meggendorfer, T., Prokop, M., & Rieder, S. (2023). Guessing winning policies in LTL synthesis by semantic learning. In 35th International Conference on Computer Aided Verification (Vol. 13964, pp. 390–414). Paris, France: Springer Nature. https://doi.org/10.1007/978-3-031-37706-8_20' chicago: Kretinsky, Jan, Tobias Meggendorfer, Maximilian Prokop, and Sabine Rieder. “Guessing Winning Policies in LTL Synthesis by Semantic Learning.” In 35th International Conference on Computer Aided Verification , 13964:390–414. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-37706-8_20. ieee: J. Kretinsky, T. Meggendorfer, M. Prokop, and S. Rieder, “Guessing winning policies in LTL synthesis by semantic learning,” in 35th International Conference on Computer Aided Verification , Paris, France, 2023, vol. 13964, pp. 390–414. ista: 'Kretinsky J, Meggendorfer T, Prokop M, Rieder S. 2023. Guessing winning policies in LTL synthesis by semantic learning. 35th International Conference on Computer Aided Verification . CAV: Computer Aided Verification, LNCS, vol. 13964, 390–414.' mla: Kretinsky, Jan, et al. “Guessing Winning Policies in LTL Synthesis by Semantic Learning.” 35th International Conference on Computer Aided Verification , vol. 13964, Springer Nature, 2023, pp. 390–414, doi:10.1007/978-3-031-37706-8_20. short: J. Kretinsky, T. Meggendorfer, M. Prokop, S. Rieder, in:, 35th International Conference on Computer Aided Verification , Springer Nature, 2023, pp. 390–414. conference: end_date: 2023-07-22 location: Paris, France name: 'CAV: Computer Aided Verification' start_date: 2023-07-17 date_created: 2023-09-03T22:01:16Z date_published: 2023-07-17T00:00:00Z date_updated: 2023-09-06T08:27:33Z day: '17' ddc: - '000' department: - _id: KrCh doi: 10.1007/978-3-031-37706-8_20 file: - access_level: open_access checksum: ed66278b61bb869e1baba3d9b9081271 content_type: application/pdf creator: dernst date_created: 2023-09-06T08:25:50Z date_updated: 2023-09-06T08:25:50Z file_id: '14276' file_name: 2023_LNCS_CAV_Kretinsky.pdf file_size: 428354 relation: main_file success: 1 file_date_updated: 2023-09-06T08:25:50Z has_accepted_license: '1' intvolume: ' 13964' language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 390-414 publication: '35th International Conference on Computer Aided Verification ' publication_identifier: eissn: - 1611-3349 isbn: - '9783031377051' issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Guessing winning policies in LTL synthesis by semantic learning 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: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 13964 year: '2023' ... --- _id: '14105' abstract: - lang: eng text: "Despite their recent success, deep neural networks continue to perform poorly when they encounter distribution shifts at test time. Many recently proposed approaches try to counter this by aligning the model to the new distribution prior to inference. With no labels available this requires unsupervised objectives to adapt the model on the observed test data. In this paper, we propose Test-Time SelfTraining (TeST): a technique that takes as input a model trained on some source data and a novel data distribution at test time, and learns invariant and robust representations using a student-teacher framework. We find that models adapted using TeST significantly improve over baseline testtime adaptation algorithms. TeST achieves competitive performance to modern domain adaptation algorithms [4, 43], while having access to 5-10x less data at time of adaption. We thoroughly evaluate a variety of baselines on two tasks:\r\nobject detection and image segmentation and find that models adapted with TeST. We find that TeST sets the new stateof-the art for test-time domain adaptation algorithms. " article_processing_charge: No author: - first_name: Samarth full_name: Sinha, Samarth last_name: Sinha - first_name: Peter full_name: Gehler, Peter last_name: Gehler - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Bernt full_name: Schiele, Bernt last_name: Schiele citation: ama: 'Sinha S, Gehler P, Locatello F, Schiele B. TeST: Test-time Self-Training under distribution shift. In: 2023 IEEE/CVF Winter Conference on Applications of Computer Vision. Institute of Electrical and Electronics Engineers; 2023. doi:10.1109/wacv56688.2023.00278' apa: 'Sinha, S., Gehler, P., Locatello, F., & Schiele, B. (2023). TeST: Test-time Self-Training under distribution shift. In 2023 IEEE/CVF Winter Conference on Applications of Computer Vision. Waikoloa, HI, United States: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/wacv56688.2023.00278' chicago: 'Sinha, Samarth, Peter Gehler, Francesco Locatello, and Bernt Schiele. “TeST: Test-Time Self-Training under Distribution Shift.” In 2023 IEEE/CVF Winter Conference on Applications of Computer Vision. Institute of Electrical and Electronics Engineers, 2023. https://doi.org/10.1109/wacv56688.2023.00278.' ieee: 'S. Sinha, P. Gehler, F. Locatello, and B. Schiele, “TeST: Test-time Self-Training under distribution shift,” in 2023 IEEE/CVF Winter Conference on Applications of Computer Vision, Waikoloa, HI, United States, 2023.' ista: 'Sinha S, Gehler P, Locatello F, Schiele B. 2023. TeST: Test-time Self-Training under distribution shift. 2023 IEEE/CVF Winter Conference on Applications of Computer Vision. WACV: Winter Conference on Applications of Computer Vision.' mla: 'Sinha, Samarth, et al. “TeST: Test-Time Self-Training under Distribution Shift.” 2023 IEEE/CVF Winter Conference on Applications of Computer Vision, Institute of Electrical and Electronics Engineers, 2023, doi:10.1109/wacv56688.2023.00278.' short: S. Sinha, P. Gehler, F. Locatello, B. Schiele, in:, 2023 IEEE/CVF Winter Conference on Applications of Computer Vision, Institute of Electrical and Electronics Engineers, 2023. conference: end_date: 2023-01-07 location: Waikoloa, HI, United States name: 'WACV: Winter Conference on Applications of Computer Vision' start_date: 2023-01-02 date_created: 2023-08-21T12:11:38Z date_published: 2023-02-06T00:00:00Z date_updated: 2023-09-06T10:26:56Z day: '06' department: - _id: FrLo doi: 10.1109/wacv56688.2023.00278 extern: '1' external_id: arxiv: - '2209.11459' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2209.11459 month: '02' oa: 1 oa_version: Preprint publication: 2023 IEEE/CVF Winter Conference on Applications of Computer Vision publication_identifier: eissn: - 2642-9381 isbn: - '9781665493475' publication_status: published publisher: Institute of Electrical and Electronics Engineers quality_controlled: '1' scopus_import: '1' status: public title: 'TeST: Test-time Self-Training under distribution shift' type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14256' abstract: - lang: eng text: "Context. Space asteroseismology is revolutionizing our knowledge of the internal structure and dynamics of stars. A breakthrough is ongoing with the recent discoveries of signatures of strong magnetic fields in the core of red giant stars. The key signature for such a detection is the asymmetry these fields induce in the frequency splittings of observed dipolar mixed gravito-acoustic modes.\r\nAims. We investigate the ability of the observed asymmetries of the frequency splittings of dipolar mixed modes to constrain the geometrical properties of deep magnetic fields.\r\nMethods. We used the powerful analytical Racah-Wigner algebra used in quantum mechanics to characterize the geometrical couplings of dipolar mixed oscillation modes with various realistically plausible topologies of fossil magnetic fields. We also computed the induced perturbation of their frequencies.\r\nResults. First, in the case of an oblique magnetic dipole, we provide the exact analytical expression of the asymmetry as a function of the angle between the rotation and magnetic axes. Its value provides a direct measure of this angle. Second, considering a combination of axisymmetric dipolar and quadrupolar fields, we show how the asymmetry is blind to the unraveling of the relative strength and sign of each component. Finally, in the case of a given multipole, we show that a negative asymmetry is a signature of non-axisymmetric topologies.\r\nConclusions. Asymmetries of dipolar mixed modes provide a key bit of information on the geometrical topology of deep fossil magnetic fields, but this is insufficient on its own. Asteroseismic constraints should therefore be combined with spectropolarimetric observations and numerical simulations, which aim to predict the more probable stable large-scale geometries." acknowledgement: The authors are grateful to the referee for her/his detailed and constructive report, which has allowed us to improve our article. S. M. acknowledges support from the CNES GOLF-SOHO and PLATO grants at CEA/DAp and PNPS (CNRS/INSU). We thank R. A. Garcia for fruitful discussions and suggestions. article_number: L9 article_processing_charge: Yes (in subscription journal) article_type: letter_note author: - first_name: S. full_name: Mathis, S. last_name: Mathis - first_name: Lisa Annabelle full_name: Bugnet, Lisa Annabelle id: d9edb345-f866-11ec-9b37-d119b5234501 last_name: Bugnet orcid: 0000-0003-0142-4000 citation: ama: 'Mathis S, Bugnet LA. Asymmetries of frequency splittings of dipolar mixed modes: A window on the topology of deep magnetic fields. Astronomy and Astrophysics. 2023;676. doi:10.1051/0004-6361/202346832' apa: 'Mathis, S., & Bugnet, L. A. (2023). Asymmetries of frequency splittings of dipolar mixed modes: A window on the topology of deep magnetic fields. Astronomy and Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/202346832' chicago: 'Mathis, S., and Lisa Annabelle Bugnet. “Asymmetries of Frequency Splittings of Dipolar Mixed Modes: A Window on the Topology of Deep Magnetic Fields.” Astronomy and Astrophysics. EDP Sciences, 2023. https://doi.org/10.1051/0004-6361/202346832.' ieee: 'S. Mathis and L. A. Bugnet, “Asymmetries of frequency splittings of dipolar mixed modes: A window on the topology of deep magnetic fields,” Astronomy and Astrophysics, vol. 676. EDP Sciences, 2023.' ista: 'Mathis S, Bugnet LA. 2023. Asymmetries of frequency splittings of dipolar mixed modes: A window on the topology of deep magnetic fields. Astronomy and Astrophysics. 676, L9.' mla: 'Mathis, S., and Lisa Annabelle Bugnet. “Asymmetries of Frequency Splittings of Dipolar Mixed Modes: A Window on the Topology of Deep Magnetic Fields.” Astronomy and Astrophysics, vol. 676, L9, EDP Sciences, 2023, doi:10.1051/0004-6361/202346832.' short: S. Mathis, L.A. Bugnet, Astronomy and Astrophysics 676 (2023). date_created: 2023-09-03T22:01:15Z date_published: 2023-08-01T00:00:00Z date_updated: 2023-09-06T11:05:58Z day: '01' ddc: - '520' department: - _id: LiBu doi: 10.1051/0004-6361/202346832 external_id: arxiv: - '2306.11587' isi: - '001046037700007' file: - access_level: open_access checksum: 7b30d26fb2b7bcb5b5be1414950615f9 content_type: application/pdf creator: dernst date_created: 2023-09-06T07:13:19Z date_updated: 2023-09-06T07:13:19Z file_id: '14271' file_name: 2023_AstronomyAstrophysics_Mathis.pdf file_size: 458120 relation: main_file success: 1 file_date_updated: 2023-09-06T07:13:19Z has_accepted_license: '1' intvolume: ' 676' isi: 1 language: - iso: eng month: '08' oa: 1 oa_version: Published Version publication: Astronomy and Astrophysics publication_identifier: eissn: - 1432-0746 issn: - 0004-6361 publication_status: published publisher: EDP Sciences quality_controlled: '1' scopus_import: '1' status: public title: 'Asymmetries of frequency splittings of dipolar mixed modes: A window on the topology of deep magnetic fields' 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: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 676 year: '2023' ... --- _id: '14261' abstract: - lang: eng text: In this work, a generalized, adapted Numerov implementation capable of determining band structures of periodic quantum systems is outlined. Based on the input potential, the presented approach numerically solves the Schrödinger equation in position space at each momentum space point. Thus, in addition to the band structure, the method inherently provides information about the state functions and probability densities in position space at each momentum space point considered. The generalized, adapted Numerov framework provided reliable estimates for a variety of increasingly complex test suites in one, two, and three dimensions. The accuracy of the proposed methodology was benchmarked against results obtained for the analytically solvable Kronig-Penney model. Furthermore, the presented numerical solver was applied to a model potential representing a 2D optical lattice being a challenging application relevant, for example, in the field of quantum computing. acknowledgement: Financial supports for this work via a PhD scholarship for J. Gamper issued by the Leopold-Franzens-University of Innsbruck (Vicerector Prof. Dr Ulrike Tanzer) are gratefully acknowledged. The computational results presented have been achieved (in part) using the HPC infrastructure of the University of Innsbruck. article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Jakob full_name: Gamper, Jakob last_name: Gamper - first_name: Florian full_name: Kluibenschedl, Florian id: 7499e70e-eb2c-11ec-b98b-f925648bc9d9 last_name: Kluibenschedl - first_name: Alexander K.H. full_name: Weiss, Alexander K.H. last_name: Weiss - first_name: Thomas S. full_name: Hofer, Thomas S. last_name: Hofer citation: ama: Gamper J, Kluibenschedl F, Weiss AKH, Hofer TS. Accessing position space wave functions in band structure calculations of periodic systems - a generalized, adapted numerov implementation for one-, two-, and three-dimensional quantum problems. Journal of Physical Chemistry Letters. 2023;14(33):7395-7403. doi:10.1021/acs.jpclett.3c01707 apa: Gamper, J., Kluibenschedl, F., Weiss, A. K. H., & Hofer, T. S. (2023). Accessing position space wave functions in band structure calculations of periodic systems - a generalized, adapted numerov implementation for one-, two-, and three-dimensional quantum problems. Journal of Physical Chemistry Letters. American Chemical Society. https://doi.org/10.1021/acs.jpclett.3c01707 chicago: Gamper, Jakob, Florian Kluibenschedl, Alexander K.H. Weiss, and Thomas S. Hofer. “Accessing Position Space Wave Functions in Band Structure Calculations of Periodic Systems - a Generalized, Adapted Numerov Implementation for One-, Two-, and Three-Dimensional Quantum Problems.” Journal of Physical Chemistry Letters. American Chemical Society, 2023. https://doi.org/10.1021/acs.jpclett.3c01707. ieee: J. Gamper, F. Kluibenschedl, A. K. H. Weiss, and T. S. Hofer, “Accessing position space wave functions in band structure calculations of periodic systems - a generalized, adapted numerov implementation for one-, two-, and three-dimensional quantum problems,” Journal of Physical Chemistry Letters, vol. 14, no. 33. American Chemical Society, pp. 7395–7403, 2023. ista: Gamper J, Kluibenschedl F, Weiss AKH, Hofer TS. 2023. Accessing position space wave functions in band structure calculations of periodic systems - a generalized, adapted numerov implementation for one-, two-, and three-dimensional quantum problems. Journal of Physical Chemistry Letters. 14(33), 7395–7403. mla: Gamper, Jakob, et al. “Accessing Position Space Wave Functions in Band Structure Calculations of Periodic Systems - a Generalized, Adapted Numerov Implementation for One-, Two-, and Three-Dimensional Quantum Problems.” Journal of Physical Chemistry Letters, vol. 14, no. 33, American Chemical Society, 2023, pp. 7395–403, doi:10.1021/acs.jpclett.3c01707. short: J. Gamper, F. Kluibenschedl, A.K.H. Weiss, T.S. Hofer, Journal of Physical Chemistry Letters 14 (2023) 7395–7403. date_created: 2023-09-03T22:01:16Z date_published: 2023-08-11T00:00:00Z date_updated: 2023-09-06T11:04:31Z day: '11' ddc: - '530' - '540' department: - _id: GradSch doi: 10.1021/acs.jpclett.3c01707 external_id: isi: - '001048165800001' pmid: - '37566743' file: - access_level: open_access checksum: 637454e2b3a357498d8d622d241c4bf6 content_type: application/pdf creator: dernst date_created: 2023-09-06T07:32:39Z date_updated: 2023-09-06T07:32:39Z file_id: '14272' file_name: 2023_JourPhysChemistry_Gamper.pdf file_size: 4986859 relation: main_file success: 1 file_date_updated: 2023-09-06T07:32:39Z has_accepted_license: '1' intvolume: ' 14' isi: 1 issue: '33' language: - iso: eng month: '08' oa: 1 oa_version: Published Version page: 7395-7403 pmid: 1 publication: Journal of Physical Chemistry Letters publication_identifier: eissn: - 1948-7185 publication_status: published publisher: American Chemical Society quality_controlled: '1' scopus_import: '1' status: public title: Accessing position space wave functions in band structure calculations of periodic systems - a generalized, adapted numerov implementation for one-, two-, and three-dimensional quantum problems 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: journal_article user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1 volume: 14 year: '2023' ... --- _id: '14208' abstract: - lang: eng text: This paper focuses on over-parameterized deep neural networks (DNNs) with ReLU activation functions and proves that when the data distribution is well-separated, DNNs can achieve Bayes-optimal test error for classification while obtaining (nearly) zero-training error under the lazy training regime. For this purpose, we unify three interrelated concepts of overparameterization, benign overfitting, and the Lipschitz constant of DNNs. Our results indicate that interpolating with smoother functions leads to better generalization. Furthermore, we investigate the special case where interpolating smooth ground-truth functions is performed by DNNs under the Neural Tangent Kernel (NTK) regime for generalization. Our result demonstrates that the generalization error converges to a constant order that only depends on label noise and initialization noise, which theoretically verifies benign overfitting. Our analysis provides a tight lower bound on the normalized margin under non-smooth activation functions, as well as the minimum eigenvalue of NTK under high-dimensional settings, which has its own interest in learning theory. alternative_title: - PMLR article_processing_charge: No author: - first_name: Zhenyu full_name: Zhu, Zhenyu last_name: Zhu - first_name: Fanghui full_name: Liu, Fanghui last_name: Liu - first_name: Grigorios G full_name: Chrysos, Grigorios G last_name: Chrysos - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Volkan full_name: Cevher, Volkan last_name: Cevher citation: ama: 'Zhu Z, Liu F, Chrysos GG, Locatello F, Cevher V. Benign overfitting in deep neural networks under lazy training. In: Proceedings of the 40th International Conference on Machine Learning. Vol 202. ML Research Press; 2023:43105-43128.' apa: 'Zhu, Z., Liu, F., Chrysos, G. G., Locatello, F., & Cevher, V. (2023). Benign overfitting in deep neural networks under lazy training. In Proceedings of the 40th International Conference on Machine Learning (Vol. 202, pp. 43105–43128). Honolulu, Hawaii, United States: ML Research Press.' chicago: Zhu, Zhenyu, Fanghui Liu, Grigorios G Chrysos, Francesco Locatello, and Volkan Cevher. “Benign Overfitting in Deep Neural Networks under Lazy Training.” In Proceedings of the 40th International Conference on Machine Learning, 202:43105–28. ML Research Press, 2023. ieee: Z. Zhu, F. Liu, G. G. Chrysos, F. Locatello, and V. Cevher, “Benign overfitting in deep neural networks under lazy training,” in Proceedings of the 40th International Conference on Machine Learning, Honolulu, Hawaii, United States, 2023, vol. 202, pp. 43105–43128. ista: Zhu Z, Liu F, Chrysos GG, Locatello F, Cevher V. 2023. Benign overfitting in deep neural networks under lazy training. Proceedings of the 40th International Conference on Machine Learning. International Conference on Machine Learning, PMLR, vol. 202, 43105–43128. mla: Zhu, Zhenyu, et al. “Benign Overfitting in Deep Neural Networks under Lazy Training.” Proceedings of the 40th International Conference on Machine Learning, vol. 202, ML Research Press, 2023, pp. 43105–28. short: Z. Zhu, F. Liu, G.G. Chrysos, F. Locatello, V. Cevher, in:, Proceedings of the 40th International Conference on Machine Learning, ML Research Press, 2023, pp. 43105–43128. conference: end_date: 2023-07-29 location: Honolulu, Hawaii, United States name: International Conference on Machine Learning start_date: 2023-07-23 date_created: 2023-08-22T14:18:18Z date_published: 2023-05-30T00:00:00Z date_updated: 2023-09-13T08:46:46Z day: '30' department: - _id: FrLo extern: '1' external_id: arxiv: - '2305.19377' intvolume: ' 202' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2305.19377 month: '05' oa: 1 oa_version: Preprint page: 43105-43128 publication: Proceedings of the 40th International Conference on Machine Learning publication_status: published publisher: ML Research Press quality_controlled: '1' status: public title: Benign overfitting in deep neural networks under lazy training type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 202 year: '2023' ... --- _id: '14209' abstract: - lang: eng text: Diffusion models excel at generating photorealistic images from text-queries. Naturally, many approaches have been proposed to use these generative abilities to augment training datasets for downstream tasks, such as classification. However, diffusion models are themselves trained on large noisily supervised, but nonetheless, annotated datasets. It is an open question whether the generalization capabilities of diffusion models beyond using the additional data of the pre-training process for augmentation lead to improved downstream performance. We perform a systematic evaluation of existing methods to generate images from diffusion models and study new extensions to assess their benefit for data augmentation. While we find that personalizing diffusion models towards the target data outperforms simpler prompting strategies, we also show that using the training data of the diffusion model alone, via a simple nearest neighbor retrieval procedure, leads to even stronger downstream performance. Overall, our study probes the limitations of diffusion models for data augmentation but also highlights its potential in generating new training data to improve performance on simple downstream vision tasks. article_number: '2304.10253' article_processing_charge: No author: - first_name: Max F. full_name: Burg, Max F. last_name: Burg - first_name: Florian full_name: Wenzel, Florian last_name: Wenzel - first_name: Dominik full_name: Zietlow, Dominik last_name: Zietlow - first_name: Max full_name: Horn, Max last_name: Horn - first_name: Osama full_name: Makansi, Osama last_name: Makansi - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Chris full_name: Russell, Chris last_name: Russell citation: ama: Burg MF, Wenzel F, Zietlow D, et al. A data augmentation perspective on diffusion models and retrieval. arXiv. doi:10.48550/arXiv.2304.10253 apa: Burg, M. F., Wenzel, F., Zietlow, D., Horn, M., Makansi, O., Locatello, F., & Russell, C. (n.d.). A data augmentation perspective on diffusion models and retrieval. arXiv. https://doi.org/10.48550/arXiv.2304.10253 chicago: Burg, Max F., Florian Wenzel, Dominik Zietlow, Max Horn, Osama Makansi, Francesco Locatello, and Chris Russell. “A Data Augmentation Perspective on Diffusion Models and Retrieval.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2304.10253. ieee: M. F. Burg et al., “A data augmentation perspective on diffusion models and retrieval,” arXiv. . ista: Burg MF, Wenzel F, Zietlow D, Horn M, Makansi O, Locatello F, Russell C. A data augmentation perspective on diffusion models and retrieval. arXiv, 2304.10253. mla: Burg, Max F., et al. “A Data Augmentation Perspective on Diffusion Models and Retrieval.” ArXiv, 2304.10253, doi:10.48550/arXiv.2304.10253. short: M.F. Burg, F. Wenzel, D. Zietlow, M. Horn, O. Makansi, F. Locatello, C. Russell, ArXiv (n.d.). date_created: 2023-08-22T14:18:43Z date_published: 2023-04-20T00:00:00Z date_updated: 2023-09-13T08:51:56Z day: '20' department: - _id: FrLo doi: 10.48550/arXiv.2304.10253 extern: '1' external_id: arxiv: - '2304.10253' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2304.10253 month: '04' oa: 1 oa_version: Preprint publication: arXiv publication_status: submitted status: public title: A data augmentation perspective on diffusion models and retrieval type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14211' abstract: - lang: eng text: 'Causal discovery methods are intrinsically constrained by the set of assumptions needed to ensure structure identifiability. Moreover additional restrictions are often imposed in order to simplify the inference task: this is the case for the Gaussian noise assumption on additive non-linear models, which is common to many causal discovery approaches. In this paper we show the shortcomings of inference under this hypothesis, analyzing the risk of edge inversion under violation of Gaussianity of the noise terms. Then, we propose a novel method for inferring the topological ordering of the variables in the causal graph, from data generated according to an additive non-linear model with a generic noise distribution. This leads to NoGAM (Not only Gaussian Additive noise Models), a causal discovery algorithm with a minimal set of assumptions and state of the art performance, experimentally benchmarked on synthetic data.' article_processing_charge: No author: - first_name: Francesco full_name: Montagna, Francesco last_name: Montagna - first_name: Nicoletta full_name: Noceti, Nicoletta last_name: Noceti - first_name: Lorenzo full_name: Rosasco, Lorenzo last_name: Rosasco - first_name: Kun full_name: Zhang, Kun last_name: Zhang - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 citation: ama: 'Montagna F, Noceti N, Rosasco L, Zhang K, Locatello F. Causal discovery with score matching on additive models with arbitrary noise. In: 2nd Conference on Causal Learning and Reasoning. ; 2023.' apa: Montagna, F., Noceti, N., Rosasco, L., Zhang, K., & Locatello, F. (2023). Causal discovery with score matching on additive models with arbitrary noise. In 2nd Conference on Causal Learning and Reasoning. Tübingen, Germany. chicago: Montagna, Francesco, Nicoletta Noceti, Lorenzo Rosasco, Kun Zhang, and Francesco Locatello. “Causal Discovery with Score Matching on Additive Models with Arbitrary Noise.” In 2nd Conference on Causal Learning and Reasoning, 2023. ieee: F. Montagna, N. Noceti, L. Rosasco, K. Zhang, and F. Locatello, “Causal discovery with score matching on additive models with arbitrary noise,” in 2nd Conference on Causal Learning and Reasoning, Tübingen, Germany, 2023. ista: 'Montagna F, Noceti N, Rosasco L, Zhang K, Locatello F. 2023. Causal discovery with score matching on additive models with arbitrary noise. 2nd Conference on Causal Learning and Reasoning. CLeaR: Conference on Causal Learning and Reasoning.' mla: Montagna, Francesco, et al. “Causal Discovery with Score Matching on Additive Models with Arbitrary Noise.” 2nd Conference on Causal Learning and Reasoning, 2023. short: F. Montagna, N. Noceti, L. Rosasco, K. Zhang, F. Locatello, in:, 2nd Conference on Causal Learning and Reasoning, 2023. conference: end_date: 2023-04-14 location: Tübingen, Germany name: 'CLeaR: Conference on Causal Learning and Reasoning' start_date: 2023-04-11 date_created: 2023-08-22T14:19:21Z date_published: 2023-04-01T00:00:00Z date_updated: 2023-09-13T09:00:31Z day: '01' department: - _id: FrLo extern: '1' external_id: arxiv: - '2304.03265' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2304.03265 month: '04' oa: 1 oa_version: Preprint publication: 2nd Conference on Causal Learning and Reasoning publication_status: published quality_controlled: '1' scopus_import: '1' status: public title: Causal discovery with score matching on additive models with arbitrary noise type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14212' abstract: - lang: eng text: This paper demonstrates how to discover the whole causal graph from the second derivative of the log-likelihood in observational non-linear additive Gaussian noise models. Leveraging scalable machine learning approaches to approximate the score function ∇logp(X), we extend the work of Rolland et al. (2022) that only recovers the topological order from the score and requires an expensive pruning step removing spurious edges among those admitted by the ordering. Our analysis leads to DAS (acronym for Discovery At Scale), a practical algorithm that reduces the complexity of the pruning by a factor proportional to the graph size. In practice, DAS achieves competitive accuracy with current state-of-the-art while being over an order of magnitude faster. Overall, our approach enables principled and scalable causal discovery, significantly lowering the compute bar. article_processing_charge: No author: - first_name: Francesco full_name: Montagna, Francesco last_name: Montagna - first_name: Nicoletta full_name: Noceti, Nicoletta last_name: Noceti - first_name: Lorenzo full_name: Rosasco, Lorenzo last_name: Rosasco - first_name: Kun full_name: Zhang, Kun last_name: Zhang - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 citation: ama: 'Montagna F, Noceti N, Rosasco L, Zhang K, Locatello F. Scalable causal discovery with score matching. In: 2nd Conference on Causal Learning and Reasoning. ; 2023.' apa: Montagna, F., Noceti, N., Rosasco, L., Zhang, K., & Locatello, F. (2023). Scalable causal discovery with score matching. In 2nd Conference on Causal Learning and Reasoning. Tübingen, Germany. chicago: Montagna, Francesco, Nicoletta Noceti, Lorenzo Rosasco, Kun Zhang, and Francesco Locatello. “Scalable Causal Discovery with Score Matching.” In 2nd Conference on Causal Learning and Reasoning, 2023. ieee: F. Montagna, N. Noceti, L. Rosasco, K. Zhang, and F. Locatello, “Scalable causal discovery with score matching,” in 2nd Conference on Causal Learning and Reasoning, Tübingen, Germany, 2023. ista: 'Montagna F, Noceti N, Rosasco L, Zhang K, Locatello F. 2023. Scalable causal discovery with score matching. 2nd Conference on Causal Learning and Reasoning. CLeaR: Conference on Causal Learning and Reasoning.' mla: Montagna, Francesco, et al. “Scalable Causal Discovery with Score Matching.” 2nd Conference on Causal Learning and Reasoning, 2023. short: F. Montagna, N. Noceti, L. Rosasco, K. Zhang, F. Locatello, in:, 2nd Conference on Causal Learning and Reasoning, 2023. conference: end_date: 2023-04-14 location: Tübingen, Germany name: 'CLeaR: Conference on Causal Learning and Reasoning' start_date: 2023-04-11 date_created: 2023-08-22T14:19:40Z date_published: 2023-04-01T00:00:00Z date_updated: 2023-09-13T09:03:24Z day: '01' department: - _id: FrLo extern: '1' external_id: arxiv: - '2304.03382' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2304.03382 month: '04' oa: 1 oa_version: Preprint publication: 2nd Conference on Causal Learning and Reasoning publication_status: published quality_controlled: '1' scopus_import: '1' status: public title: Scalable causal discovery with score matching type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14214' abstract: - lang: eng text: 'Recent years have seen a surge of interest in learning high-level causal representations from low-level image pairs under interventions. Yet, existing efforts are largely limited to simple synthetic settings that are far away from real-world problems. In this paper, we present Causal Triplet, a causal representation learning benchmark featuring not only visually more complex scenes, but also two crucial desiderata commonly overlooked in previous works: (i) an actionable counterfactual setting, where only certain object-level variables allow for counterfactual observations whereas others do not; (ii) an interventional downstream task with an emphasis on out-of-distribution robustness from the independent causal mechanisms principle. Through extensive experiments, we find that models built with the knowledge of disentangled or object-centric representations significantly outperform their distributed counterparts. However, recent causal representation learning methods still struggle to identify such latent structures, indicating substantial challenges and opportunities for future work.' article_processing_charge: No author: - first_name: Yuejiang full_name: Liu, Yuejiang last_name: Liu - first_name: Alexandre full_name: Alahi, Alexandre last_name: Alahi - first_name: Chris full_name: Russell, Chris last_name: Russell - first_name: Max full_name: Horn, Max last_name: Horn - first_name: Dominik full_name: Zietlow, Dominik last_name: Zietlow - first_name: Bernhard full_name: Schölkopf, Bernhard last_name: Schölkopf - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 citation: ama: 'Liu Y, Alahi A, Russell C, et al. Causal triplet: An open challenge for intervention-centric causal representation learning. In: 2nd Conference on Causal Learning and Reasoning. ; 2023.' apa: 'Liu, Y., Alahi, A., Russell, C., Horn, M., Zietlow, D., Schölkopf, B., & Locatello, F. (2023). Causal triplet: An open challenge for intervention-centric causal representation learning. In 2nd Conference on Causal Learning and Reasoning. Tübingen, Germany.' chicago: 'Liu, Yuejiang, Alexandre Alahi, Chris Russell, Max Horn, Dominik Zietlow, Bernhard Schölkopf, and Francesco Locatello. “Causal Triplet: An Open Challenge for Intervention-Centric Causal Representation Learning.” In 2nd Conference on Causal Learning and Reasoning, 2023.' ieee: 'Y. Liu et al., “Causal triplet: An open challenge for intervention-centric causal representation learning,” in 2nd Conference on Causal Learning and Reasoning, Tübingen, Germany, 2023.' ista: 'Liu Y, Alahi A, Russell C, Horn M, Zietlow D, Schölkopf B, Locatello F. 2023. Causal triplet: An open challenge for intervention-centric causal representation learning. 2nd Conference on Causal Learning and Reasoning. CLeaR: Conference on Causal Learning and Reasoning.' mla: 'Liu, Yuejiang, et al. “Causal Triplet: An Open Challenge for Intervention-Centric Causal Representation Learning.” 2nd Conference on Causal Learning and Reasoning, 2023.' short: Y. Liu, A. Alahi, C. Russell, M. Horn, D. Zietlow, B. Schölkopf, F. Locatello, in:, 2nd Conference on Causal Learning and Reasoning, 2023. conference: end_date: 2023-04-14 location: Tübingen, Germany name: 'CLeaR: Conference on Causal Learning and Reasoning' start_date: 2023-04-11 date_created: 2023-08-22T14:20:18Z date_published: 2023-04-12T00:00:00Z date_updated: 2023-09-13T09:23:08Z day: '12' department: - _id: FrLo extern: '1' external_id: arxiv: - '2301.05169' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2301.05169 month: '04' oa: 1 oa_version: Preprint publication: 2nd Conference on Causal Learning and Reasoning publication_status: published quality_controlled: '1' status: public title: 'Causal triplet: An open challenge for intervention-centric causal representation learning' type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14217' abstract: - lang: eng text: 'Neural networks embed the geometric structure of a data manifold lying in a high-dimensional space into latent representations. Ideally, the distribution of the data points in the latent space should depend only on the task, the data, the loss, and other architecture-specific constraints. However, factors such as the random weights initialization, training hyperparameters, or other sources of randomness in the training phase may induce incoherent latent spaces that hinder any form of reuse. Nevertheless, we empirically observe that, under the same data and modeling choices, the angles between the encodings within distinct latent spaces do not change. In this work, we propose the latent similarity between each sample and a fixed set of anchors as an alternative data representation, demonstrating that it can enforce the desired invariances without any additional training. We show how neural architectures can leverage these relative representations to guarantee, in practice, invariance to latent isometries and rescalings, effectively enabling latent space communication: from zero-shot model stitching to latent space comparison between diverse settings. We extensively validate the generalization capability of our approach on different datasets, spanning various modalities (images, text, graphs), tasks (e.g., classification, reconstruction) and architectures (e.g., CNNs, GCNs, transformers).' article_processing_charge: No author: - first_name: Luca full_name: Moschella, Luca last_name: Moschella - first_name: Valentino full_name: Maiorca, Valentino last_name: Maiorca - first_name: Marco full_name: Fumero, Marco last_name: Fumero - first_name: Antonio full_name: Norelli, Antonio last_name: Norelli - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Emanuele full_name: Rodolà, Emanuele last_name: Rodolà citation: ama: 'Moschella L, Maiorca V, Fumero M, Norelli A, Locatello F, Rodolà E. Relative representations enable zero-shot latent space communication. In: The 11th International Conference on Learning Representations. ; 2023.' apa: Moschella, L., Maiorca, V., Fumero, M., Norelli, A., Locatello, F., & Rodolà, E. (2023). Relative representations enable zero-shot latent space communication. In The 11th International Conference on Learning Representations. Kigali, Rwanda. chicago: Moschella, Luca, Valentino Maiorca, Marco Fumero, Antonio Norelli, Francesco Locatello, and Emanuele Rodolà. “Relative Representations Enable Zero-Shot Latent Space Communication.” In The 11th International Conference on Learning Representations, 2023. ieee: L. Moschella, V. Maiorca, M. Fumero, A. Norelli, F. Locatello, and E. Rodolà, “Relative representations enable zero-shot latent space communication,” in The 11th International Conference on Learning Representations, Kigali, Rwanda, 2023. ista: Moschella L, Maiorca V, Fumero M, Norelli A, Locatello F, Rodolà E. 2023. Relative representations enable zero-shot latent space communication. The 11th International Conference on Learning Representations. International Conference on Machine Learning Representations. mla: Moschella, Luca, et al. “Relative Representations Enable Zero-Shot Latent Space Communication.” The 11th International Conference on Learning Representations, 2023. short: L. Moschella, V. Maiorca, M. Fumero, A. Norelli, F. Locatello, E. Rodolà, in:, The 11th International Conference on Learning Representations, 2023. conference: end_date: 2023-05-05 location: Kigali, Rwanda name: International Conference on Machine Learning Representations start_date: 2023-05-01 date_created: 2023-08-22T14:22:20Z date_published: 2023-05-01T00:00:00Z date_updated: 2023-09-13T09:44:26Z day: '01' department: - _id: FrLo extern: '1' external_id: arxiv: - '2209.15430' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2209.15430 month: '05' oa: 1 oa_version: Preprint publication: The 11th International Conference on Learning Representations publication_status: published quality_controlled: '1' status: public title: Relative representations enable zero-shot latent space communication type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14222' abstract: - lang: eng text: Learning generative object models from unlabelled videos is a long standing problem and required for causal scene modeling. We decompose this problem into three easier subtasks, and provide candidate solutions for each of them. Inspired by the Common Fate Principle of Gestalt Psychology, we first extract (noisy) masks of moving objects via unsupervised motion segmentation. Second, generative models are trained on the masks of the background and the moving objects, respectively. Third, background and foreground models are combined in a conditional "dead leaves" scene model to sample novel scene configurations where occlusions and depth layering arise naturally. To evaluate the individual stages, we introduce the Fishbowl dataset positioned between complex real-world scenes and common object-centric benchmarks of simplistic objects. We show that our approach allows learning generative models that generalize beyond the occlusions present in the input videos, and represent scenes in a modular fashion that allows sampling plausible scenes outside the training distribution by permitting, for instance, object numbers or densities not observed in the training set. article_number: '2110.06562' article_processing_charge: No author: - first_name: Matthias full_name: Tangemann, Matthias last_name: Tangemann - first_name: Steffen full_name: Schneider, Steffen last_name: Schneider - first_name: Julius von full_name: Kügelgen, Julius von last_name: Kügelgen - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Peter full_name: Gehler, Peter last_name: Gehler - first_name: Thomas full_name: Brox, Thomas last_name: Brox - first_name: Matthias full_name: Kümmerer, Matthias last_name: Kümmerer - first_name: Matthias full_name: Bethge, Matthias last_name: Bethge - first_name: Bernhard full_name: Schölkopf, Bernhard last_name: Schölkopf citation: ama: 'Tangemann M, Schneider S, Kügelgen J von, et al. Unsupervised object learning via common fate. In: 2nd Conference on Causal Learning and Reasoning. ; 2023.' apa: Tangemann, M., Schneider, S., Kügelgen, J. von, Locatello, F., Gehler, P., Brox, T., … Schölkopf, B. (2023). Unsupervised object learning via common fate. In 2nd Conference on Causal Learning and Reasoning. Tübingen, Germany. chicago: Tangemann, Matthias, Steffen Schneider, Julius von Kügelgen, Francesco Locatello, Peter Gehler, Thomas Brox, Matthias Kümmerer, Matthias Bethge, and Bernhard Schölkopf. “Unsupervised Object Learning via Common Fate.” In 2nd Conference on Causal Learning and Reasoning, 2023. ieee: M. Tangemann et al., “Unsupervised object learning via common fate,” in 2nd Conference on Causal Learning and Reasoning, Tübingen, Germany, 2023. ista: 'Tangemann M, Schneider S, Kügelgen J von, Locatello F, Gehler P, Brox T, Kümmerer M, Bethge M, Schölkopf B. 2023. Unsupervised object learning via common fate. 2nd Conference on Causal Learning and Reasoning. CLeaR: Conference on Causal Learning and Reasoning, 2110.06562.' mla: Tangemann, Matthias, et al. “Unsupervised Object Learning via Common Fate.” 2nd Conference on Causal Learning and Reasoning, 2110.06562, 2023. short: M. Tangemann, S. Schneider, J. von Kügelgen, F. Locatello, P. Gehler, T. Brox, M. Kümmerer, M. Bethge, B. Schölkopf, in:, 2nd Conference on Causal Learning and Reasoning, 2023. conference: end_date: 2023-04-14 location: Tübingen, Germany name: 'CLeaR: Conference on Causal Learning and Reasoning' start_date: 2023-04-11 date_created: 2023-08-22T14:23:54Z date_published: 2023-04-15T00:00:00Z date_updated: 2023-09-13T11:31:14Z day: '15' department: - _id: FrLo extern: '1' external_id: arxiv: - '2110.06562' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2110.06562 month: '04' oa: 1 oa_version: Preprint publication: 2nd Conference on Causal Learning and Reasoning publication_status: published quality_controlled: '1' status: public title: Unsupervised object learning via common fate type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14218' abstract: - lang: eng text: Humans naturally decompose their environment into entities at the appropriate level of abstraction to act in the world. Allowing machine learning algorithms to derive this decomposition in an unsupervised way has become an important line of research. However, current methods are restricted to simulated data or require additional information in the form of motion or depth in order to successfully discover objects. In this work, we overcome this limitation by showing that reconstructing features from models trained in a self-supervised manner is a sufficient training signal for object-centric representations to arise in a fully unsupervised way. Our approach, DINOSAUR, significantly out-performs existing image-based object-centric learning models on simulated data and is the first unsupervised object-centric model that scales to real-world datasets such as COCO and PASCAL VOC. DINOSAUR is conceptually simple and shows competitive performance compared to more involved pipelines from the computer vision literature. article_processing_charge: No author: - first_name: Maximilian full_name: Seitzer, Maximilian last_name: Seitzer - first_name: Max full_name: Horn, Max last_name: Horn - first_name: Andrii full_name: Zadaianchuk, Andrii last_name: Zadaianchuk - first_name: Dominik full_name: Zietlow, Dominik last_name: Zietlow - first_name: Tianjun full_name: Xiao, Tianjun last_name: Xiao - first_name: Carl-Johann Simon-Gabriel full_name: Carl-Johann Simon-Gabriel, Carl-Johann Simon-Gabriel last_name: Carl-Johann Simon-Gabriel - first_name: Tong full_name: He, Tong last_name: He - first_name: Zheng full_name: Zhang, Zheng last_name: Zhang - first_name: Bernhard full_name: Schölkopf, Bernhard last_name: Schölkopf - first_name: Thomas full_name: Brox, Thomas last_name: Brox - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 citation: ama: 'Seitzer M, Horn M, Zadaianchuk A, et al. Bridging the gap to real-world object-centric learning. In: The 11th International Conference on Learning Representations. ; 2023.' apa: Seitzer, M., Horn, M., Zadaianchuk, A., Zietlow, D., Xiao, T., Carl-Johann Simon-Gabriel, C.-J. S.-G., … Locatello, F. (2023). Bridging the gap to real-world object-centric learning. In The 11th International Conference on Learning Representations. Kigali, Rwanda. chicago: Seitzer, Maximilian, Max Horn, Andrii Zadaianchuk, Dominik Zietlow, Tianjun Xiao, Carl-Johann Simon-Gabriel Carl-Johann Simon-Gabriel, Tong He, et al. “Bridging the Gap to Real-World Object-Centric Learning.” In The 11th International Conference on Learning Representations, 2023. ieee: M. Seitzer et al., “Bridging the gap to real-world object-centric learning,” in The 11th International Conference on Learning Representations, Kigali, Rwanda, 2023. ista: 'Seitzer M, Horn M, Zadaianchuk A, Zietlow D, Xiao T, Carl-Johann Simon-Gabriel C-JS-G, He T, Zhang Z, Schölkopf B, Brox T, Locatello F. 2023. Bridging the gap to real-world object-centric learning. The 11th International Conference on Learning Representations. ICLR: International Conference on Learning Representations.' mla: Seitzer, Maximilian, et al. “Bridging the Gap to Real-World Object-Centric Learning.” The 11th International Conference on Learning Representations, 2023. short: M. Seitzer, M. Horn, A. Zadaianchuk, D. Zietlow, T. Xiao, C.-J.S.-G. Carl-Johann Simon-Gabriel, T. He, Z. Zhang, B. Schölkopf, T. Brox, F. Locatello, in:, The 11th International Conference on Learning Representations, 2023. conference: end_date: 2023-05-05 location: Kigali, Rwanda name: 'ICLR: International Conference on Learning Representations' start_date: 2023-05-01 date_created: 2023-08-22T14:22:41Z date_published: 2023-05-10T00:00:00Z date_updated: 2023-09-13T11:37:03Z day: '10' department: - _id: FrLo extern: '1' external_id: arxiv: - '2209.14860' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2209.14860 month: '05' oa: 1 oa_version: Preprint publication: The 11th International Conference on Learning Representations publication_status: published quality_controlled: '1' status: public title: Bridging the gap to real-world object-centric learning type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14219' abstract: - lang: eng text: "In this paper, we show that recent advances in self-supervised feature\r\nlearning enable unsupervised object discovery and semantic segmentation with a\r\nperformance that matches the state of the field on supervised semantic\r\nsegmentation 10 years ago. We propose a methodology based on unsupervised\r\nsaliency masks and self-supervised feature clustering to kickstart object\r\ndiscovery followed by training a semantic segmentation network on pseudo-labels\r\nto bootstrap the system on images with multiple objects. We present results on\r\nPASCAL VOC that go far beyond the current state of the art (50.0 mIoU), and we\r\nreport for the first time results on MS COCO for the whole set of 81 classes:\r\nour method discovers 34 categories with more than $20\\%$ IoU, while obtaining\r\nan average IoU of 19.6 for all 81 categories." article_processing_charge: No author: - first_name: Andrii full_name: Zadaianchuk, Andrii last_name: Zadaianchuk - first_name: Matthaeus full_name: Kleindessner, Matthaeus last_name: Kleindessner - first_name: Yi full_name: Zhu, Yi last_name: Zhu - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Thomas full_name: Brox, Thomas last_name: Brox citation: ama: 'Zadaianchuk A, Kleindessner M, Zhu Y, Locatello F, Brox T. Unsupervised semantic segmentation with self-supervised object-centric representations. In: The 11th International Conference on Learning Representations. ; 2023.' apa: Zadaianchuk, A., Kleindessner, M., Zhu, Y., Locatello, F., & Brox, T. (2023). Unsupervised semantic segmentation with self-supervised object-centric representations. In The 11th International Conference on Learning Representations. Kigali, Rwanda. chicago: Zadaianchuk, Andrii, Matthaeus Kleindessner, Yi Zhu, Francesco Locatello, and Thomas Brox. “Unsupervised Semantic Segmentation with Self-Supervised Object-Centric Representations.” In The 11th International Conference on Learning Representations, 2023. ieee: A. Zadaianchuk, M. Kleindessner, Y. Zhu, F. Locatello, and T. Brox, “Unsupervised semantic segmentation with self-supervised object-centric representations,” in The 11th International Conference on Learning Representations, Kigali, Rwanda, 2023. ista: 'Zadaianchuk A, Kleindessner M, Zhu Y, Locatello F, Brox T. 2023. Unsupervised semantic segmentation with self-supervised object-centric representations. The 11th International Conference on Learning Representations. ICLR: International Conference on Learning Representations.' mla: Zadaianchuk, Andrii, et al. “Unsupervised Semantic Segmentation with Self-Supervised Object-Centric Representations.” The 11th International Conference on Learning Representations, 2023. short: A. Zadaianchuk, M. Kleindessner, Y. Zhu, F. Locatello, T. Brox, in:, The 11th International Conference on Learning Representations, 2023. conference: end_date: 2023-05-05 location: Kigali, Rwanda name: 'ICLR: International Conference on Learning Representations' start_date: 2023-05-01 date_created: 2023-08-22T14:22:58Z date_published: 2023-05-01T00:00:00Z date_updated: 2023-09-13T11:25:43Z day: '01' department: - _id: FrLo extern: '1' external_id: arxiv: - '2207.05027' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2207.05027 month: '05' oa: 1 oa_version: Preprint publication: The 11th International Conference on Learning Representations publication_status: published quality_controlled: '1' status: public title: Unsupervised semantic segmentation with self-supervised object-centric representations type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14333' abstract: - lang: eng text: "As causal ground truth is incredibly rare, causal discovery algorithms are\r\ncommonly only evaluated on simulated data. This is concerning, given that\r\nsimulations reflect common preconceptions about generating processes regarding\r\nnoise distributions, model classes, and more. In this work, we propose a novel\r\nmethod for falsifying the output of a causal discovery algorithm in the absence\r\nof ground truth. Our key insight is that while statistical learning seeks\r\nstability across subsets of data points, causal learning should seek stability\r\nacross subsets of variables. Motivated by this insight, our method relies on a\r\nnotion of compatibility between causal graphs learned on different subsets of\r\nvariables. We prove that detecting incompatibilities can falsify wrongly\r\ninferred causal relations due to violation of assumptions or errors from finite\r\nsample effects. Although passing such compatibility tests is only a necessary\r\ncriterion for good performance, we argue that it provides strong evidence for\r\nthe causal models whenever compatibility entails strong implications for the\r\njoint distribution. We also demonstrate experimentally that detection of\r\nincompatibilities can aid in causal model selection." article_number: '2307.09552' article_processing_charge: No author: - first_name: Philipp M. full_name: Faller, Philipp M. last_name: Faller - first_name: Leena Chennuru full_name: Vankadara, Leena Chennuru last_name: Vankadara - first_name: Atalanti A. full_name: Mastakouri, Atalanti A. last_name: Mastakouri - first_name: Francesco full_name: Locatello, Francesco id: 26cfd52f-2483-11ee-8040-88983bcc06d4 last_name: Locatello orcid: 0000-0002-4850-0683 - first_name: Dominik full_name: Janzing, Dominik last_name: Janzing citation: ama: 'Faller PM, Vankadara LC, Mastakouri AA, Locatello F, Janzing D. Self-compatibility: Evaluating causal discovery without ground truth. arXiv. doi:10.48550/arXiv.2307.09552' apa: 'Faller, P. M., Vankadara, L. C., Mastakouri, A. A., Locatello, F., & Janzing, D. (n.d.). Self-compatibility: Evaluating causal discovery without ground truth. arXiv. https://doi.org/10.48550/arXiv.2307.09552' chicago: 'Faller, Philipp M., Leena Chennuru Vankadara, Atalanti A. Mastakouri, Francesco Locatello, and Dominik Janzing. “Self-Compatibility: Evaluating Causal Discovery without Ground Truth.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2307.09552.' ieee: 'P. M. Faller, L. C. Vankadara, A. A. Mastakouri, F. Locatello, and D. Janzing, “Self-compatibility: Evaluating causal discovery without ground truth,” arXiv. .' ista: 'Faller PM, Vankadara LC, Mastakouri AA, Locatello F, Janzing D. Self-compatibility: Evaluating causal discovery without ground truth. arXiv, 2307.09552.' mla: 'Faller, Philipp M., et al. “Self-Compatibility: Evaluating Causal Discovery without Ground Truth.” ArXiv, 2307.09552, doi:10.48550/arXiv.2307.09552.' short: P.M. Faller, L.C. Vankadara, A.A. Mastakouri, F. Locatello, D. Janzing, ArXiv (n.d.). date_created: 2023-09-13T12:44:59Z date_published: 2023-07-18T00:00:00Z date_updated: 2023-09-13T12:47:53Z day: '18' department: - _id: FrLo doi: 10.48550/arXiv.2307.09552 extern: '1' external_id: arxiv: - '2307.09552' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2307.09552 month: '07' oa: 1 oa_version: Preprint publication: arXiv publication_status: submitted status: public title: 'Self-compatibility: Evaluating causal discovery without ground truth' type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14277' abstract: - lang: eng text: Living tissues are characterized by an intrinsically mechanochemical interplay of active physical forces and complex biochemical signaling pathways. Either feature alone can give rise to complex emergent phenomena, for example, mechanically driven glassy dynamics and rigidity transitions, or chemically driven reaction-diffusion instabilities. An important question is how to quantitatively assess the contribution of these different cues to the large-scale dynamics of biological materials. We address this in Madin-Darby canine kidney (MDCK) monolayers, considering both mechanochemical feedback between extracellular signal-regulated kinase (ERK) signaling activity and cellular density as well as a mechanically active tissue rheology via a self-propelled vertex model. We show that the relative strength of active migration forces to mechanochemical couplings controls a transition from a uniform active glass to periodic spatiotemporal waves. We parametrize the model from published experimental data sets on MDCK monolayers and use it to make new predictions on the correlation functions of cellular dynamics and the dynamics of topological defects associated with the oscillatory phase of cells. Interestingly, MDCK monolayers are best described by an intermediary parameter region in which both mechanochemical couplings and noisy active propulsion have a strong influence on the dynamics. Finally, we study how tissue rheology and ERK waves produce feedback on one another and uncover a mechanism via which tissue fluidity can be controlled by mechanochemical waves at both the local and global levels. acknowledgement: We thank all members of the Hannezo group for discussions and suggestions, as well as Sound Wai Phow for technical assistance. This work received funding from the European Research Council under the EU Horizon 2020 research and innovation program Grant Agreement No. 851288 (E.H.), JSPS KAKENHI Grant No. 21H05290, and the Ministry of Education under the Research Centres of Excellence program through the MBI at NUS. article_number: '013001' article_processing_charge: Yes article_type: original author: - first_name: Daniel R full_name: Boocock, Daniel R id: 453AF628-F248-11E8-B48F-1D18A9856A87 last_name: Boocock orcid: 0000-0002-1585-2631 - first_name: Tsuyoshi full_name: Hirashima, Tsuyoshi last_name: Hirashima - first_name: Edouard B full_name: Hannezo, Edouard B id: 3A9DB764-F248-11E8-B48F-1D18A9856A87 last_name: Hannezo orcid: 0000-0001-6005-1561 citation: ama: Boocock DR, Hirashima T, Hannezo EB. Interplay between mechanochemical patterning and glassy dynamics in cellular monolayers. PRX Life. 2023;1(1). doi:10.1103/prxlife.1.013001 apa: Boocock, D. R., Hirashima, T., & Hannezo, E. B. (2023). Interplay between mechanochemical patterning and glassy dynamics in cellular monolayers. PRX Life. American Physical Society. https://doi.org/10.1103/prxlife.1.013001 chicago: Boocock, Daniel R, Tsuyoshi Hirashima, and Edouard B Hannezo. “Interplay between Mechanochemical Patterning and Glassy Dynamics in Cellular Monolayers.” PRX Life. American Physical Society, 2023. https://doi.org/10.1103/prxlife.1.013001. ieee: D. R. Boocock, T. Hirashima, and E. B. Hannezo, “Interplay between mechanochemical patterning and glassy dynamics in cellular monolayers,” PRX Life, vol. 1, no. 1. American Physical Society, 2023. ista: Boocock DR, Hirashima T, Hannezo EB. 2023. Interplay between mechanochemical patterning and glassy dynamics in cellular monolayers. PRX Life. 1(1), 013001. mla: Boocock, Daniel R., et al. “Interplay between Mechanochemical Patterning and Glassy Dynamics in Cellular Monolayers.” PRX Life, vol. 1, no. 1, 013001, American Physical Society, 2023, doi:10.1103/prxlife.1.013001. short: D.R. Boocock, T. Hirashima, E.B. Hannezo, PRX Life 1 (2023). date_created: 2023-09-06T08:30:59Z date_published: 2023-07-20T00:00:00Z date_updated: 2023-09-15T06:39:17Z day: '20' ddc: - '570' department: - _id: EdHa doi: 10.1103/prxlife.1.013001 ec_funded: 1 file: - access_level: open_access checksum: f881d98c89eb9f1aa136d7b781511553 content_type: application/pdf creator: dernst date_created: 2023-09-15T06:30:50Z date_updated: 2023-09-15T06:30:50Z file_id: '14335' file_name: 2023_PRXLife_Boocock.pdf file_size: 2559520 relation: main_file success: 1 file_date_updated: 2023-09-15T06:30:50Z has_accepted_license: '1' intvolume: ' 1' issue: '1' language: - iso: eng month: '07' oa: 1 oa_version: Published Version project: - _id: 05943252-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '851288' name: Design Principles of Branching Morphogenesis publication: PRX Life publication_identifier: issn: - 2835-8279 publication_status: published publisher: American Physical Society quality_controlled: '1' status: public title: Interplay between mechanochemical patterning and glassy dynamics in cellular monolayers 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 1 year: '2023' ... --- _id: '14314' abstract: - lang: eng text: The execution of cognitive functions requires coordinated circuit activity across different brain areas that involves the associated firing of neuronal assemblies. Here, we tested the circuit mechanism behind assembly interactions between the hippocampus and the medial prefrontal cortex (mPFC) of adult rats by recording neuronal populations during a rule-switching task. We identified functionally coupled CA1-mPFC cells that synchronized their activity beyond that expected from common spatial coding or oscillatory firing. When such cell pairs fired together, the mPFC cell strongly phase locked to CA1 theta oscillations and maintained consistent theta firing phases, independent of the theta timing of their CA1 counterpart. These functionally connected CA1-mPFC cells formed interconnected assemblies. While firing together with their CA1 assembly partners, mPFC cells fired along specific theta sequences. Our results suggest that upregulated theta oscillatory firing of mPFC cells can signal transient interactions with specific CA1 assemblies, thus enabling distributed computations. acknowledgement: We thank A. Cumpelik, H. Chiossi, and L. Bollman for comments on an earlier version of this manuscript. This work was funded by EU-FP7 MC-ITN IN-SENS (grant 607616). article_number: '113015' article_processing_charge: Yes article_type: original author: - first_name: Michele full_name: Nardin, Michele id: 30BD0376-F248-11E8-B48F-1D18A9856A87 last_name: Nardin orcid: 0000-0001-8849-6570 - first_name: Karola full_name: Käfer, Karola id: 2DAA49AA-F248-11E8-B48F-1D18A9856A87 last_name: Käfer - first_name: Federico full_name: Stella, Federico id: 39AF1E74-F248-11E8-B48F-1D18A9856A87 last_name: Stella orcid: 0000-0001-9439-3148 - first_name: Jozsef L full_name: Csicsvari, Jozsef L id: 3FA14672-F248-11E8-B48F-1D18A9856A87 last_name: Csicsvari orcid: 0000-0002-5193-4036 citation: ama: Nardin M, Käfer K, Stella F, Csicsvari JL. Theta oscillations as a substrate for medial prefrontal-hippocampal assembly interactions. Cell Reports. 2023;42(9). doi:10.1016/j.celrep.2023.113015 apa: Nardin, M., Käfer, K., Stella, F., & Csicsvari, J. L. (2023). Theta oscillations as a substrate for medial prefrontal-hippocampal assembly interactions. Cell Reports. Elsevier. https://doi.org/10.1016/j.celrep.2023.113015 chicago: Nardin, Michele, Karola Käfer, Federico Stella, and Jozsef L Csicsvari. “Theta Oscillations as a Substrate for Medial Prefrontal-Hippocampal Assembly Interactions.” Cell Reports. Elsevier, 2023. https://doi.org/10.1016/j.celrep.2023.113015. ieee: M. Nardin, K. Käfer, F. Stella, and J. L. Csicsvari, “Theta oscillations as a substrate for medial prefrontal-hippocampal assembly interactions,” Cell Reports, vol. 42, no. 9. Elsevier, 2023. ista: Nardin M, Käfer K, Stella F, Csicsvari JL. 2023. Theta oscillations as a substrate for medial prefrontal-hippocampal assembly interactions. Cell Reports. 42(9), 113015. mla: Nardin, Michele, et al. “Theta Oscillations as a Substrate for Medial Prefrontal-Hippocampal Assembly Interactions.” Cell Reports, vol. 42, no. 9, 113015, Elsevier, 2023, doi:10.1016/j.celrep.2023.113015. short: M. Nardin, K. Käfer, F. Stella, J.L. Csicsvari, Cell Reports 42 (2023). date_created: 2023-09-10T22:01:11Z date_published: 2023-09-26T00:00:00Z date_updated: 2023-09-15T07:14:12Z day: '26' ddc: - '570' department: - _id: JoCs doi: 10.1016/j.celrep.2023.113015 ec_funded: 1 external_id: pmid: - '37632747' file: - access_level: open_access checksum: ca77a304fb813c292550b8604b0fb41d content_type: application/pdf creator: dernst date_created: 2023-09-15T07:12:46Z date_updated: 2023-09-15T07:12:46Z file_id: '14337' file_name: 2023_CellPress_Nardin.pdf file_size: 4879455 relation: main_file success: 1 file_date_updated: 2023-09-15T07:12:46Z has_accepted_license: '1' intvolume: ' 42' issue: '9' language: - iso: eng month: '09' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 257BBB4C-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '607616' name: Inter-and intracellular signalling in schizophrenia publication: Cell Reports publication_identifier: eissn: - 2211-1247 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Theta oscillations as a substrate for medial prefrontal-hippocampal assembly interactions 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 42 year: '2023' ... --- _id: '14315' abstract: - lang: eng text: During apoptosis, caspases degrade 8 out of ~30 nucleoporins to irreversibly demolish the nuclear pore complex. However, for poorly understood reasons, caspases are also activated during cell differentiation. Here, we show that sublethal activation of caspases during myogenesis results in the transient proteolysis of four peripheral Nups and one transmembrane Nup. ‘Trimmed’ NPCs become nuclear export-defective, and we identified in an unbiased manner several classes of cytoplasmic, plasma membrane, and mitochondrial proteins that rapidly accumulate in the nucleus. NPC trimming by non-apoptotic caspases was also observed in neurogenesis and endoplasmic reticulum stress. Our results suggest that caspases can reversibly modulate nuclear transport activity, which allows them to function as agents of cell differentiation and adaptation at sublethal levels. acknowledgement: 'We thank the members of the Hetzer laboratory, Tony Hunter (Salk), Lorenzo Puri (Sanford Burnham Prebys), and Jongmin Kim (Massachusetts General Hospital) for the critical reading of the manuscript; Kenneth Diffenderfer and Aimee Pankonin (Stem Cell Core at the Salk Institute) for help with neurogenesis; Carol Marchetto and Fred Gage (Salk) for providing H9 embryonic stem cells; Lorenzo Puri, Alexandra Sacco, and Luca Caputo (Sanford Burnham Prebys) for helpful discussions and sharing mouse primary myoblasts. This work was supported by a Glenn Foundation for Medical Research Postdoctoral Fellowship in Aging Research (UHC), the NOMIS foundation (MWH), and the National Institutes of Health (R01 NS096786 to MWH and K01 AR080828 to UHC). This work was also supported by the Mass Spectrometry Core of the Salk Institute with funding from NIH-NCI CCSG: P30 014195 and the Helmsley Center for Genomic Medicine. We thank Jolene Diedrich and Antonio Pinto for technical support.' article_number: RP89066 article_processing_charge: Yes article_type: original author: - first_name: Ukrae H. full_name: Cho, Ukrae H. last_name: Cho - first_name: Martin W full_name: Hetzer, Martin W id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed last_name: Hetzer orcid: 0000-0002-2111-992X citation: ama: Cho UH, Hetzer M. Caspase-mediated nuclear pore complex trimming in cell differentiation and endoplasmic reticulum stress. eLife. 2023;12. doi:10.7554/eLife.89066 apa: Cho, U. H., & Hetzer, M. (2023). Caspase-mediated nuclear pore complex trimming in cell differentiation and endoplasmic reticulum stress. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.89066 chicago: Cho, Ukrae H., and Martin Hetzer. “Caspase-Mediated Nuclear Pore Complex Trimming in Cell Differentiation and Endoplasmic Reticulum Stress.” ELife. eLife Sciences Publications, 2023. https://doi.org/10.7554/eLife.89066. ieee: U. H. Cho and M. Hetzer, “Caspase-mediated nuclear pore complex trimming in cell differentiation and endoplasmic reticulum stress,” eLife, vol. 12. eLife Sciences Publications, 2023. ista: Cho UH, Hetzer M. 2023. Caspase-mediated nuclear pore complex trimming in cell differentiation and endoplasmic reticulum stress. eLife. 12, RP89066. mla: Cho, Ukrae H., and Martin Hetzer. “Caspase-Mediated Nuclear Pore Complex Trimming in Cell Differentiation and Endoplasmic Reticulum Stress.” ELife, vol. 12, RP89066, eLife Sciences Publications, 2023, doi:10.7554/eLife.89066. short: U.H. Cho, M. Hetzer, ELife 12 (2023). date_created: 2023-09-10T22:01:11Z date_published: 2023-09-04T00:00:00Z date_updated: 2023-09-15T07:07:10Z day: '04' ddc: - '570' department: - _id: MaHe doi: 10.7554/eLife.89066 external_id: pmid: - '37665327' file: - access_level: open_access checksum: db24bf3d595507387b48d3799c33e289 content_type: application/pdf creator: dernst date_created: 2023-09-15T06:59:10Z date_updated: 2023-09-15T06:59:10Z file_id: '14336' file_name: 2023_eLife_Cho.pdf file_size: 3703097 relation: main_file success: 1 file_date_updated: 2023-09-15T06:59:10Z has_accepted_license: '1' intvolume: ' 12' language: - iso: eng month: '09' oa: 1 oa_version: Published Version pmid: 1 publication: eLife publication_identifier: eissn: - 2050-084X publication_status: published publisher: eLife Sciences Publications quality_controlled: '1' scopus_import: '1' status: public title: Caspase-mediated nuclear pore complex trimming in cell differentiation and endoplasmic reticulum stress 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 12 year: '2023' ... --- _id: '14319' abstract: - lang: eng text: "We study multigraphs whose edge-sets are the union of three perfect matchings, M1, M2, and M3. Given such a graph G and any a1; a2; a3 2 N with a1 +a2 +a3 6 n - 2, we show there exists a matching M of G with jM \\ Mij = ai for each i 2 f1; 2; 3g. The bound n - 2 in the theorem is best possible in general. We conjecture however that if G is bipartite, the same result holds with n - 2 replaced by n - 1. We give a construction that shows such a result would be tight. We\r\nalso make a conjecture generalising the Ryser-Brualdi-Stein conjecture with colour\r\nmultiplicities." acknowledgement: Anastos has received funding from the European Union’s Horizon 2020 research and in-novation programme under the Marie Sk lodowska-Curie grant agreement No 101034413.Fabian’s research is supported by the Deutsche Forschungsgemeinschaft (DFG, GermanResearch Foundation) Graduiertenkolleg “Facets of Complexity” (GRK 2434). article_number: P3.10 article_processing_charge: Yes article_type: original author: - first_name: Michael full_name: Anastos, Michael id: 0b2a4358-bb35-11ec-b7b9-e3279b593dbb last_name: Anastos - first_name: David full_name: Fabian, David last_name: Fabian - first_name: Alp full_name: Müyesser, Alp last_name: Müyesser - first_name: Tibor full_name: Szabó, Tibor last_name: Szabó citation: ama: Anastos M, Fabian D, Müyesser A, Szabó T. Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. Electronic Journal of Combinatorics. 2023;30(3). doi:10.37236/11714 apa: Anastos, M., Fabian, D., Müyesser, A., & Szabó, T. (2023). Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. Electronic Journal of Combinatorics. Electronic Journal of Combinatorics. https://doi.org/10.37236/11714 chicago: Anastos, Michael, David Fabian, Alp Müyesser, and Tibor Szabó. “Splitting Matchings and the Ryser-Brualdi-Stein Conjecture for Multisets.” Electronic Journal of Combinatorics. Electronic Journal of Combinatorics, 2023. https://doi.org/10.37236/11714. ieee: M. Anastos, D. Fabian, A. Müyesser, and T. Szabó, “Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets,” Electronic Journal of Combinatorics, vol. 30, no. 3. Electronic Journal of Combinatorics, 2023. ista: Anastos M, Fabian D, Müyesser A, Szabó T. 2023. Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. Electronic Journal of Combinatorics. 30(3), P3.10. mla: Anastos, Michael, et al. “Splitting Matchings and the Ryser-Brualdi-Stein Conjecture for Multisets.” Electronic Journal of Combinatorics, vol. 30, no. 3, P3.10, Electronic Journal of Combinatorics, 2023, doi:10.37236/11714. short: M. Anastos, D. Fabian, A. Müyesser, T. Szabó, Electronic Journal of Combinatorics 30 (2023). date_created: 2023-09-10T22:01:12Z date_published: 2023-07-28T00:00:00Z date_updated: 2023-09-15T08:12:30Z day: '28' ddc: - '510' department: - _id: MaKw doi: 10.37236/11714 ec_funded: 1 external_id: arxiv: - '2212.03100' file: - access_level: open_access checksum: 52c46c8cb329f9aaee9ade01525f317b content_type: application/pdf creator: dernst date_created: 2023-09-15T08:02:09Z date_updated: 2023-09-15T08:02:09Z file_id: '14338' file_name: 2023_elecJournCombinatorics_Anastos.pdf file_size: 247917 relation: main_file success: 1 file_date_updated: 2023-09-15T08:02:09Z has_accepted_license: '1' intvolume: ' 30' issue: '3' language: - iso: eng license: https://creativecommons.org/licenses/by-nd/4.0/ month: '07' oa: 1 oa_version: Published Version project: - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: Electronic Journal of Combinatorics publication_identifier: eissn: - 1077-8926 publication_status: published publisher: Electronic Journal of Combinatorics quality_controlled: '1' scopus_import: '1' status: public title: Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets tmp: image: /image/cc_by_nd.png legal_code_url: https://creativecommons.org/licenses/by-nd/4.0/legalcode name: Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0) short: CC BY-ND (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 30 year: '2023' ... --- _id: '14318' abstract: - lang: eng text: "Probabilistic recurrence relations (PRRs) are a standard formalism for describing the runtime of a randomized algorithm. Given a PRR and a time limit κ, we consider the tail probability Pr[T≥κ], i.e., the probability that the randomized runtime T of the PRR exceeds κ. Our focus is the formal analysis of tail bounds that aims at finding a tight asymptotic upper bound u≥Pr[T≥κ]. To address this problem, the classical and most well-known approach is the cookbook method by Karp (JACM 1994), while other approaches are mostly limited to deriving tail bounds of specific PRRs via involved custom analysis.\r\nIn this work, we propose a novel approach for deriving the common exponentially-decreasing tail bounds for PRRs whose preprocessing time and random passed sizes observe discrete or (piecewise) uniform distribution and whose recursive call is either a single procedure call or a divide-and-conquer. We first establish a theoretical approach via Markov’s inequality, and then instantiate the theoretical approach with a template-based algorithmic approach via a refined treatment of exponentiation. Experimental evaluation shows that our algorithmic approach is capable of deriving tail bounds that are (i) asymptotically tighter than Karp’s method, (ii) match the best-known manually-derived asymptotic tail bound for QuickSelect, and (iii) is only slightly worse (with a loglogn factor) than the manually-proven optimal asymptotic tail bound for QuickSort. Moreover, our algorithmic approach handles all examples (including realistic PRRs such as QuickSort, QuickSelect, DiameterComputation, etc.) in less than 0.1 s, showing that our approach is efficient in practice." acknowledgement: We thank Prof. Bican Xia for valuable information on the exponential theory of reals. The work is partially supported by the National Natural Science Foundation of China (NSFC) with Grant No. 62172271, ERC CoG 863818 (ForM-SMArt), the Hong Kong Research Grants Council ECS Project Number 26208122, the HKUST-Kaisa Joint Research Institute Project Grant HKJRI3A-055 and the HKUST Startup Grant R9272. alternative_title: - LNCS article_processing_charge: Yes (in subscription journal) author: - first_name: Yican full_name: Sun, Yican last_name: Sun - first_name: Hongfei full_name: Fu, Hongfei last_name: Fu - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Amir Kafshdar full_name: Goharshady, Amir Kafshdar id: 391365CE-F248-11E8-B48F-1D18A9856A87 last_name: Goharshady orcid: 0000-0003-1702-6584 citation: ama: 'Sun Y, Fu H, Chatterjee K, Goharshady AK. Automated tail bound analysis for probabilistic recurrence relations. In: Computer Aided Verification. Vol 13966. Springer Nature; 2023:16-39. doi:10.1007/978-3-031-37709-9_2' apa: 'Sun, Y., Fu, H., Chatterjee, K., & Goharshady, A. K. (2023). Automated tail bound analysis for probabilistic recurrence relations. In Computer Aided Verification (Vol. 13966, pp. 16–39). Paris, France: Springer Nature. https://doi.org/10.1007/978-3-031-37709-9_2' chicago: Sun, Yican, Hongfei Fu, Krishnendu Chatterjee, and Amir Kafshdar Goharshady. “Automated Tail Bound Analysis for Probabilistic Recurrence Relations.” In Computer Aided Verification, 13966:16–39. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-37709-9_2. ieee: Y. Sun, H. Fu, K. Chatterjee, and A. K. Goharshady, “Automated tail bound analysis for probabilistic recurrence relations,” in Computer Aided Verification, Paris, France, 2023, vol. 13966, pp. 16–39. ista: 'Sun Y, Fu H, Chatterjee K, Goharshady AK. 2023. Automated tail bound analysis for probabilistic recurrence relations. Computer Aided Verification. CAV: Computer Aided Verification, LNCS, vol. 13966, 16–39.' mla: Sun, Yican, et al. “Automated Tail Bound Analysis for Probabilistic Recurrence Relations.” Computer Aided Verification, vol. 13966, Springer Nature, 2023, pp. 16–39, doi:10.1007/978-3-031-37709-9_2. short: Y. Sun, H. Fu, K. Chatterjee, A.K. Goharshady, in:, Computer Aided Verification, Springer Nature, 2023, pp. 16–39. conference: end_date: 2023-07-22 location: Paris, France name: 'CAV: Computer Aided Verification' start_date: 2023-07-17 date_created: 2023-09-10T22:01:12Z date_published: 2023-07-17T00:00:00Z date_updated: 2023-09-20T08:25:57Z day: '17' ddc: - '000' department: - _id: KrCh doi: 10.1007/978-3-031-37709-9_2 ec_funded: 1 file: - access_level: open_access checksum: 42917e086f8c7699f3bccf84f74fe000 content_type: application/pdf creator: dernst date_created: 2023-09-20T08:24:47Z date_updated: 2023-09-20T08:24:47Z file_id: '14348' file_name: 2023_LNCS_Sun.pdf file_size: 624647 relation: main_file success: 1 file_date_updated: 2023-09-20T08:24:47Z has_accepted_license: '1' intvolume: ' 13966' language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 16-39 project: - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' publication: Computer Aided Verification publication_identifier: eissn: - 1611-3349 isbn: - '9783031377082' issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: link: - relation: software url: https://github.com/boyvolcano/PRR scopus_import: '1' status: public title: Automated tail bound analysis for probabilistic recurrence relations 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: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 13966 year: '2023' ... --- _id: '14317' abstract: - lang: eng text: "Markov decision processes can be viewed as transformers of probability distributions. While this view is useful from a practical standpoint to reason about trajectories of distributions, basic reachability and safety problems are known to be computationally intractable (i.e., Skolem-hard) to solve in such models. Further, we show that even for simple examples of MDPs, strategies for safety objectives over distributions can require infinite memory and randomization.\r\nIn light of this, we present a novel overapproximation approach to synthesize strategies in an MDP, such that a safety objective over the distributions is met. More precisely, we develop a new framework for template-based synthesis of certificates as affine distributional and inductive invariants for safety objectives in MDPs. We provide two algorithms within this framework. One can only synthesize memoryless strategies, but has relative completeness guarantees, while the other can synthesize general strategies. The runtime complexity of both algorithms is in PSPACE. We implement these algorithms and show that they can solve several non-trivial examples." acknowledgement: This work was supported in part by the ERC CoG 863818 (FoRM-SMArt) and the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385 as well as DST/CEFIPRA/INRIA project EQuaVE and SERB Matrices grant MTR/2018/00074. alternative_title: - LNCS article_processing_charge: Yes (in subscription journal) author: - first_name: S. full_name: Akshay, S. last_name: Akshay - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Tobias full_name: Meggendorfer, Tobias id: b21b0c15-30a2-11eb-80dc-f13ca25802e1 last_name: Meggendorfer orcid: 0000-0002-1712-2165 - first_name: Dorde full_name: Zikelic, Dorde id: 294AA7A6-F248-11E8-B48F-1D18A9856A87 last_name: Zikelic orcid: 0000-0002-4681-1699 citation: ama: 'Akshay S, Chatterjee K, Meggendorfer T, Zikelic D. MDPs as distribution transformers: Affine invariant synthesis for safety objectives. In: International Conference on Computer Aided Verification. Vol 13966. Springer Nature; 2023:86-112. doi:10.1007/978-3-031-37709-9_5' apa: 'Akshay, S., Chatterjee, K., Meggendorfer, T., & Zikelic, D. (2023). MDPs as distribution transformers: Affine invariant synthesis for safety objectives. In International Conference on Computer Aided Verification (Vol. 13966, pp. 86–112). Paris, France: Springer Nature. https://doi.org/10.1007/978-3-031-37709-9_5' chicago: 'Akshay, S., Krishnendu Chatterjee, Tobias Meggendorfer, and Dorde Zikelic. “MDPs as Distribution Transformers: Affine Invariant Synthesis for Safety Objectives.” In International Conference on Computer Aided Verification, 13966:86–112. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-37709-9_5.' ieee: 'S. Akshay, K. Chatterjee, T. Meggendorfer, and D. Zikelic, “MDPs as distribution transformers: Affine invariant synthesis for safety objectives,” in International Conference on Computer Aided Verification, Paris, France, 2023, vol. 13966, pp. 86–112.' ista: 'Akshay S, Chatterjee K, Meggendorfer T, Zikelic D. 2023. MDPs as distribution transformers: Affine invariant synthesis for safety objectives. International Conference on Computer Aided Verification. CAV: Computer Aided Verification, LNCS, vol. 13966, 86–112.' mla: 'Akshay, S., et al. “MDPs as Distribution Transformers: Affine Invariant Synthesis for Safety Objectives.” International Conference on Computer Aided Verification, vol. 13966, Springer Nature, 2023, pp. 86–112, doi:10.1007/978-3-031-37709-9_5.' short: S. Akshay, K. Chatterjee, T. Meggendorfer, D. Zikelic, in:, International Conference on Computer Aided Verification, Springer Nature, 2023, pp. 86–112. conference: end_date: 2023-07-22 location: Paris, France name: 'CAV: Computer Aided Verification' start_date: 2023-07-17 date_created: 2023-09-10T22:01:12Z date_published: 2023-07-17T00:00:00Z date_updated: 2023-09-20T09:04:40Z day: '17' ddc: - '000' department: - _id: KrCh doi: 10.1007/978-3-031-37709-9_5 ec_funded: 1 file: - access_level: open_access checksum: f143c8eedf609f20f2aad2eeb496d53f content_type: application/pdf creator: dernst date_created: 2023-09-20T08:46:43Z date_updated: 2023-09-20T08:46:43Z file_id: '14349' file_name: 2023_LNCS_Akshay.pdf file_size: 531745 relation: main_file success: 1 file_date_updated: 2023-09-20T08:46:43Z has_accepted_license: '1' intvolume: ' 13966' language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 86-112 project: - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' publication: International Conference on Computer Aided Verification publication_identifier: eissn: - 1611-3349 isbn: - '9783031377082' issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: 'MDPs as distribution transformers: Affine invariant synthesis for safety objectives' 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: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 13966 year: '2023' ... --- _id: '14316' abstract: - lang: eng text: Clathrin-mediated vesicle trafficking plays central roles in post-Golgi transport. In yeast (Saccharomyces cerevisiae), the AP-1 complex and GGA adaptors are predicted to generate distinct transport vesicles at the trans-Golgi network (TGN), and the epsin-related proteins Ent3p and Ent5p (collectively Ent3p/5p) act as accessories for these adaptors. Recently, we showed that vesicle transport from the TGN is crucial for yeast Rab5 (Vps21p)-mediated endosome formation, and that Ent3p/5p are crucial for this process, whereas AP-1 and GGA adaptors are dispensable. However, these observations were incompatible with previous studies showing that these adaptors are required for Ent3p/5p recruitment to the TGN, and thus the overall mechanism responsible for regulation of Vps21p activity remains ambiguous. Here, we investigated the functional relationships between clathrin adaptors in post-Golgi-mediated Vps21p activation. We show that AP-1 disruption in the ent3Δ5Δ mutant impaired transport of the Vps21p guanine nucleotide exchange factor Vps9p transport to the Vps21p compartment and severely reduced Vps21p activity. Additionally, GGA adaptors, the phosphatidylinositol-4-kinase Pik1p and Rab11 GTPases Ypt31p and Ypt32p were found to have partially overlapping functions for recruitment of AP-1 and Ent3p/5p to the TGN. These findings suggest a distinct role of clathrin adaptors for Vps21p activation in the TGN–endosome trafficking pathway. article_number: jcs261448 article_processing_charge: No article_type: original author: - first_name: Makoto full_name: Nagano, Makoto last_name: Nagano - first_name: Kaito full_name: Aoshima, Kaito last_name: Aoshima - first_name: Hiroki full_name: Shimamura, Hiroki last_name: Shimamura - first_name: Daria E full_name: Siekhaus, Daria E id: 3D224B9E-F248-11E8-B48F-1D18A9856A87 last_name: Siekhaus orcid: 0000-0001-8323-8353 - first_name: Junko Y. full_name: Toshima, Junko Y. last_name: Toshima - first_name: Jiro full_name: Toshima, Jiro last_name: Toshima citation: ama: Nagano M, Aoshima K, Shimamura H, Siekhaus DE, Toshima JY, Toshima J. Distinct role of TGN-resident clathrin adaptors for Vps21p activation in the TGN-endosome trafficking pathway. Journal of Cell Science. 2023;136(17). doi:10.1242/jcs.261448 apa: Nagano, M., Aoshima, K., Shimamura, H., Siekhaus, D. E., Toshima, J. Y., & Toshima, J. (2023). Distinct role of TGN-resident clathrin adaptors for Vps21p activation in the TGN-endosome trafficking pathway. Journal of Cell Science. The Company of Biologists. https://doi.org/10.1242/jcs.261448 chicago: Nagano, Makoto, Kaito Aoshima, Hiroki Shimamura, Daria E Siekhaus, Junko Y. Toshima, and Jiro Toshima. “Distinct Role of TGN-Resident Clathrin Adaptors for Vps21p Activation in the TGN-Endosome Trafficking Pathway.” Journal of Cell Science. The Company of Biologists, 2023. https://doi.org/10.1242/jcs.261448. ieee: M. Nagano, K. Aoshima, H. Shimamura, D. E. Siekhaus, J. Y. Toshima, and J. Toshima, “Distinct role of TGN-resident clathrin adaptors for Vps21p activation in the TGN-endosome trafficking pathway,” Journal of Cell Science, vol. 136, no. 17. The Company of Biologists, 2023. ista: Nagano M, Aoshima K, Shimamura H, Siekhaus DE, Toshima JY, Toshima J. 2023. Distinct role of TGN-resident clathrin adaptors for Vps21p activation in the TGN-endosome trafficking pathway. Journal of Cell Science. 136(17), jcs261448. mla: Nagano, Makoto, et al. “Distinct Role of TGN-Resident Clathrin Adaptors for Vps21p Activation in the TGN-Endosome Trafficking Pathway.” Journal of Cell Science, vol. 136, no. 17, jcs261448, The Company of Biologists, 2023, doi:10.1242/jcs.261448. short: M. Nagano, K. Aoshima, H. Shimamura, D.E. Siekhaus, J.Y. Toshima, J. Toshima, Journal of Cell Science 136 (2023). date_created: 2023-09-10T22:01:12Z date_published: 2023-09-01T00:00:00Z date_updated: 2023-09-20T09:14:15Z day: '01' department: - _id: DaSi doi: 10.1242/jcs.261448 external_id: pmid: - '37539494' intvolume: ' 136' issue: '17' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1101/2023.03.27.534325 month: '09' oa: 1 oa_version: Preprint pmid: 1 publication: Journal of Cell Science publication_identifier: eissn: - 1477-9137 issn: - 0021-9533 publication_status: published publisher: The Company of Biologists quality_controlled: '1' scopus_import: '1' status: public title: Distinct role of TGN-resident clathrin adaptors for Vps21p activation in the TGN-endosome trafficking pathway type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 136 year: '2023' ... --- _id: '14320' abstract: - lang: eng text: The development of two-dimensional materials has resulted in a diverse range of novel, high-quality compounds with increasing complexity. A key requirement for a comprehensive quantitative theory is the accurate determination of these materials' band structure parameters. However, this task is challenging due to the intricate band structures and the indirect nature of experimental probes. In this work, we introduce a general framework to derive band structure parameters from experimental data using deep neural networks. We applied our method to the penetration field capacitance measurement of trilayer graphene, an effective probe of its density of states. First, we demonstrate that a trained deep network gives accurate predictions for the penetration field capacitance as a function of tight-binding parameters. Next, we use the fast and accurate predictions from the trained network to automatically determine tight-binding parameters directly from experimental data, with extracted parameters being in a good agreement with values in the literature. We conclude by discussing potential applications of our method to other materials and experimental techniques beyond penetration field capacitance. acknowledgement: A.F.Y. acknowledges primary support from the Department of Energy under award DE-SC0020043, and additional support from the Gordon and Betty Moore Foundation under award GBMF9471 for group operations. article_number: '125411' article_processing_charge: No article_type: original author: - first_name: Paul M full_name: Henderson, Paul M id: 13C09E74-18D9-11E9-8878-32CFE5697425 last_name: Henderson orcid: 0000-0002-5198-7445 - first_name: Areg full_name: Ghazaryan, Areg id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87 last_name: Ghazaryan orcid: 0000-0001-9666-3543 - first_name: Alexander A. full_name: Zibrov, Alexander A. last_name: Zibrov - first_name: Andrea F. full_name: Young, Andrea F. last_name: Young - first_name: Maksym full_name: Serbyn, Maksym id: 47809E7E-F248-11E8-B48F-1D18A9856A87 last_name: Serbyn orcid: 0000-0002-2399-5827 citation: ama: 'Henderson PM, Ghazaryan A, Zibrov AA, Young AF, Serbyn M. Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene. Physical Review B. 2023;108(12). doi:10.1103/physrevb.108.125411' apa: 'Henderson, P. M., Ghazaryan, A., Zibrov, A. A., Young, A. F., & Serbyn, M. (2023). Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.108.125411' chicago: 'Henderson, Paul M, Areg Ghazaryan, Alexander A. Zibrov, Andrea F. Young, and Maksym Serbyn. “Deep Learning Extraction of Band Structure Parameters from Density of States: A Case Study on Trilayer Graphene.” Physical Review B. American Physical Society, 2023. https://doi.org/10.1103/physrevb.108.125411.' ieee: 'P. M. Henderson, A. Ghazaryan, A. A. Zibrov, A. F. Young, and M. Serbyn, “Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene,” Physical Review B, vol. 108, no. 12. American Physical Society, 2023.' ista: 'Henderson PM, Ghazaryan A, Zibrov AA, Young AF, Serbyn M. 2023. Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene. Physical Review B. 108(12), 125411.' mla: 'Henderson, Paul M., et al. “Deep Learning Extraction of Band Structure Parameters from Density of States: A Case Study on Trilayer Graphene.” Physical Review B, vol. 108, no. 12, 125411, American Physical Society, 2023, doi:10.1103/physrevb.108.125411.' short: P.M. Henderson, A. Ghazaryan, A.A. Zibrov, A.F. Young, M. Serbyn, Physical Review B 108 (2023). date_created: 2023-09-12T07:12:12Z date_published: 2023-09-15T00:00:00Z date_updated: 2023-09-20T09:38:24Z day: '15' department: - _id: MaSe - _id: ChLa - _id: MiLe doi: 10.1103/physrevb.108.125411 external_id: arxiv: - '2210.06310' intvolume: ' 108' issue: '12' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2210.06310 month: '09' oa: 1 oa_version: Preprint publication: Physical Review B publication_identifier: eissn: - 2469-9969 issn: - 2469-9950 publication_status: published publisher: American Physical Society quality_controlled: '1' scopus_import: '1' status: public title: 'Deep learning extraction of band structure parameters from density of states: A case study on trilayer graphene' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 108 year: '2023' ... --- _id: '12732' abstract: - lang: eng text: "Nonergodic systems, whose out-of-equilibrium dynamics fail to thermalize, provide a fascinating research direction both for fundamental reasons and for application in state of the art quantum devices.\r\nGoing beyond the description of statistical mechanics, ergodicity breaking yields a new paradigm in quantum many-body physics, introducing novel phases of matter with no counterpart at equilibrium.\r\nIn this Thesis, we address different open questions in the field, focusing on disorder-induced many-body localization (MBL) and on weak ergodicity breaking in kinetically constrained models.\r\nIn particular, we contribute to the debate about transport in kinetically constrained models, studying the effect of $U(1)$ conservation and inversion-symmetry breaking in a family of quantum East models.\r\nUsing tensor network techniques, we analyze the dynamics of large MBL systems beyond the limit of exact numerical methods.\r\nIn this setting, we approach the debated topic of the coexistence of localized and thermal eigenstates separated by energy thresholds known as many-body mobility edges.\r\nInspired by recent experiments, our work further investigates the localization of a small bath induced by the coupling to a large localized chain, the so-called MBL proximity effect.\r\n\r\nIn the first Chapter, we introduce a family of particle-conserving kinetically constrained models, inspired by the quantum East model.\r\nThe system we study features strong inversion-symmetry breaking, due to the nature of the correlated hopping.\r\nWe show that these models host so-called quantum Hilbert space fragmentation, consisting of disconnected subsectors in an entangled basis, and further provide an analytical description of this phenomenon.\r\nWe further probe its effect on dynamics of simple product states, showing revivals in fidelity and local observalbes.\r\nThe study of dynamics within the largest subsector reveals an anomalous transient superdiffusive behavior crossing over to slow logarithmic dynamics at later times.\r\nThis work suggests that particle conserving constrained models with inversion-symmetry breaking realize new universality classes of dynamics and invite their further theoretical and experimental studies.\r\n\r\nNext, we use kinetic constraints and disorder to design a model with many-body mobility edges in particle density.\r\nThis feature allows to study the dynamics of localized and thermal states in large systems beyond the limitations of previous studies.\r\nThe time-evolution shows typical signatures of localization at small densities, replaced by thermal behavior at larger densities.\r\nOur results provide evidence in favor of the stability of many-body mobility edges, which was recently challenged by a theoretical argument.\r\nTo support our findings, we probe the mechanism proposed as a cause of delocalization in many-body localized systems with mobility edges suggesting its ineffectiveness in the model studied.\r\n\r\nIn the last Chapter of this Thesis, we address the topic of many-body localization proximity effect.\r\nWe study a model inspired by recent experiments, featuring Anderson localized coupled to a small bath of free hard-core bosons.\r\nThe interaction among the two particle species results in non-trivial dynamics, which we probe using tensor network techniques.\r\nOur simulations show convincing evidence of many-body localization proximity effect when the bath is composed by a single free particle and interactions are strong.\r\nWe furthter observe an anomalous entanglement dynamics, which we explain through a phenomenological theory.\r\nFinally, we extract highly excited eigenstates of large systems, providing supplementary evidence in favor of our findings." acknowledged_ssus: - _id: ScienComp alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Pietro full_name: Brighi, Pietro id: 4115AF5C-F248-11E8-B48F-1D18A9856A87 last_name: Brighi orcid: 0000-0002-7969-2729 citation: ama: Brighi P. Ergodicity breaking in disordered and kinetically constrained quantum many-body systems. 2023. doi:10.15479/at:ista:12732 apa: Brighi, P. (2023). Ergodicity breaking in disordered and kinetically constrained quantum many-body systems. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:12732 chicago: Brighi, Pietro. “Ergodicity Breaking in Disordered and Kinetically Constrained Quantum Many-Body Systems.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/at:ista:12732. ieee: P. Brighi, “Ergodicity breaking in disordered and kinetically constrained quantum many-body systems,” Institute of Science and Technology Austria, 2023. ista: Brighi P. 2023. Ergodicity breaking in disordered and kinetically constrained quantum many-body systems. Institute of Science and Technology Austria. mla: Brighi, Pietro. Ergodicity Breaking in Disordered and Kinetically Constrained Quantum Many-Body Systems. Institute of Science and Technology Austria, 2023, doi:10.15479/at:ista:12732. short: P. Brighi, Ergodicity Breaking in Disordered and Kinetically Constrained Quantum Many-Body Systems, Institute of Science and Technology Austria, 2023. date_created: 2023-03-17T13:30:48Z date_published: 2023-03-21T00:00:00Z date_updated: 2023-09-20T10:44:12Z day: '21' ddc: - '530' degree_awarded: PhD department: - _id: GradSch - _id: MaSe doi: 10.15479/at:ista:12732 ec_funded: 1 file: - access_level: closed checksum: 5d2de651ef9449c1b8dc27148ca74777 content_type: application/zip creator: pbrighi date_created: 2023-03-23T16:42:56Z date_updated: 2023-03-23T16:42:56Z file_id: '12753' file_name: Thesis_sub_PBrighi.zip file_size: 42167561 relation: source_file - access_level: open_access checksum: 7caa153d4a5b0873a79358787d2dfe1e content_type: application/pdf creator: pbrighi date_created: 2023-03-23T16:43:14Z date_updated: 2023-03-23T16:43:14Z file_id: '12754' file_name: Thesis_PBrighi.pdf file_size: 13977000 relation: main_file success: 1 file_date_updated: 2023-03-23T16:43:14Z has_accepted_license: '1' language: - iso: eng month: '03' oa: 1 oa_version: None page: '158' project: - _id: 23841C26-32DE-11EA-91FC-C7463DDC885E call_identifier: H2020 grant_number: '850899' name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control' publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '11470' relation: part_of_dissertation status: public - id: '8308' relation: part_of_dissertation status: public - id: '11469' relation: part_of_dissertation status: public - id: '12750' relation: part_of_dissertation status: public status: public supervisor: - first_name: Maksym full_name: Serbyn, Maksym id: 47809E7E-F248-11E8-B48F-1D18A9856A87 last_name: Serbyn orcid: 0000-0002-2399-5827 title: Ergodicity breaking in disordered and kinetically constrained quantum many-body systems 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: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2023' ... --- _id: '14334' abstract: - lang: eng text: Quantum kinetically constrained models have recently attracted significant attention due to their anomalous dynamics and thermalization. In this work, we introduce a hitherto unexplored family of kinetically constrained models featuring conserved particle number and strong inversion-symmetry breaking due to facilitated hopping. We demonstrate that these models provide a generic example of so-called quantum Hilbert space fragmentation, that is manifested in disconnected sectors in the Hilbert space that are not apparent in the computational basis. Quantum Hilbert space fragmentation leads to an exponential in system size number of eigenstates with exactly zero entanglement entropy across several bipartite cuts. These eigenstates can be probed dynamically using quenches from simple initial product states. In addition, we study the particle spreading under unitary dynamics launched from the domain wall state, and find faster than diffusive dynamics at high particle densities, that crosses over into logarithmically slow relaxation at smaller densities. Using a classically simulable cellular automaton, we reproduce the logarithmic dynamics observed in the quantum case. Our work suggests that particle conserving constrained models with inversion symmetry breaking realize so far unexplored dynamical behavior and invite their further theoretical and experimental studies. acknowledgement: "We would like to thank Raimel A. Medina, Hansveer Singh, and Dmitry Abanin for useful\r\ndiscussions.The authors acknowledge support by the European Research Council\r\n(ERC) under the European Union’s Horizon 2020 research and innovation program (Grant\r\nAgreement No. 850899). We acknowledge support by the Erwin Schrödinger International\r\nInstitute for Mathematics and Physics (ESI)." article_number: '093' article_processing_charge: No article_type: original author: - first_name: Pietro full_name: Brighi, Pietro id: 4115AF5C-F248-11E8-B48F-1D18A9856A87 last_name: Brighi orcid: 0000-0002-7969-2729 - first_name: Marko full_name: Ljubotina, Marko id: F75EE9BE-5C90-11EA-905D-16643DDC885E last_name: Ljubotina orcid: 0000-0003-0038-7068 - first_name: Maksym full_name: Serbyn, Maksym id: 47809E7E-F248-11E8-B48F-1D18A9856A87 last_name: Serbyn orcid: 0000-0002-2399-5827 citation: ama: Brighi P, Ljubotina M, Serbyn M. Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models. SciPost Physics. 2023;15(3). doi:10.21468/scipostphys.15.3.093 apa: Brighi, P., Ljubotina, M., & Serbyn, M. (2023). Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models. SciPost Physics. SciPost Foundation. https://doi.org/10.21468/scipostphys.15.3.093 chicago: Brighi, Pietro, Marko Ljubotina, and Maksym Serbyn. “Hilbert Space Fragmentation and Slow Dynamics in Particle-Conserving Quantum East Models.” SciPost Physics. SciPost Foundation, 2023. https://doi.org/10.21468/scipostphys.15.3.093. ieee: P. Brighi, M. Ljubotina, and M. Serbyn, “Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models,” SciPost Physics, vol. 15, no. 3. SciPost Foundation, 2023. ista: Brighi P, Ljubotina M, Serbyn M. 2023. Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models. SciPost Physics. 15(3), 093. mla: Brighi, Pietro, et al. “Hilbert Space Fragmentation and Slow Dynamics in Particle-Conserving Quantum East Models.” SciPost Physics, vol. 15, no. 3, 093, SciPost Foundation, 2023, doi:10.21468/scipostphys.15.3.093. short: P. Brighi, M. Ljubotina, M. Serbyn, SciPost Physics 15 (2023). date_created: 2023-09-14T13:08:23Z date_published: 2023-09-13T00:00:00Z date_updated: 2023-09-20T10:46:29Z day: '13' ddc: - '530' department: - _id: MaSe doi: 10.21468/scipostphys.15.3.093 ec_funded: 1 external_id: arxiv: - '2210.15607' file: - access_level: open_access checksum: 4cef6a8021f6b6c47ab2f2f2b1387ac2 content_type: application/pdf creator: dernst date_created: 2023-09-20T10:46:10Z date_updated: 2023-09-20T10:46:10Z file_id: '14350' file_name: 2023_SciPostPhysics_Brighi.pdf file_size: 4866506 relation: main_file success: 1 file_date_updated: 2023-09-20T10:46:10Z has_accepted_license: '1' intvolume: ' 15' issue: '3' keyword: - General Physics and Astronomy language: - iso: eng month: '09' oa: 1 oa_version: Published Version project: - _id: 23841C26-32DE-11EA-91FC-C7463DDC885E call_identifier: H2020 grant_number: '850899' name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control' publication: SciPost Physics publication_identifier: issn: - 2542-4653 publication_status: published publisher: SciPost Foundation quality_controlled: '1' related_material: record: - id: '12750' relation: earlier_version status: public status: public title: Hilbert space fragmentation and slow dynamics in particle-conserving quantum East models 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 15 year: '2023' ... --- _id: '14321' abstract: - lang: eng text: We demonstrate the possibility of a coupling between the magnetization direction of a ferromagnet and the tilting angle of adsorbed achiral molecules. To illustrate the mechanism of the coupling, we analyze a minimal Stoner model that includes Rashba spin–orbit coupling due to the electric field on the surface of the ferromagnet. The proposed mechanism allows us to study magnetic anisotropy of the system with an extended Stoner–Wohlfarth model and argue that adsorbed achiral molecules can change magnetocrystalline anisotropy of the substrate. Our research aims to motivate further experimental studies of the current-free chirality induced spin selectivity effect involving both enantiomers. acknowledgement: "We thank Zhanybek Alpichshev, Mohammad Reza Safari, Binghai Yan, and Yossi Paltiel for enlightening discussions.\r\nM.L. acknowledges support from the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). A. C. received funding from the European Union’s Horizon Europe research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 101062862 - NeqMolRot." article_number: '104103' article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Ragheed full_name: Al Hyder, Ragheed id: d1c405be-ae15-11ed-8510-ccf53278162e last_name: Al Hyder - first_name: Alberto full_name: Cappellaro, Alberto id: 9d13b3cb-30a2-11eb-80dc-f772505e8660 last_name: Cappellaro orcid: 0000-0001-6110-2359 - first_name: Mikhail full_name: Lemeshko, Mikhail id: 37CB05FA-F248-11E8-B48F-1D18A9856A87 last_name: Lemeshko orcid: 0000-0002-6990-7802 - first_name: Artem full_name: Volosniev, Artem id: 37D278BC-F248-11E8-B48F-1D18A9856A87 last_name: Volosniev orcid: 0000-0003-0393-5525 citation: ama: Al Hyder R, Cappellaro A, Lemeshko M, Volosniev A. Achiral dipoles on a ferromagnet can affect its magnetization direction. The Journal of Chemical Physics. 2023;159(10). doi:10.1063/5.0165806 apa: Al Hyder, R., Cappellaro, A., Lemeshko, M., & Volosniev, A. (2023). Achiral dipoles on a ferromagnet can affect its magnetization direction. The Journal of Chemical Physics. AIP Publishing. https://doi.org/10.1063/5.0165806 chicago: Al Hyder, Ragheed, Alberto Cappellaro, Mikhail Lemeshko, and Artem Volosniev. “Achiral Dipoles on a Ferromagnet Can Affect Its Magnetization Direction.” The Journal of Chemical Physics. AIP Publishing, 2023. https://doi.org/10.1063/5.0165806. ieee: R. Al Hyder, A. Cappellaro, M. Lemeshko, and A. Volosniev, “Achiral dipoles on a ferromagnet can affect its magnetization direction,” The Journal of Chemical Physics, vol. 159, no. 10. AIP Publishing, 2023. ista: Al Hyder R, Cappellaro A, Lemeshko M, Volosniev A. 2023. Achiral dipoles on a ferromagnet can affect its magnetization direction. The Journal of Chemical Physics. 159(10), 104103. mla: Al Hyder, Ragheed, et al. “Achiral Dipoles on a Ferromagnet Can Affect Its Magnetization Direction.” The Journal of Chemical Physics, vol. 159, no. 10, 104103, AIP Publishing, 2023, doi:10.1063/5.0165806. short: R. Al Hyder, A. Cappellaro, M. Lemeshko, A. Volosniev, The Journal of Chemical Physics 159 (2023). date_created: 2023-09-13T09:25:09Z date_published: 2023-09-11T00:00:00Z date_updated: 2023-09-20T09:48:12Z day: '11' ddc: - '530' department: - _id: MiLe doi: 10.1063/5.0165806 ec_funded: 1 external_id: arxiv: - '2306.17592' pmid: - '37694742' file: - access_level: open_access checksum: 507ab65ab29e2c987c94cabad7c5370b content_type: application/pdf creator: acappell date_created: 2023-09-13T09:34:20Z date_updated: 2023-09-13T09:34:20Z file_id: '14322' file_name: 104103_1_5.0165806.pdf file_size: 5749653 relation: main_file success: 1 file_date_updated: 2023-09-13T09:34:20Z has_accepted_license: '1' intvolume: ' 159' issue: '10' keyword: - Physical and Theoretical Chemistry - General Physics and Astronomy language: - iso: eng month: '09' oa: 1 oa_version: Published Version pmid: 1 project: - _id: bd7b5202-d553-11ed-ba76-9b1c1b258338 grant_number: '101062862' name: Non-equilibrium Field Theory of Molecular Rotations - _id: 2688CF98-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '801770' name: 'Angulon: physics and applications of a new quasiparticle' publication: The Journal of Chemical Physics publication_identifier: eissn: - 1089-7690 issn: - 0021-9606 publication_status: published publisher: AIP Publishing quality_controlled: '1' scopus_import: '1' status: public title: Achiral dipoles on a ferromagnet can affect its magnetization direction 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 159 year: '2023' ... --- _id: '14342' abstract: - lang: eng text: We propose a simple method to measure nonlinear Kerr refractive index in mid-infrared frequency range that avoids using sophisticated infrared detectors. Our approach is based on using a near-infrared probe beam which interacts with a mid-IR beam via wavelength-non-degenerate cross-phase modulation (XPM). By carefully measuring XPM-induced spectral modifications in the probe beam and comparing the experimental data with simulation results, we extract the value for the non-degenerate Kerr index. Finally, in order to obtain the value of degenerate mid-IR Kerr index, we use the well-established two-band formalism of Sheik-Bahae et al., which is shown to become particularly simple in the limit of low frequencies. The proposed technique is complementary to the conventional techniques, such as z-scan, and has the advantage of not requiring any mid-infrared detectors. acknowledgement: The work was supported by IST Austria. The authors would like to gratefully acknowledge the help and assistance of Professor John M. Dudley. article_number: '091104' article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Dusan full_name: Lorenc, Dusan id: 40D8A3E6-F248-11E8-B48F-1D18A9856A87 last_name: Lorenc - first_name: Zhanybek full_name: Alpichshev, Zhanybek id: 45E67A2A-F248-11E8-B48F-1D18A9856A87 last_name: Alpichshev orcid: 0000-0002-7183-5203 citation: ama: Lorenc D, Alpichshev Z. Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam. Applied Physics Letters. 2023;123(9). doi:10.1063/5.0161713 apa: Lorenc, D., & Alpichshev, Z. (2023). Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam. Applied Physics Letters. AIP Publishing. https://doi.org/10.1063/5.0161713 chicago: Lorenc, Dusan, and Zhanybek Alpichshev. “Mid-Infrared Kerr Index Evaluation via Cross-Phase Modulation with a near-Infrared Probe Beam.” Applied Physics Letters. AIP Publishing, 2023. https://doi.org/10.1063/5.0161713. ieee: D. Lorenc and Z. Alpichshev, “Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam,” Applied Physics Letters, vol. 123, no. 9. AIP Publishing, 2023. ista: Lorenc D, Alpichshev Z. 2023. Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam. Applied Physics Letters. 123(9), 091104. mla: Lorenc, Dusan, and Zhanybek Alpichshev. “Mid-Infrared Kerr Index Evaluation via Cross-Phase Modulation with a near-Infrared Probe Beam.” Applied Physics Letters, vol. 123, no. 9, 091104, AIP Publishing, 2023, doi:10.1063/5.0161713. short: D. Lorenc, Z. Alpichshev, Applied Physics Letters 123 (2023). date_created: 2023-09-17T22:01:09Z date_published: 2023-08-28T00:00:00Z date_updated: 2023-09-20T11:50:06Z day: '28' ddc: - '530' department: - _id: ZhAl doi: 10.1063/5.0161713 external_id: arxiv: - '2306.09043' file: - access_level: open_access checksum: 89a1b604d58b209fec66c6b6f919ac98 content_type: application/pdf creator: dernst date_created: 2023-09-20T11:36:16Z date_updated: 2023-09-20T11:36:16Z file_id: '14353' file_name: 2023_ApplPhysLetter_Lorenc.pdf file_size: 1486715 relation: main_file success: 1 file_date_updated: 2023-09-20T11:36:16Z has_accepted_license: '1' intvolume: ' 123' issue: '9' language: - iso: eng month: '08' oa: 1 oa_version: Published Version publication: Applied Physics Letters publication_identifier: issn: - 0003-6951 publication_status: published publisher: AIP Publishing quality_controlled: '1' scopus_import: '1' status: public title: Mid-infrared Kerr index evaluation via cross-phase modulation with a near-infrared probe beam 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 123 year: '2023' ... --- _id: '14368' abstract: - lang: eng text: "Purpose: \r\nBiallelic variants in TARS2, encoding the mitochondrial threonyl-tRNA-synthetase, have been reported in a small group of individuals displaying a neurodevelopmental phenotype but with limited neuroradiological data and insufficient evidence for causality of the variants.\r\nMethods:\r\nExome or genome sequencing was carried out in 15 families. Clinical and neuroradiological evaluation was performed for all affected individuals, including review of 10 previously reported individuals. The pathogenicity of TARS2 variants was evaluated using in vitro assays and a zebrafish model.\r\nResults:\r\nWe report 18 new individuals harboring biallelic TARS2 variants. Phenotypically, these individuals show developmental delay/intellectual disability, regression, cerebellar and cerebral atrophy, basal ganglia signal alterations, hypotonia, cerebellar signs, and increased blood lactate. In vitro studies showed that variants within the TARS2301-381 region had decreased binding to Rag GTPases, likely impairing mTORC1 activity. The zebrafish model recapitulated key features of the human phenotype and unraveled dysregulation of downstream targets of mTORC1 signaling. Functional testing of the variants confirmed the pathogenicity in a zebrafish model.\r\nConclusion:\r\nWe define the clinico-radiological spectrum of TARS2-related mitochondrial disease, unveil the likely involvement of the mTORC1 signaling pathway as a distinct molecular mechanism, and establish a TARS2 zebrafish model as an important tool to study variant pathogenicity." article_number: '100938' article_processing_charge: No article_type: original author: - first_name: Andrea full_name: Accogli, Andrea last_name: Accogli - first_name: Sheng-Jia full_name: Lin, Sheng-Jia last_name: Lin - first_name: Mariasavina full_name: Severino, Mariasavina last_name: Severino - first_name: Sung-Hoon full_name: Kim, Sung-Hoon last_name: Kim - first_name: Kevin full_name: Huang, Kevin id: 3b3d2888-1ff6-11ee-9fa6-8f209ca91fe3 last_name: Huang orcid: 0000-0002-2512-7812 - first_name: Clarissa full_name: Rocca, Clarissa last_name: Rocca - first_name: Megan full_name: Landsverk, Megan last_name: Landsverk - first_name: Maha S. full_name: Zaki, Maha S. last_name: Zaki - first_name: Almundher full_name: Al-Maawali, Almundher last_name: Al-Maawali - first_name: Varunvenkat M. full_name: Srinivasan, Varunvenkat M. last_name: Srinivasan - first_name: Khalid full_name: Al-Thihli, Khalid last_name: Al-Thihli - first_name: G. Bradly full_name: Schaefer, G. Bradly last_name: Schaefer - first_name: Monica full_name: Davis, Monica last_name: Davis - first_name: Davide full_name: Tonduti, Davide last_name: Tonduti - first_name: Chiara full_name: Doneda, Chiara last_name: Doneda - first_name: Lara M. full_name: Marten, Lara M. last_name: Marten - first_name: Chris full_name: Mühlhausen, Chris last_name: Mühlhausen - first_name: Maria full_name: Gomez, Maria last_name: Gomez - first_name: Eleonora full_name: Lamantea, Eleonora last_name: Lamantea - first_name: Rafael full_name: Mena, Rafael last_name: Mena - first_name: Mathilde full_name: Nizon, Mathilde last_name: Nizon - first_name: Vincent full_name: Procaccio, Vincent last_name: Procaccio - first_name: Amber full_name: Begtrup, Amber last_name: Begtrup - first_name: Aida full_name: Telegrafi, Aida last_name: Telegrafi - first_name: Hong full_name: Cui, Hong last_name: Cui - first_name: Heidi L. full_name: Schulz, Heidi L. last_name: Schulz - first_name: Julia full_name: Mohr, Julia last_name: Mohr - first_name: Saskia full_name: Biskup, Saskia last_name: Biskup - first_name: Mariana Amina full_name: Loos, Mariana Amina last_name: Loos - first_name: Hilda Verónica full_name: Aráoz, Hilda Verónica last_name: Aráoz - first_name: Vincenzo full_name: Salpietro, Vincenzo last_name: Salpietro - first_name: Laura Davis full_name: Keppen, Laura Davis last_name: Keppen - first_name: Manali full_name: Chitre, Manali last_name: Chitre - first_name: Cassidy full_name: Petree, Cassidy last_name: Petree - first_name: Lucy full_name: Raymond, Lucy last_name: Raymond - first_name: Julie full_name: Vogt, Julie last_name: Vogt - first_name: Lindsey B. full_name: Sawyer, Lindsey B. last_name: Sawyer - first_name: Alice A. full_name: Basinger, Alice A. last_name: Basinger - first_name: Signe Vandal full_name: Pedersen, Signe Vandal last_name: Pedersen - first_name: Toni S. full_name: Pearson, Toni S. last_name: Pearson - first_name: Dorothy K. full_name: Grange, Dorothy K. last_name: Grange - first_name: Lokesh full_name: Lingappa, Lokesh last_name: Lingappa - first_name: Paige full_name: McDunnah, Paige last_name: McDunnah - first_name: Rita full_name: Horvath, Rita last_name: Horvath - first_name: Benjamin full_name: Cognè, Benjamin last_name: Cognè - first_name: Bertrand full_name: Isidor, Bertrand last_name: Isidor - first_name: Andreas full_name: Hahn, Andreas last_name: Hahn - first_name: Karen W. full_name: Gripp, Karen W. last_name: Gripp - first_name: Seyed Mehdi full_name: Jafarnejad, Seyed Mehdi last_name: Jafarnejad - first_name: Elsebet full_name: Østergaard, Elsebet last_name: Østergaard - first_name: Carlos E. full_name: Prada, Carlos E. last_name: Prada - first_name: Daniele full_name: Ghezzi, Daniele last_name: Ghezzi - first_name: Vykuntaraju K. full_name: Gowda, Vykuntaraju K. last_name: Gowda - first_name: Robert W. full_name: Taylor, Robert W. last_name: Taylor - first_name: Nahum full_name: Sonenberg, Nahum last_name: Sonenberg - first_name: Henry full_name: Houlden, Henry last_name: Houlden - first_name: Marie full_name: Sissler, Marie last_name: Sissler - first_name: Gaurav K. full_name: Varshney, Gaurav K. last_name: Varshney - first_name: Reza full_name: Maroofian, Reza last_name: Maroofian citation: ama: Accogli A, Lin S-J, Severino M, et al. Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder. Genetics in Medicine. 2023;25(11). doi:10.1016/j.gim.2023.100938 apa: Accogli, A., Lin, S.-J., Severino, M., Kim, S.-H., Huang, K., Rocca, C., … Maroofian, R. (2023). Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder. Genetics in Medicine. Elsevier. https://doi.org/10.1016/j.gim.2023.100938 chicago: Accogli, Andrea, Sheng-Jia Lin, Mariasavina Severino, Sung-Hoon Kim, Kevin Huang, Clarissa Rocca, Megan Landsverk, et al. “Clinical, Neuroradiological, and Molecular Characterization of Mitochondrial Threonyl-TRNA-Synthetase (TARS2)-Related Disorder.” Genetics in Medicine. Elsevier, 2023. https://doi.org/10.1016/j.gim.2023.100938. ieee: A. Accogli et al., “Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder,” Genetics in Medicine, vol. 25, no. 11. Elsevier, 2023. ista: Accogli A, Lin S-J, Severino M, Kim S-H, Huang K, Rocca C, Landsverk M, Zaki MS, Al-Maawali A, Srinivasan VM, Al-Thihli K, Schaefer GB, Davis M, Tonduti D, Doneda C, Marten LM, Mühlhausen C, Gomez M, Lamantea E, Mena R, Nizon M, Procaccio V, Begtrup A, Telegrafi A, Cui H, Schulz HL, Mohr J, Biskup S, Loos MA, Aráoz HV, Salpietro V, Keppen LD, Chitre M, Petree C, Raymond L, Vogt J, Sawyer LB, Basinger AA, Pedersen SV, Pearson TS, Grange DK, Lingappa L, McDunnah P, Horvath R, Cognè B, Isidor B, Hahn A, Gripp KW, Jafarnejad SM, Østergaard E, Prada CE, Ghezzi D, Gowda VK, Taylor RW, Sonenberg N, Houlden H, Sissler M, Varshney GK, Maroofian R. 2023. Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder. Genetics in Medicine. 25(11), 100938. mla: Accogli, Andrea, et al. “Clinical, Neuroradiological, and Molecular Characterization of Mitochondrial Threonyl-TRNA-Synthetase (TARS2)-Related Disorder.” Genetics in Medicine, vol. 25, no. 11, 100938, Elsevier, 2023, doi:10.1016/j.gim.2023.100938. short: A. Accogli, S.-J. Lin, M. Severino, S.-H. Kim, K. Huang, C. Rocca, M. Landsverk, M.S. Zaki, A. Al-Maawali, V.M. Srinivasan, K. Al-Thihli, G.B. Schaefer, M. Davis, D. Tonduti, C. Doneda, L.M. Marten, C. Mühlhausen, M. Gomez, E. Lamantea, R. Mena, M. Nizon, V. Procaccio, A. Begtrup, A. Telegrafi, H. Cui, H.L. Schulz, J. Mohr, S. Biskup, M.A. Loos, H.V. Aráoz, V. Salpietro, L.D. Keppen, M. Chitre, C. Petree, L. Raymond, J. Vogt, L.B. Sawyer, A.A. Basinger, S.V. Pedersen, T.S. Pearson, D.K. Grange, L. Lingappa, P. McDunnah, R. Horvath, B. Cognè, B. Isidor, A. Hahn, K.W. Gripp, S.M. Jafarnejad, E. Østergaard, C.E. Prada, D. Ghezzi, V.K. Gowda, R.W. Taylor, N. Sonenberg, H. Houlden, M. Sissler, G.K. Varshney, R. Maroofian, Genetics in Medicine 25 (2023). date_created: 2023-09-25T08:44:29Z date_published: 2023-11-01T00:00:00Z date_updated: 2023-09-25T08:50:10Z day: '01' ddc: - '570' doi: 10.1016/j.gim.2023.100938 extern: '1' file: - access_level: open_access checksum: 440f0cd8a2ffcbe03c015c1746728387 content_type: application/pdf creator: dernst date_created: 2023-09-25T08:48:54Z date_updated: 2023-09-25T08:48:54Z file_id: '14369' file_name: 2023_GeneticsMedicine_Accogli.pdf file_size: 4105513 relation: main_file success: 1 file_date_updated: 2023-09-25T08:48:54Z has_accepted_license: '1' intvolume: ' 25' issue: '11' keyword: - Genetics (clinical) language: - iso: eng month: '11' oa: 1 oa_version: Published Version publication: Genetics in Medicine publication_identifier: issn: - 1098-3600 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Clinical, neuroradiological, and molecular characterization of mitochondrial threonyl-tRNA-synthetase (TARS2)-related disorder 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 25 year: '2023' ... --- _id: '13120' abstract: - lang: eng text: 'We formalized general (i.e., type-0) grammars using the Lean 3 proof assistant. We defined basic notions of rewrite rules and of words derived by a grammar, and used grammars to show closure of the class of type-0 languages under four operations: union, reversal, concatenation, and the Kleene star. The literature mostly focuses on Turing machine arguments, which are possibly more difficult to formalize. For the Kleene star, we could not follow the literature and came up with our own grammar-based construction.' acknowledgement: "Jasmin Blanchette: This research has received funding from the Netherlands Organization\r\nfor Scientific Research (NWO) under the Vidi program (project No. 016.Vidi.189.037, Lean Forward).\r\n__\r\nWe thank Vladimir Kolmogorov for making this collaboration possible. We\r\nthank Václav Končický for discussing ideas about the Kleene star construction. We thank Patrick Johnson, Floris van Doorn, and Damiano Testa for their small yet very valuable contributions to our code. We thank Eric Wieser for simplifying one of our proofs. We thank Mark Summerfield for suggesting textual improvements. We thank the anonymous reviewers for very helpful comments. Finally, we thank the Lean community for helping us with various technical issues and answering many questions. " alternative_title: - LIPIcs article_number: '15' article_processing_charge: No author: - first_name: Martin full_name: Dvorak, Martin id: 40ED02A8-C8B4-11E9-A9C0-453BE6697425 last_name: Dvorak orcid: 0000-0001-5293-214X - first_name: Jasmin full_name: Blanchette, Jasmin last_name: Blanchette citation: ama: 'Dvorak M, Blanchette J. Closure properties of general grammars - formally verified. In: 14th International Conference on Interactive Theorem Proving. Vol 268. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2023. doi:10.4230/LIPIcs.ITP.2023.15' apa: 'Dvorak, M., & Blanchette, J. (2023). Closure properties of general grammars - formally verified. In 14th International Conference on Interactive Theorem Proving (Vol. 268). Bialystok, Poland: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.ITP.2023.15' chicago: Dvorak, Martin, and Jasmin Blanchette. “Closure Properties of General Grammars - Formally Verified.” In 14th International Conference on Interactive Theorem Proving, Vol. 268. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023. https://doi.org/10.4230/LIPIcs.ITP.2023.15. ieee: M. Dvorak and J. Blanchette, “Closure properties of general grammars - formally verified,” in 14th International Conference on Interactive Theorem Proving, Bialystok, Poland, 2023, vol. 268. ista: 'Dvorak M, Blanchette J. 2023. Closure properties of general grammars - formally verified. 14th International Conference on Interactive Theorem Proving. ITP: International Conference on Interactive Theorem Proving, LIPIcs, vol. 268, 15.' mla: Dvorak, Martin, and Jasmin Blanchette. “Closure Properties of General Grammars - Formally Verified.” 14th International Conference on Interactive Theorem Proving, vol. 268, 15, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, doi:10.4230/LIPIcs.ITP.2023.15. short: M. Dvorak, J. Blanchette, in:, 14th International Conference on Interactive Theorem Proving, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023. conference: end_date: 2023-08-04 location: Bialystok, Poland name: 'ITP: International Conference on Interactive Theorem Proving' start_date: 2023-07-31 date_created: 2023-06-05T07:29:05Z date_published: 2023-07-27T00:00:00Z date_updated: 2023-09-25T11:04:29Z day: '27' ddc: - '000' department: - _id: GradSch - _id: VlKo doi: 10.4230/LIPIcs.ITP.2023.15 external_id: arxiv: - '2302.06420' file: - access_level: open_access checksum: 773a0197f05b67feaa6cb1e17ec3642d content_type: application/pdf creator: dernst date_created: 2023-08-07T11:55:43Z date_updated: 2023-08-07T11:55:43Z file_id: '13982' file_name: 2023_LIPIcS_Dvorak.pdf file_size: 715976 relation: main_file success: 1 file_date_updated: 2023-08-07T11:55:43Z has_accepted_license: '1' intvolume: ' 268' language: - iso: eng month: '07' oa: 1 oa_version: Published Version publication: 14th International Conference on Interactive Theorem Proving publication_identifier: eissn: - 1868-8969 isbn: - '9783959772846' publication_status: published publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik quality_controlled: '1' related_material: link: - relation: software url: https://github.com/madvorak/grammars/tree/publish scopus_import: '1' status: public title: Closure properties of general grammars - formally verified 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: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 268 year: '2023' ... --- _id: '13969' abstract: - lang: eng text: "Bundling crossings is a strategy which can enhance the readability\r\nof graph drawings. In this paper we consider good drawings, i.e., we require that\r\nany two edges have at most one common point which can be a common vertex or a\r\ncrossing. Our main result is that there is a polynomial-time algorithm to compute an\r\n8-approximation of the bundled crossing number of a good drawing with no toothed\r\nhole. In general the number of toothed holes has to be added to the 8-approximation.\r\nIn the special case of circular drawings the approximation factor is 8, this improves\r\nupon the 10-approximation of Fink et al. [14]. Our approach also works with the same\r\napproximation factor for families of pseudosegments, i.e., curves intersecting at most\r\nonce. We also show how to compute a 9/2-approximation when the intersection graph of\r\nthe pseudosegments is bipartite and has no toothed hole." acknowledgement: This work was initiated during the Workshop on Geometric Graphs in November 2019 in Strobl, Austria. We would like to thank Oswin Aichholzer, Fabian Klute, Man-Kwun Chiu, Martin Balko, Pavel Valtr for their avid discussions during the workshop. The first author has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sk lodowska-Curie grant agreement No 754411. The second author has been supported by the German Research Foundation DFG Project FE 340/12-1. An extended abstract of this paper has been published in the proceedings of WALCOM 2022 in the Springer LNCS series, vol. 13174, pages 383–395. article_processing_charge: Yes article_type: original author: - first_name: Alan M full_name: Arroyo Guevara, Alan M id: 3207FDC6-F248-11E8-B48F-1D18A9856A87 last_name: Arroyo Guevara orcid: 0000-0003-2401-8670 - first_name: Stefan full_name: Felsner, Stefan last_name: Felsner citation: ama: Arroyo Guevara AM, Felsner S. Approximating the bundled crossing number. Journal of Graph Algorithms and Applications. 2023;27(6):433-457. doi:10.7155/jgaa.00629 apa: Arroyo Guevara, A. M., & Felsner, S. (2023). Approximating the bundled crossing number. Journal of Graph Algorithms and Applications. Brown University. https://doi.org/10.7155/jgaa.00629 chicago: Arroyo Guevara, Alan M, and Stefan Felsner. “Approximating the Bundled Crossing Number.” Journal of Graph Algorithms and Applications. Brown University, 2023. https://doi.org/10.7155/jgaa.00629. ieee: A. M. Arroyo Guevara and S. Felsner, “Approximating the bundled crossing number,” Journal of Graph Algorithms and Applications, vol. 27, no. 6. Brown University, pp. 433–457, 2023. ista: Arroyo Guevara AM, Felsner S. 2023. Approximating the bundled crossing number. Journal of Graph Algorithms and Applications. 27(6), 433–457. mla: Arroyo Guevara, Alan M., and Stefan Felsner. “Approximating the Bundled Crossing Number.” Journal of Graph Algorithms and Applications, vol. 27, no. 6, Brown University, 2023, pp. 433–57, doi:10.7155/jgaa.00629. short: A.M. Arroyo Guevara, S. Felsner, Journal of Graph Algorithms and Applications 27 (2023) 433–457. date_created: 2023-08-06T22:01:11Z date_published: 2023-07-01T00:00:00Z date_updated: 2023-09-25T10:56:10Z day: '01' ddc: - '510' department: - _id: UlWa doi: 10.7155/jgaa.00629 ec_funded: 1 external_id: arxiv: - '2109.14892' file: - access_level: open_access checksum: 9c30d2b8e324cc1c904f2aeec92013a3 content_type: application/pdf creator: dernst date_created: 2023-08-07T08:00:48Z date_updated: 2023-08-07T08:00:48Z file_id: '13979' file_name: 2023_JourGraphAlgorithms_Arroyo.pdf file_size: 865774 relation: main_file success: 1 file_date_updated: 2023-08-07T08:00:48Z has_accepted_license: '1' intvolume: ' 27' issue: '6' language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 433-457 project: - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships publication: Journal of Graph Algorithms and Applications publication_identifier: issn: - 1526-1719 publication_status: published publisher: Brown University quality_controlled: '1' related_material: record: - id: '11185' relation: earlier_version status: public scopus_import: '1' status: public title: Approximating the bundled crossing number 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 27 year: '2023' ... --- _id: '14344' abstract: - lang: eng text: We study the Hamilton cycle problem with input a random graph G ~ G(n,p) in two different settings. In the first one, G is given to us in the form of randomly ordered adjacency lists while in the second one, we are given the adjacency matrix of G. In each of the two settings we derive a deterministic algorithm that w.h.p. either finds a Hamilton cycle or returns a certificate that such a cycle does not exist for p = p(n) ≥ 0. The running times of our algorithms are O(n) and respectively, each being best possible in its own setting. article_processing_charge: No author: - first_name: Michael full_name: Anastos, Michael id: 0b2a4358-bb35-11ec-b7b9-e3279b593dbb last_name: Anastos citation: ama: 'Anastos M. Fast algorithms for solving the Hamilton cycle problem with high probability. In: Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms. Vol 2023. Society for Industrial and Applied Mathematics; 2023:2286-2323. doi:10.1137/1.9781611977554.ch88' apa: 'Anastos, M. (2023). Fast algorithms for solving the Hamilton cycle problem with high probability. In Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms (Vol. 2023, pp. 2286–2323). Florence, Italy: Society for Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611977554.ch88' chicago: Anastos, Michael. “Fast Algorithms for Solving the Hamilton Cycle Problem with High Probability.” In Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms, 2023:2286–2323. Society for Industrial and Applied Mathematics, 2023. https://doi.org/10.1137/1.9781611977554.ch88. ieee: M. Anastos, “Fast algorithms for solving the Hamilton cycle problem with high probability,” in Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms, Florence, Italy, 2023, vol. 2023, pp. 2286–2323. ista: 'Anastos M. 2023. Fast algorithms for solving the Hamilton cycle problem with high probability. Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms. SODA: Symposium on Discrete Algorithms vol. 2023, 2286–2323.' mla: Anastos, Michael. “Fast Algorithms for Solving the Hamilton Cycle Problem with High Probability.” Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms, vol. 2023, Society for Industrial and Applied Mathematics, 2023, pp. 2286–323, doi:10.1137/1.9781611977554.ch88. short: M. Anastos, in:, Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2023, pp. 2286–2323. conference: end_date: 2023-01-25 location: Florence, Italy name: 'SODA: Symposium on Discrete Algorithms' start_date: 2023-01-22 date_created: 2023-09-17T22:01:10Z date_published: 2023-01-01T00:00:00Z date_updated: 2023-09-25T09:13:41Z day: '01' department: - _id: MaKw doi: 10.1137/1.9781611977554.ch88 external_id: arxiv: - '2111.14759' intvolume: ' 2023' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2111.14759 month: '01' oa: 1 oa_version: Preprint page: 2286-2323 publication: Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms publication_identifier: isbn: - '9781611977554' publication_status: published publisher: Society for Industrial and Applied Mathematics quality_controlled: '1' scopus_import: '1' status: public title: Fast algorithms for solving the Hamilton cycle problem with high probability type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 2023 year: '2023' ... --- _id: '12710' abstract: - lang: eng text: Surface curvature both emerges from, and influences the behavior of, living objects at length scales ranging from cell membranes to single cells to tissues and organs. The relevance of surface curvature in biology is supported by numerous experimental and theoretical investigations in recent years. In this review, first, a brief introduction to the key ideas of surface curvature in the context of biological systems is given and the challenges that arise when measuring surface curvature are discussed. Giving an overview of the emergence of curvature in biological systems, its significance at different length scales becomes apparent. On the other hand, summarizing current findings also shows that both single cells and entire cell sheets, tissues or organisms respond to curvature by modulating their shape and their migration behavior. Finally, the interplay between the distribution of morphogens or micro-organisms and the emergence of curvature across length scales is addressed with examples demonstrating these key mechanistic principles of morphogenesis. Overall, this review highlights that curved interfaces are not merely a passive by-product of the chemical, biological, and mechanical processes but that curvature acts also as a signal that co-determines these processes. acknowledgement: B.S. and A.R. contributed equally to this work. A.P.G.C. and P.R.F. acknowledge the funding from Fundação para a Ciência e Tecnologia (Portugal), through IDMEC, under LAETA project UIDB/50022/2020. T.H.V.P. acknowledges the funding from Fundação para a Ciência e Tecnologia (Portugal), through Ph.D. Grant 2020.04417.BD. A.S. acknowledges that this work was partially supported by the ATTRACT Investigator Grant (no. A17/MS/11572821/MBRACE, to A.S.) from the Luxembourg National Research Fund. The author thanks Gerardo Ceada for his help in the graphical representations. N.A.K. acknowledges support from the European Research Council (grant 851960) and the Gravitation Program “Materials Driven Regeneration,” funded by the Netherlands Organization for Scientific Research (024.003.013). M.B.A. acknowledges support from the French National Research Agency (grant ANR-201-8-CE1-3-0008 for the project “Epimorph”). G.E.S.T. acknowledges funding by the Australian Research Council through project DP200102593. A.C. acknowledges the funding from the Deutsche Forschungsgemeinschaft (DFG) Emmy Noether Grant CI 203/-2 1, the Spanish Ministry of Science and Innovation (PID2021-123013O-BI00) and the IKERBASQUE Basque Foundation for Science. article_number: '2206110' article_processing_charge: No article_type: review author: - first_name: Barbara full_name: Schamberger, Barbara last_name: Schamberger - first_name: Ricardo full_name: Ziege, Ricardo last_name: Ziege - first_name: Karine full_name: Anselme, Karine last_name: Anselme - first_name: Martine full_name: Ben Amar, Martine last_name: Ben Amar - first_name: Michał full_name: Bykowski, Michał last_name: Bykowski - first_name: André P.G. full_name: Castro, André P.G. last_name: Castro - first_name: Amaia full_name: Cipitria, Amaia last_name: Cipitria - first_name: Rhoslyn A. full_name: Coles, Rhoslyn A. last_name: Coles - first_name: Rumiana full_name: Dimova, Rumiana last_name: Dimova - first_name: Michaela full_name: Eder, Michaela last_name: Eder - first_name: Sebastian full_name: Ehrig, Sebastian last_name: Ehrig - first_name: Luis M. full_name: Escudero, Luis M. last_name: Escudero - first_name: Myfanwy E. full_name: Evans, Myfanwy E. last_name: Evans - first_name: Paulo R. full_name: Fernandes, Paulo R. last_name: Fernandes - first_name: Peter full_name: Fratzl, Peter last_name: Fratzl - first_name: Liesbet full_name: Geris, Liesbet last_name: Geris - first_name: Notburga full_name: Gierlinger, Notburga last_name: Gierlinger - 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: Aleš full_name: Iglič, Aleš last_name: Iglič - first_name: Jacob J.K. full_name: Kirkensgaard, Jacob J.K. last_name: Kirkensgaard - first_name: Philip full_name: Kollmannsberger, Philip last_name: Kollmannsberger - first_name: Łucja full_name: Kowalewska, Łucja last_name: Kowalewska - first_name: Nicholas A. full_name: Kurniawan, Nicholas A. last_name: Kurniawan - first_name: Ioannis full_name: Papantoniou, Ioannis last_name: Papantoniou - first_name: Laurent full_name: Pieuchot, Laurent last_name: Pieuchot - first_name: Tiago H.V. full_name: Pires, Tiago H.V. last_name: Pires - first_name: Lars D. full_name: Renner, Lars D. last_name: Renner - first_name: Andrew O. full_name: Sageman-Furnas, Andrew O. last_name: Sageman-Furnas - first_name: Gerd E. full_name: Schröder-Turk, Gerd E. last_name: Schröder-Turk - first_name: Anupam full_name: Sengupta, Anupam last_name: Sengupta - first_name: Vikas R. full_name: Sharma, Vikas R. last_name: Sharma - first_name: Antonio full_name: Tagua, Antonio last_name: Tagua - first_name: Caterina full_name: Tomba, Caterina last_name: Tomba - first_name: Xavier full_name: Trepat, Xavier last_name: Trepat - first_name: Sarah L. full_name: Waters, Sarah L. last_name: Waters - first_name: Edwina F. full_name: Yeo, Edwina F. last_name: Yeo - first_name: Andreas full_name: Roschger, Andreas last_name: Roschger - first_name: Cécile M. full_name: Bidan, Cécile M. last_name: Bidan - first_name: John W.C. full_name: Dunlop, John W.C. last_name: Dunlop citation: ama: 'Schamberger B, Ziege R, Anselme K, et al. Curvature in biological systems: Its quantification, emergence, and implications across the scales. Advanced Materials. 2023;35(13). doi:10.1002/adma.202206110' apa: 'Schamberger, B., Ziege, R., Anselme, K., Ben Amar, M., Bykowski, M., Castro, A. P. G., … Dunlop, J. W. C. (2023). Curvature in biological systems: Its quantification, emergence, and implications across the scales. Advanced Materials. Wiley. https://doi.org/10.1002/adma.202206110' chicago: 'Schamberger, Barbara, Ricardo Ziege, Karine Anselme, Martine Ben Amar, Michał Bykowski, André P.G. Castro, Amaia Cipitria, et al. “Curvature in Biological Systems: Its Quantification, Emergence, and Implications across the Scales.” Advanced Materials. Wiley, 2023. https://doi.org/10.1002/adma.202206110.' ieee: 'B. Schamberger et al., “Curvature in biological systems: Its quantification, emergence, and implications across the scales,” Advanced Materials, vol. 35, no. 13. Wiley, 2023.' ista: 'Schamberger B, Ziege R, Anselme K, Ben Amar M, Bykowski M, Castro APG, Cipitria A, Coles RA, Dimova R, Eder M, Ehrig S, Escudero LM, Evans ME, Fernandes PR, Fratzl P, Geris L, Gierlinger N, Hannezo EB, Iglič A, Kirkensgaard JJK, Kollmannsberger P, Kowalewska Ł, Kurniawan NA, Papantoniou I, Pieuchot L, Pires THV, Renner LD, Sageman-Furnas AO, Schröder-Turk GE, Sengupta A, Sharma VR, Tagua A, Tomba C, Trepat X, Waters SL, Yeo EF, Roschger A, Bidan CM, Dunlop JWC. 2023. Curvature in biological systems: Its quantification, emergence, and implications across the scales. Advanced Materials. 35(13), 2206110.' mla: 'Schamberger, Barbara, et al. “Curvature in Biological Systems: Its Quantification, Emergence, and Implications across the Scales.” Advanced Materials, vol. 35, no. 13, 2206110, Wiley, 2023, doi:10.1002/adma.202206110.' short: B. Schamberger, R. Ziege, K. Anselme, M. Ben Amar, M. Bykowski, A.P.G. Castro, A. Cipitria, R.A. Coles, R. Dimova, M. Eder, S. Ehrig, L.M. Escudero, M.E. Evans, P.R. Fernandes, P. Fratzl, L. Geris, N. Gierlinger, E.B. Hannezo, A. Iglič, J.J.K. Kirkensgaard, P. Kollmannsberger, Ł. Kowalewska, N.A. Kurniawan, I. Papantoniou, L. Pieuchot, T.H.V. Pires, L.D. Renner, A.O. Sageman-Furnas, G.E. Schröder-Turk, A. Sengupta, V.R. Sharma, A. Tagua, C. Tomba, X. Trepat, S.L. Waters, E.F. Yeo, A. Roschger, C.M. Bidan, J.W.C. Dunlop, Advanced Materials 35 (2023). date_created: 2023-03-05T23:01:06Z date_published: 2023-03-29T00:00:00Z date_updated: 2023-09-26T10:56:46Z day: '29' ddc: - '570' department: - _id: EdHa doi: 10.1002/adma.202206110 external_id: isi: - '000941068900001' pmid: - '36461812' file: - access_level: open_access checksum: 5c04d68130e97a0ecd1ca27fbc15a246 content_type: application/pdf creator: dernst date_created: 2023-09-26T10:51:56Z date_updated: 2023-09-26T10:51:56Z file_id: '14373' file_name: 2023_AdvancedMaterials_Schamberger.pdf file_size: 2898063 relation: main_file success: 1 file_date_updated: 2023-09-26T10:51:56Z has_accepted_license: '1' intvolume: ' 35' isi: 1 issue: '13' language: - iso: eng month: '03' oa: 1 oa_version: Published Version pmid: 1 publication: Advanced Materials publication_identifier: eissn: - 1521-4095 issn: - 0935-9648 publication_status: published publisher: Wiley quality_controlled: '1' scopus_import: '1' status: public title: 'Curvature in biological systems: Its quantification, emergence, and implications across the scales' 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 35 year: '2023' ... --- _id: '14377' abstract: - lang: eng text: Coherent flows of self-propelled particles are characterized by vortices and jets that sustain chaotic flows, referred to as active turbulence. Here, we reveal a crossover between defect-free active turbulence and active turbulence laden with topological defects. Interestingly, we show that concurrent to the crossover from defect-free to defect-laden active turbulence is the restoration of the previously broken SO(2) symmetry signaled by the fast decay of the two-point correlations. By stability analyses of the topological charge density field, we provide theoretical insights on the criterion for the crossover to the defect-laden active turbulent state. Despite the distinct symmetry features between these two active turbulence regimes, the flow fluctuations exhibit universal statistical scaling behaviors at large scales, while the spectrum of polarity fluctuations decays exponentially at small length scales compared to the active energy injection length. These findings reveal a dynamical crossover between distinct spatiotemporal organization patterns in polar active matter. article_number: '063101' article_processing_charge: No article_type: original author: - first_name: Benjamin H. full_name: Andersen, Benjamin H. last_name: Andersen - first_name: Julian B full_name: Renaud, Julian B id: 7af6767d-14eb-11ed-b536-a32449ae867c last_name: Renaud - first_name: Jonas full_name: Rønning, Jonas last_name: Rønning - first_name: Luiza full_name: Angheluta, Luiza last_name: Angheluta - first_name: Amin full_name: Doostmohammadi, Amin last_name: Doostmohammadi citation: ama: Andersen BH, Renaud JB, Rønning J, Angheluta L, Doostmohammadi A. Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter. Physical Review Fluids. 2023;8(6). doi:10.1103/physrevfluids.8.063101 apa: Andersen, B. H., Renaud, J. B., Rønning, J., Angheluta, L., & Doostmohammadi, A. (2023). Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter. Physical Review Fluids. American Physical Society. https://doi.org/10.1103/physrevfluids.8.063101 chicago: Andersen, Benjamin H., Julian B Renaud, Jonas Rønning, Luiza Angheluta, and Amin Doostmohammadi. “Symmetry-Restoring Crossover from Defect-Free to Defect-Laden Turbulence in Polar Active Matter.” Physical Review Fluids. American Physical Society, 2023. https://doi.org/10.1103/physrevfluids.8.063101. ieee: B. H. Andersen, J. B. Renaud, J. Rønning, L. Angheluta, and A. Doostmohammadi, “Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter,” Physical Review Fluids, vol. 8, no. 6. American Physical Society, 2023. ista: Andersen BH, Renaud JB, Rønning J, Angheluta L, Doostmohammadi A. 2023. Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter. Physical Review Fluids. 8(6), 063101. mla: Andersen, Benjamin H., et al. “Symmetry-Restoring Crossover from Defect-Free to Defect-Laden Turbulence in Polar Active Matter.” Physical Review Fluids, vol. 8, no. 6, 063101, American Physical Society, 2023, doi:10.1103/physrevfluids.8.063101. short: B.H. Andersen, J.B. Renaud, J. Rønning, L. Angheluta, A. Doostmohammadi, Physical Review Fluids 8 (2023). date_created: 2023-09-29T08:46:47Z date_published: 2023-06-14T00:00:00Z date_updated: 2023-10-03T07:25:39Z day: '14' doi: 10.1103/physrevfluids.8.063101 extern: '1' external_id: arxiv: - '2209.10916' intvolume: ' 8' issue: '6' keyword: - Fluid Flow and Transfer Processes - Modeling and Simulation - Computational Mechanics language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/2209.10916 month: '06' oa: 1 oa_version: Preprint publication: Physical Review Fluids publication_identifier: issn: - 2469-990X publication_status: published publisher: American Physical Society quality_controlled: '1' scopus_import: '1' status: public title: Symmetry-restoring crossover from defect-free to defect-laden turbulence in polar active matter type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 8 year: '2023' ... --- _id: '13340' abstract: - lang: eng text: Photoisomerization of azobenzenes from their stable E isomer to the metastable Z state is the basis of numerous applications of these molecules. However, this reaction typically requires ultraviolet light, which limits applicability. In this study, we introduce disequilibration by sensitization under confinement (DESC), a supramolecular approach to induce the E-to-Z isomerization by using light of a desired color, including red. DESC relies on a combination of a macrocyclic host and a photosensitizer, which act together to selectively bind and sensitize E-azobenzenes for isomerization. The Z isomer lacks strong affinity for and is expelled from the host, which can then convert additional E-azobenzenes to the Z state. In this way, the host–photosensitizer complex converts photon energy into chemical energy in the form of out-of-equilibrium photostationary states, including ones that cannot be accessed through direct photoexcitation. acknowledgement: We acknowledge funding from the European Union’s Horizon 2020 Research and Innovation Program [European Research Council grants 820008 (Ra.K.) and 101045223 (A.P.) and Marie Skłodowska-Curie grants 812868 (J.G.) and 101022777 (T.-P.R.)], the Academy of Finland [Center of Excellence Programme LIBER grant 346107 (A.P.), Flagship Programme PREIN grant 320165 (A.P.), and Postdoctoral Researcher grant 340103 (T.-P.R.)], Zuckerman STEM Leadership Program Fellowship (J.R.C.), President’s PhD Scholarship (M.O.), and the EPSRC [Established Career Fellowship grant EP/R00188X/1 (M.J.F.)]. article_processing_charge: No article_type: original author: - first_name: Julius full_name: Gemen, Julius last_name: Gemen - first_name: Jonathan R. full_name: Church, Jonathan R. last_name: Church - first_name: Tero-Petri full_name: Ruoko, Tero-Petri last_name: Ruoko - first_name: Nikita full_name: Durandin, Nikita last_name: Durandin - first_name: Michał J. full_name: Białek, Michał J. last_name: Białek - first_name: Maren full_name: Weissenfels, Maren last_name: Weissenfels - first_name: Moran full_name: Feller, Moran last_name: Feller - first_name: Miri full_name: Kazes, Miri last_name: Kazes - first_name: Veniamin A. full_name: Borin, Veniamin A. last_name: Borin - first_name: Magdalena full_name: Odaybat, Magdalena last_name: Odaybat - first_name: Rishir full_name: Kalepu, Rishir last_name: Kalepu - first_name: Yael full_name: Diskin-Posner, Yael last_name: Diskin-Posner - first_name: Dan full_name: Oron, Dan last_name: Oron - first_name: Matthew J. full_name: Fuchter, Matthew J. last_name: Fuchter - first_name: Arri full_name: Priimagi, Arri last_name: Priimagi - first_name: Igor full_name: Schapiro, Igor last_name: Schapiro - first_name: Rafal full_name: Klajn, Rafal id: 8e84690e-1e48-11ed-a02b-a1e6fb8bb53b last_name: Klajn citation: ama: Gemen J, Church JR, Ruoko T-P, et al. Disequilibrating azoarenes by visible-light sensitization under confinement. Science. 2023;381(6664):1357-1363. doi:10.1126/science.adh9059 apa: Gemen, J., Church, J. R., Ruoko, T.-P., Durandin, N., Białek, M. J., Weissenfels, M., … Klajn, R. (2023). Disequilibrating azoarenes by visible-light sensitization under confinement. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.adh9059 chicago: Gemen, Julius, Jonathan R. Church, Tero-Petri Ruoko, Nikita Durandin, Michał J. Białek, Maren Weissenfels, Moran Feller, et al. “Disequilibrating Azoarenes by Visible-Light Sensitization under Confinement.” Science. American Association for the Advancement of Science, 2023. https://doi.org/10.1126/science.adh9059. ieee: J. Gemen et al., “Disequilibrating azoarenes by visible-light sensitization under confinement,” Science, vol. 381, no. 6664. American Association for the Advancement of Science, pp. 1357–1363, 2023. ista: Gemen J, Church JR, Ruoko T-P, Durandin N, Białek MJ, Weissenfels M, Feller M, Kazes M, Borin VA, Odaybat M, Kalepu R, Diskin-Posner Y, Oron D, Fuchter MJ, Priimagi A, Schapiro I, Klajn R. 2023. Disequilibrating azoarenes by visible-light sensitization under confinement. Science. 381(6664), 1357–1363. mla: Gemen, Julius, et al. “Disequilibrating Azoarenes by Visible-Light Sensitization under Confinement.” Science, vol. 381, no. 6664, American Association for the Advancement of Science, 2023, pp. 1357–63, doi:10.1126/science.adh9059. short: J. Gemen, J.R. Church, T.-P. Ruoko, N. Durandin, M.J. Białek, M. Weissenfels, M. Feller, M. Kazes, V.A. Borin, M. Odaybat, R. Kalepu, Y. Diskin-Posner, D. Oron, M.J. Fuchter, A. Priimagi, I. Schapiro, R. Klajn, Science 381 (2023) 1357–1363. date_created: 2023-08-01T08:26:15Z date_published: 2023-09-22T00:00:00Z date_updated: 2023-10-03T08:11:26Z day: '22' department: - _id: RaKl doi: 10.1126/science.adh9059 intvolume: ' 381' issue: '6664' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.26434/chemrxiv-2023-gq2h0 month: '09' oa: 1 oa_version: Preprint page: 1357-1363 publication: Science publication_identifier: eissn: - 1095-9203 publication_status: published publisher: American Association for the Advancement of Science quality_controlled: '1' scopus_import: '1' status: public title: Disequilibrating azoarenes by visible-light sensitization under confinement type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 381 year: '2023' ... --- _id: '12705' abstract: - lang: eng text: The elasticity of disordered and polydisperse polymer networks is a fundamental problem of soft matter physics that is still open. Here, we self-assemble polymer networks via simulations of a mixture of bivalent and tri- or tetravalent patchy particles, which result in an exponential strand length distribution analogous to that of experimental randomly cross-linked systems. After assembly, the network connectivity and topology are frozen and the resulting system is characterized. We find that the fractal structure of the network depends on the number density at which the assembly has been carried out, but that systems with the same mean valence and same assembly density have the same structural properties. Moreover, we compute the long-time limit of the mean-squared displacement, also known as the (squared) localization length, of the cross-links and of the middle monomers of the strands, showing that the dynamics of long strands is well described by the tube model. Finally, we find a relation connecting these two localization lengths at high density and connect the cross-link localization length to the shear modulus of the system. acknowledgement: We thank Michael Lang for helpful discussions. We acknowledge financial support from the European Research Council (ERC Consolidator Grant No. 681597, MIMIC) and from LabEx NUMEV (Grant No. ANR-10-LABX-20) funded by the “Investissements d’Avenir” French Government program, managed by the French National Research Agency (ANR). W.K. is a senior member of the Institut Universitaire de France. article_number: '074905' article_processing_charge: No article_type: original author: - first_name: Valerio full_name: Sorichetti, Valerio id: ef8a92cb-c7b6-11ec-8bea-e1fd5847bc5b last_name: Sorichetti orcid: 0000-0002-9645-6576 - first_name: Andrea full_name: Ninarello, Andrea last_name: Ninarello - first_name: José full_name: Ruiz-Franco, José last_name: Ruiz-Franco - first_name: Virginie full_name: Hugouvieux, Virginie last_name: Hugouvieux - first_name: Emanuela full_name: Zaccarelli, Emanuela last_name: Zaccarelli - first_name: Cristian full_name: Micheletti, Cristian last_name: Micheletti - first_name: Walter full_name: Kob, Walter last_name: Kob - first_name: Lorenzo full_name: Rovigatti, Lorenzo last_name: Rovigatti citation: ama: Sorichetti V, Ninarello A, Ruiz-Franco J, et al. Structure and elasticity of model disordered, polydisperse, and defect-free polymer networks. Journal of Chemical Physics. 2023;158(7). doi:10.1063/5.0134271 apa: Sorichetti, V., Ninarello, A., Ruiz-Franco, J., Hugouvieux, V., Zaccarelli, E., Micheletti, C., … Rovigatti, L. (2023). Structure and elasticity of model disordered, polydisperse, and defect-free polymer networks. Journal of Chemical Physics. American Institute of Physics. https://doi.org/10.1063/5.0134271 chicago: Sorichetti, Valerio, Andrea Ninarello, José Ruiz-Franco, Virginie Hugouvieux, Emanuela Zaccarelli, Cristian Micheletti, Walter Kob, and Lorenzo Rovigatti. “Structure and Elasticity of Model Disordered, Polydisperse, and Defect-Free Polymer Networks.” Journal of Chemical Physics. American Institute of Physics, 2023. https://doi.org/10.1063/5.0134271. ieee: V. Sorichetti et al., “Structure and elasticity of model disordered, polydisperse, and defect-free polymer networks,” Journal of Chemical Physics, vol. 158, no. 7. American Institute of Physics, 2023. ista: Sorichetti V, Ninarello A, Ruiz-Franco J, Hugouvieux V, Zaccarelli E, Micheletti C, Kob W, Rovigatti L. 2023. Structure and elasticity of model disordered, polydisperse, and defect-free polymer networks. Journal of Chemical Physics. 158(7), 074905. mla: Sorichetti, Valerio, et al. “Structure and Elasticity of Model Disordered, Polydisperse, and Defect-Free Polymer Networks.” Journal of Chemical Physics, vol. 158, no. 7, 074905, American Institute of Physics, 2023, doi:10.1063/5.0134271. short: V. Sorichetti, A. Ninarello, J. Ruiz-Franco, V. Hugouvieux, E. Zaccarelli, C. Micheletti, W. Kob, L. Rovigatti, Journal of Chemical Physics 158 (2023). date_created: 2023-03-05T23:01:05Z date_published: 2023-02-21T00:00:00Z date_updated: 2023-10-03T11:31:51Z day: '21' department: - _id: AnSa doi: 10.1063/5.0134271 external_id: arxiv: - '2211.04810' isi: - '000936943800002' pmid: - '36813705' intvolume: ' 158' isi: 1 issue: '7' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2211.04810 month: '02' oa: 1 oa_version: Preprint pmid: 1 publication: Journal of Chemical Physics publication_identifier: eissn: - 1089-7690 issn: - 0021-9606 publication_status: published publisher: American Institute of Physics quality_controlled: '1' scopus_import: '1' status: public title: Structure and elasticity of model disordered, polydisperse, and defect-free polymer networks type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 158 year: '2023' ... --- _id: '12738' abstract: - lang: eng text: We study turn-based stochastic zero-sum games with lexicographic preferences over objectives. Stochastic games are standard models in control, verification, and synthesis of stochastic reactive systems that exhibit both randomness as well as controllable and adversarial non-determinism. Lexicographic order allows one to consider multiple objectives with a strict preference order. To the best of our knowledge, stochastic games with lexicographic objectives have not been studied before. For a mixture of reachability and safety objectives, we show that deterministic lexicographically optimal strategies exist and memory is only required to remember the already satisfied and violated objectives. For a constant number of objectives, we show that the relevant decision problem is in NP∩coNP, matching the current known bound for single objectives; and in general the decision problem is PSPACE-hard and can be solved in NEXPTIME∩coNEXPTIME. We present an algorithm that computes the lexicographically optimal strategies via a reduction to the computation of optimal strategies in a sequence of single-objectives games. For omega-regular objectives, we restrict our analysis to one-player games, also known as Markov decision processes. We show that lexicographically optimal strategies exist and need either randomization or finite memory. We present an algorithm that solves the relevant decision problem in polynomial time. We have implemented our algorithms and report experimental results on various case studies. acknowledgement: Tobias Winkler and Joost-Pieter Katoen are supported by the DFG RTG 2236 UnRAVeL and the innovation programme under the Marie Skłodowska-Curie grant agreement No. 101008233 (Mission). Krishnendu Chatterjee is supported by the ERC CoG 863818 (ForM-SMArt) and the Vienna Science and Technology Fund (WWTF) Project ICT15-003. Maximilian Weininger is supported by the DFG projects 383882557 Statistical Unbounded Verification (SUV) and 427755713 Group-By Objectives in Probabilistic Verification (GOPro). Stefanie Mohr is supported by the DFG RTG 2428 CONVEY. Open Access funding enabled and organized by Projekt DEAL. article_processing_charge: No article_type: original author: - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X - first_name: Joost P full_name: Katoen, Joost P id: 4524F760-F248-11E8-B48F-1D18A9856A87 last_name: Katoen - first_name: Stefanie full_name: Mohr, Stefanie last_name: Mohr - first_name: Maximilian full_name: Weininger, Maximilian last_name: Weininger - first_name: Tobias full_name: Winkler, Tobias last_name: Winkler citation: ama: Chatterjee K, Katoen JP, Mohr S, Weininger M, Winkler T. Stochastic games with lexicographic objectives. Formal Methods in System Design. 2023. doi:10.1007/s10703-023-00411-4 apa: Chatterjee, K., Katoen, J. P., Mohr, S., Weininger, M., & Winkler, T. (2023). Stochastic games with lexicographic objectives. Formal Methods in System Design. Springer Nature. https://doi.org/10.1007/s10703-023-00411-4 chicago: Chatterjee, Krishnendu, Joost P Katoen, Stefanie Mohr, Maximilian Weininger, and Tobias Winkler. “Stochastic Games with Lexicographic Objectives.” Formal Methods in System Design. Springer Nature, 2023. https://doi.org/10.1007/s10703-023-00411-4. ieee: K. Chatterjee, J. P. Katoen, S. Mohr, M. Weininger, and T. Winkler, “Stochastic games with lexicographic objectives,” Formal Methods in System Design. Springer Nature, 2023. ista: Chatterjee K, Katoen JP, Mohr S, Weininger M, Winkler T. 2023. Stochastic games with lexicographic objectives. Formal Methods in System Design. mla: Chatterjee, Krishnendu, et al. “Stochastic Games with Lexicographic Objectives.” Formal Methods in System Design, Springer Nature, 2023, doi:10.1007/s10703-023-00411-4. short: K. Chatterjee, J.P. Katoen, S. Mohr, M. Weininger, T. Winkler, Formal Methods in System Design (2023). date_created: 2023-03-19T23:00:59Z date_published: 2023-03-08T00:00:00Z date_updated: 2023-10-03T11:36:13Z day: '08' ddc: - '000' department: - _id: KrCh doi: 10.1007/s10703-023-00411-4 ec_funded: 1 external_id: isi: - '000946174300001' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1007/s10703-023-00411-4 month: '03' oa: 1 oa_version: Published Version project: - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' - _id: 25892FC0-B435-11E9-9278-68D0E5697425 grant_number: ICT15-003 name: Efficient Algorithms for Computer Aided Verification publication: Formal Methods in System Design publication_identifier: eissn: - 1572-8102 publication_status: epub_ahead publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '8272' relation: earlier_version status: public scopus_import: '1' status: public title: Stochastic games with lexicographic objectives 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '14279' abstract: - lang: eng text: "The zip file includes source data used in the manuscript \"CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration\", as well as a representative Jupyter notebook to reproduce the main figures. Please see the preprint on bioRxiv and the DOI link there to access the final published version. Note the title change between the preprint and the published manuscript.\r\nA sample script for particle-based simulations of collective chemotaxis by self-generated gradients is also included (see Self-generated_chemotaxis_sample_script.ipynb) to generate exemplary cell trajectories. A detailed description of the simulation setup is provided in the supplementary information of the manuscipt." article_processing_charge: No author: - first_name: Mehmet C full_name: Ucar, Mehmet C id: 50B2A802-6007-11E9-A42B-EB23E6697425 last_name: Ucar orcid: 0000-0003-0506-4217 citation: ama: Ucar MC. Source data for the manuscript “CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration.” 2023. doi:10.5281/ZENODO.8133960 apa: Ucar, M. C. (2023). Source data for the manuscript “CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration.” Zenodo. https://doi.org/10.5281/ZENODO.8133960 chicago: Ucar, Mehmet C. “Source Data for the Manuscript ‘CCR7 Acts as Both a Sensor and a Sink for CCL19 to Coordinate Collective Leukocyte Migration.’” Zenodo, 2023. https://doi.org/10.5281/ZENODO.8133960. ieee: M. C. Ucar, “Source data for the manuscript ‘CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration.’” Zenodo, 2023. ista: Ucar MC. 2023. Source data for the manuscript ‘CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration’, Zenodo, 10.5281/ZENODO.8133960. mla: Ucar, Mehmet C. Source Data for the Manuscript “CCR7 Acts as Both a Sensor and a Sink for CCL19 to Coordinate Collective Leukocyte Migration.” Zenodo, 2023, doi:10.5281/ZENODO.8133960. short: M.C. Ucar, (2023). date_created: 2023-09-06T08:39:25Z date_published: 2023-07-11T00:00:00Z date_updated: 2023-10-03T11:42:58Z day: '11' ddc: - '570' department: - _id: EdHa doi: 10.5281/ZENODO.8133960 has_accepted_license: '1' main_file_link: - open_access: '1' url: https://doi.org/10.5281/zenodo.8133960 month: '07' oa: 1 oa_version: Published Version publisher: Zenodo related_material: record: - id: '14274' relation: used_in_publication status: public status: public title: Source data for the manuscript "CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration" 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_reference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2023' ... --- _id: '10405' abstract: - lang: eng text: 'We consider large non-Hermitian random matrices X with complex, independent, identically distributed centred entries and show that the linear statistics of their eigenvalues are asymptotically Gaussian for test functions having 2+ϵ derivatives. Previously this result was known only for a few special cases; either the test functions were required to be analytic [72], or the distribution of the matrix elements needed to be Gaussian [73], or at least match the Gaussian up to the first four moments [82, 56]. We find the exact dependence of the limiting variance on the fourth cumulant that was not known before. The proof relies on two novel ingredients: (i) a local law for a product of two resolvents of the Hermitisation of X with different spectral parameters and (ii) a coupling of several weakly dependent Dyson Brownian motions. These methods are also the key inputs for our analogous results on the linear eigenvalue statistics of real matrices X that are presented in the companion paper [32]. ' acknowledgement: L.E. would like to thank Nathanaël Berestycki and D.S.would like to thank Nina Holden for valuable discussions on the Gaussian freefield.G.C. and L.E. are partially supported by ERC Advanced Grant No. 338804.G.C. received funding from the European Union’s Horizon 2020 research and in-novation programme under the Marie Skłodowska-Curie Grant Agreement No.665385. D.S. is supported by Dr. Max Rössler, the Walter Haefner Foundation, and the ETH Zürich Foundation. article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Giorgio full_name: Cipolloni, Giorgio id: 42198EFA-F248-11E8-B48F-1D18A9856A87 last_name: Cipolloni orcid: 0000-0002-4901-7992 - first_name: László full_name: Erdös, László id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 - first_name: Dominik J full_name: Schröder, Dominik J id: 408ED176-F248-11E8-B48F-1D18A9856A87 last_name: Schröder orcid: 0000-0002-2904-1856 citation: ama: Cipolloni G, Erdös L, Schröder DJ. Central limit theorem for linear eigenvalue statistics of non-Hermitian random matrices. Communications on Pure and Applied Mathematics. 2023;76(5):946-1034. doi:10.1002/cpa.22028 apa: Cipolloni, G., Erdös, L., & Schröder, D. J. (2023). Central limit theorem for linear eigenvalue statistics of non-Hermitian random matrices. Communications on Pure and Applied Mathematics. Wiley. https://doi.org/10.1002/cpa.22028 chicago: Cipolloni, Giorgio, László Erdös, and Dominik J Schröder. “Central Limit Theorem for Linear Eigenvalue Statistics of Non-Hermitian Random Matrices.” Communications on Pure and Applied Mathematics. Wiley, 2023. https://doi.org/10.1002/cpa.22028. ieee: G. Cipolloni, L. Erdös, and D. J. Schröder, “Central limit theorem for linear eigenvalue statistics of non-Hermitian random matrices,” Communications on Pure and Applied Mathematics, vol. 76, no. 5. Wiley, pp. 946–1034, 2023. ista: Cipolloni G, Erdös L, Schröder DJ. 2023. Central limit theorem for linear eigenvalue statistics of non-Hermitian random matrices. Communications on Pure and Applied Mathematics. 76(5), 946–1034. mla: Cipolloni, Giorgio, et al. “Central Limit Theorem for Linear Eigenvalue Statistics of Non-Hermitian Random Matrices.” Communications on Pure and Applied Mathematics, vol. 76, no. 5, Wiley, 2023, pp. 946–1034, doi:10.1002/cpa.22028. short: G. Cipolloni, L. Erdös, D.J. Schröder, Communications on Pure and Applied Mathematics 76 (2023) 946–1034. date_created: 2021-12-05T23:01:41Z date_published: 2023-05-01T00:00:00Z date_updated: 2023-10-04T09:22:55Z day: '01' ddc: - '510' department: - _id: LaEr doi: 10.1002/cpa.22028 ec_funded: 1 external_id: arxiv: - '1912.04100' isi: - '000724652500001' file: - access_level: open_access checksum: 8346bc2642afb4ccb7f38979f41df5d9 content_type: application/pdf creator: dernst date_created: 2023-10-04T09:21:48Z date_updated: 2023-10-04T09:21:48Z file_id: '14388' file_name: 2023_CommPureMathematics_Cipolloni.pdf file_size: 803440 relation: main_file success: 1 file_date_updated: 2023-10-04T09:21:48Z has_accepted_license: '1' intvolume: ' 76' isi: 1 issue: '5' language: - iso: eng license: https://creativecommons.org/licenses/by-nc-nd/4.0/ month: '05' oa: 1 oa_version: Published Version page: 946-1034 project: - _id: 258DCDE6-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '338804' name: Random matrices, universality and disordered quantum systems - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program publication: Communications on Pure and Applied Mathematics publication_identifier: eissn: - 1097-0312 issn: - 0010-3640 publication_status: published publisher: Wiley quality_controlled: '1' scopus_import: '1' status: public title: Central limit theorem for linear eigenvalue statistics of non-Hermitian random matrices 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: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 76 year: '2023' ...