[{"title":"Auto splats: Dynamic point cloud visualization on the GPU","file_date_updated":"2020-07-14T12:45:35Z","author":[{"last_name":"Preiner","full_name":"Preiner, Reinhold","first_name":"Reinhold"},{"first_name":"Stefan","id":"44D6411A-F248-11E8-B48F-1D18A9856A87","last_name":"Jeschke","full_name":"Jeschke, Stefan"},{"full_name":"Wimmer, Michael","last_name":"Wimmer","first_name":"Michael"}],"publist_id":"4677","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","ddc":["000"],"extern":"1","date_updated":"2021-01-12T06:56:24Z","citation":{"chicago":"Preiner, Reinhold, Stefan Jeschke, and Michael Wimmer. “Auto Splats: Dynamic Point Cloud Visualization on the GPU,” 139–48. Eurographics Association, 2012. https://doi.org/10.2312/EGPGV/EGPGV12/139-148.","ista":"Preiner R, Jeschke S, Wimmer M. 2012. Auto splats: Dynamic point cloud visualization on the GPU. EGPGV: Eurographics Symposium on Parallel Graphics and Visualization, 139–148.","mla":"Preiner, Reinhold, et al. Auto Splats: Dynamic Point Cloud Visualization on the GPU. Eurographics Association, 2012, pp. 139–48, doi:10.2312/EGPGV/EGPGV12/139-148.","ama":"Preiner R, Jeschke S, Wimmer M. Auto splats: Dynamic point cloud visualization on the GPU. In: Eurographics Association; 2012:139-148. doi:10.2312/EGPGV/EGPGV12/139-148","apa":"Preiner, R., Jeschke, S., & Wimmer, M. (2012). Auto splats: Dynamic point cloud visualization on the GPU (pp. 139–148). Presented at the EGPGV: Eurographics Symposium on Parallel Graphics and Visualization, Calgari, Italy: Eurographics Association. https://doi.org/10.2312/EGPGV/EGPGV12/139-148","short":"R. Preiner, S. Jeschke, M. Wimmer, in:, Eurographics Association, 2012, pp. 139–148.","ieee":"R. Preiner, S. Jeschke, and M. Wimmer, “Auto splats: Dynamic point cloud visualization on the GPU,” presented at the EGPGV: Eurographics Symposium on Parallel Graphics and Visualization, Calgari, Italy, 2012, pp. 139–148."},"pubrep_id":"572","status":"public","conference":{"name":"EGPGV: Eurographics Symposium on Parallel Graphics and Visualization","location":"Calgari, Italy","end_date":"2012-05-14","start_date":"2012-05-13"},"type":"conference","_id":"2267","date_created":"2018-12-11T11:56:40Z","date_published":"2012-05-13T00:00:00Z","doi":"10.2312/EGPGV/EGPGV12/139-148","page":"139 - 148","language":[{"iso":"eng"}],"file":[{"content_type":"application/pdf","access_level":"open_access","relation":"main_file","checksum":"5495bb6ee8662cd401b34afb04dfb40f","file_id":"4866","date_updated":"2020-07-14T12:45:35Z","file_size":14903860,"creator":"system","date_created":"2018-12-12T10:11:13Z","file_name":"IST-2016-572-v1+1_preiner_2012_AS-draft.pdf"}],"day":"13","year":"2012","publication_status":"published","has_accepted_license":"1","month":"05","oa":1,"quality_controlled":"1","publisher":"Eurographics Association","oa_version":"Submitted Version","abstract":[{"lang":"eng","text":"Capturing real-world objects with laser-scanning technology has become an everyday task. Recently, the acquisition of dynamic scenes at interactive frame rates has become feasible. A high-quality visualization of the resulting point cloud stream would require a per-frame reconstruction of object surfaces. Unfortunately, reconstruction computations are still too time-consuming to be applied interactively. In this paper we present a local surface reconstruction and visualization technique that provides interactive feedback for reasonably sized point clouds, while achieving high image quality. Our method is performed entirely on the GPU and in screen pace, exploiting the efficiency of the common rasterization pipeline. The approach is very general, as no assumption is made about point connectivity or sampling density. This naturally allows combining the outputs of multiple scanners in a single visualization, which is useful for many virtual and augmented reality applications. "}]},{"author":[{"last_name":"Tasic","full_name":"Tasic, Bosiljka","first_name":"Bosiljka"},{"first_name":"Kazunari","last_name":"Miyamichi","full_name":"Miyamichi, Kazunari"},{"first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","full_name":"Simon Hippenmeyer","orcid":"0000-0003-2279-1061"},{"full_name":"Dani, Vardhan S.","last_name":"Dani","first_name":"Vardhan"},{"last_name":"Zeng","full_name":"Zeng, H.","first_name":"H."},{"last_name":"Joo","full_name":"Joo, William","first_name":"William"},{"first_name":"Hui","full_name":"Zong, Hui","last_name":"Zong"},{"first_name":"Yanru","full_name":"Chen-Tsai, Yanru","last_name":"Chen Tsai"},{"last_name":"Luo","full_name":"Luo, Liqun","first_name":"Liqun"}],"publist_id":"4683","title":"Extensions of MADM (Mosaic Analysis with Double Markers) in Mice ","date_updated":"2021-01-12T06:56:22Z","citation":{"short":"B. Tasic, K. Miyamichi, S. Hippenmeyer, V. Dani, H. Zeng, W. Joo, H. Zong, Y. Chen Tsai, L. Luo, PLoS One 7 (2012).","ieee":"B. Tasic et al., “Extensions of MADM (Mosaic Analysis with Double Markers) in Mice ,” PLoS One, vol. 7, no. 3. Public Library of Science, 2012.","apa":"Tasic, B., Miyamichi, K., Hippenmeyer, S., Dani, V., Zeng, H., Joo, W., … Luo, L. (2012). Extensions of MADM (Mosaic Analysis with Double Markers) in Mice . PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0033332","ama":"Tasic B, Miyamichi K, Hippenmeyer S, et al. Extensions of MADM (Mosaic Analysis with Double Markers) in Mice . PLoS One. 2012;7(3). doi:10.1371/journal.pone.0033332","mla":"Tasic, Bosiljka, et al. “Extensions of MADM (Mosaic Analysis with Double Markers) in Mice .” PLoS One, vol. 7, no. 3, Public Library of Science, 2012, doi:10.1371/journal.pone.0033332.","ista":"Tasic B, Miyamichi K, Hippenmeyer S, Dani V, Zeng H, Joo W, Zong H, Chen Tsai Y, Luo L. 2012. Extensions of MADM (Mosaic Analysis with Double Markers) in Mice . PLoS One. 7(3).","chicago":"Tasic, Bosiljka, Kazunari Miyamichi, Simon Hippenmeyer, Vardhan Dani, H. Zeng, William Joo, Hui Zong, Yanru Chen Tsai, and Liqun Luo. “Extensions of MADM (Mosaic Analysis with Double Markers) in Mice .” PLoS One. Public Library of Science, 2012. https://doi.org/10.1371/journal.pone.0033332."},"extern":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","status":"public","_id":"2262","license":"https://creativecommons.org/licenses/by/4.0/","date_created":"2018-12-11T11:56:38Z","doi":"10.1371/journal.pone.0033332","volume":7,"issue":"3","date_published":"2012-03-27T00:00:00Z","year":"2012","publication_status":"published","publication":"PLoS One","day":"27","quality_controlled":0,"publisher":"Public Library of Science","intvolume":" 7","month":"03","abstract":[{"text":"Mosaic Analysis with Double Markers (MADM) is a method for generating genetically mosaic mice, in which sibling mutant and wild-type cells are labeled with different fluorescent markers. It is a powerful tool that enables analysis of gene function at the single cell level in vivo. It requires transgenic cassettes to be located between the centromere and the mutation in the gene of interest on the same chromosome. Here we compare procedures for introduction of MADM cassettes into new loci in the mouse genome, and describe new approaches for expanding the utility of MADM. We show that: 1) Targeted homologous recombination outperforms random transgenesis in generation of reliably expressed MADM cassettes, 2) MADM cassettes in new genomic loci need to be validated for biallelic and ubiquitous expression, 3) Recombination between MADM cassettes on different chromosomes can be used to study reciprocal chromosomal deletions/duplications, and 4) MADM can be modified to permit transgene expression by combining it with a binary expression system. The advances described in this study expand current, and enable new and more versatile applications of MADM.","lang":"eng"}],"acknowledgement":"This work was supported by a National Institutes of Health grant to LL (R01-NS050835). BT was a Damon Runyon Fellow and was supported by the Damon Runyon Cancer Research Foundation Grant DRG-1819-04. KM was supported by the Japan Society for the Promotion of Science program for Research Abroad and Human Frontier Science Program Organization (LT00300/2007-L). SH was supported by postdoctoral fellowships from the European Molecular Biology Organization (ALTF 851-2005), Human Frontier Science Program Organization (LT00805/2006-L), and Swiss National Science Foundation (PA00P3_124160 and PA00P3_136482). HZ is a Pew Scholar in Biomedical Sciences, supported by The Pew Charitable Trusts. LL is an investigator of the Howard Hughes Medical Institute. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript."},{"author":[{"first_name":"Thomas","id":"4718F954-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1546-3265","full_name":"Thomas Auzinger","last_name":"Auzinger"},{"first_name":"Michael","last_name":"Guthe","full_name":"Guthe, Michael"},{"full_name":"Stefan Jeschke","last_name":"Jeschke","id":"44D6411A-F248-11E8-B48F-1D18A9856A87","first_name":"Stefan"}],"publist_id":"4676","title":"Analytic anti-aliasing of linear functions on polytopes","date_updated":"2021-01-12T06:56:24Z","citation":{"ista":"Auzinger T, Guthe M, Jeschke S. 2012. Analytic anti-aliasing of linear functions on polytopes. EUROGRAPHICS: European Association for Computer Graphics, Computer Graphics Forum, vol. 31, 335–344.","chicago":"Auzinger, Thomas, Michael Guthe, and Stefan Jeschke. “Analytic Anti-Aliasing of Linear Functions on Polytopes,” 31:335–44. Wiley-Blackwell, 2012. http://dx.doi.org/10.1111/j.1467-8659.2012.03012.x.","ama":"Auzinger T, Guthe M, Jeschke S. Analytic anti-aliasing of linear functions on polytopes. In: Vol 31. Wiley-Blackwell; 2012:335-344. doi:http://dx.doi.org/10.1111/j.1467-8659.2012.03012.x","apa":"Auzinger, T., Guthe, M., & Jeschke, S. (2012). Analytic anti-aliasing of linear functions on polytopes (Vol. 31, pp. 335–344). Presented at the EUROGRAPHICS: European Association for Computer Graphics, Wiley-Blackwell. http://dx.doi.org/10.1111/j.1467-8659.2012.03012.x","ieee":"T. Auzinger, M. Guthe, and S. Jeschke, “Analytic anti-aliasing of linear functions on polytopes,” presented at the EUROGRAPHICS: European Association for Computer Graphics, 2012, vol. 31, no. 121, pp. 335–344.","short":"T. Auzinger, M. Guthe, S. Jeschke, in:, Wiley-Blackwell, 2012, pp. 335–344.","mla":"Auzinger, Thomas, et al. Analytic Anti-Aliasing of Linear Functions on Polytopes. Vol. 31, no. 121, Wiley-Blackwell, 2012, pp. 335–44, doi:http://dx.doi.org/10.1111/j.1467-8659.2012.03012.x."},"extern":1,"conference":{"name":"EUROGRAPHICS: European Association for Computer Graphics"},"type":"conference","status":"public","_id":"2268","page":"335 - 344","date_created":"2018-12-11T11:56:40Z","volume":31,"doi":"http://dx.doi.org/10.1111/j.1467-8659.2012.03012.x","date_published":"2012-05-13T00:00:00Z","issue":121,"publication_status":"published","year":"2012","day":"13","oa":1,"main_file_link":[{"open_access":"1","url":"https://www.cg.tuwien.ac.at/research/publications/2012/Auzinger_2012_AAA/"}],"publisher":"Wiley-Blackwell","quality_controlled":0,"alternative_title":["Computer Graphics Forum"],"intvolume":" 31","month":"05","abstract":[{"text":"This paper presents an analytic formulation for anti-aliased sampling of 2D polygons and 3D polyhedra. Our framework allows the exact evaluation of the convolution integral with a linear function defined on the polytopes. The filter is a spherically symmetric polynomial of any order, supporting approximations to refined variants such as the Mitchell-Netravali filter family. This enables high-quality rasterization of triangles and tetrahedra with linearly interpolated vertex values to regular and non-regular grids. A closed form solution of the convolution is presented and an efficient implementation on the GPU using DirectX and CUDA C is described. ","lang":"eng"}],"acknowledgement":"Funding was provided by the FWF grant P20768-N13.\nWe want to thank the reviewers for their insightful and helpful remarks, Hang Si for making available TetGen and Stefan Bruckner for VolumeShop."},{"scopus_import":1,"month":"07","intvolume":" 10","abstract":[{"lang":"eng","text":"We introduce propagation models (PMs), a formalism able to express several kinds of equations that describe the behavior of biochemical reaction networks. Furthermore, we introduce the propagation abstract data type (PADT), which separates concerns regarding different numerical algorithms for the transient analysis of biochemical reaction networks from concerns regarding their implementation, thus allowing for portable and efficient solutions. The state of a propagation abstract data type is given by a vector that assigns mass values to a set of nodes, and its (next) operator propagates mass values through this set of nodes. We propose an approximate implementation of the (next) operator, based on threshold abstraction, which propagates only "significant" mass values and thus achieves a compromise between efficiency and accuracy. Finally, we give three use cases for propagation models: the chemical master equation (CME), the reaction rate equation (RRE), and a hybrid method that combines these two equations. These three applications use propagation models in order to propagate probabilities and/or expected values and variances of the model's variables."}],"oa_version":"None","pmid":1,"volume":10,"issue":"2","ec_funded":1,"publication_status":"published","language":[{"iso":"eng"}],"type":"journal_article","status":"public","_id":"2302","department":[{"_id":"ToHe"},{"_id":"CaGu"}],"date_updated":"2021-01-12T06:56:38Z","quality_controlled":"1","publisher":"IEEE","page":"310 - 322","date_published":"2012-07-03T00:00:00Z","doi":"10.1109/TCBB.2012.91","date_created":"2018-12-11T11:56:52Z","year":"2012","day":"03","publication":"IEEE ACM Transactions on Computational Biology and Bioinformatics","project":[{"grant_number":"267989","name":"Quantitative Reactive Modeling","call_identifier":"FP7","_id":"25EE3708-B435-11E9-9278-68D0E5697425"}],"author":[{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","orcid":"0000−0002−2985−7724","full_name":"Henzinger, Thomas A","last_name":"Henzinger"},{"id":"3B43276C-F248-11E8-B48F-1D18A9856A87","first_name":"Maria","last_name":"Mateescu","full_name":"Mateescu, Maria"}],"publist_id":"4625","external_id":{"pmid":["22778152"]},"title":"The propagation approach for computing biochemical reaction networks","citation":{"chicago":"Henzinger, Thomas A, and Maria Mateescu. “The Propagation Approach for Computing Biochemical Reaction Networks.” IEEE ACM Transactions on Computational Biology and Bioinformatics. IEEE, 2012. https://doi.org/10.1109/TCBB.2012.91.","ista":"Henzinger TA, Mateescu M. 2012. The propagation approach for computing biochemical reaction networks. IEEE ACM Transactions on Computational Biology and Bioinformatics. 10(2), 310–322.","mla":"Henzinger, Thomas A., and Maria Mateescu. “The Propagation Approach for Computing Biochemical Reaction Networks.” IEEE ACM Transactions on Computational Biology and Bioinformatics, vol. 10, no. 2, IEEE, 2012, pp. 310–22, doi:10.1109/TCBB.2012.91.","ieee":"T. A. Henzinger and M. Mateescu, “The propagation approach for computing biochemical reaction networks,” IEEE ACM Transactions on Computational Biology and Bioinformatics, vol. 10, no. 2. IEEE, pp. 310–322, 2012.","short":"T.A. Henzinger, M. Mateescu, IEEE ACM Transactions on Computational Biology and Bioinformatics 10 (2012) 310–322.","apa":"Henzinger, T. A., & Mateescu, M. (2012). The propagation approach for computing biochemical reaction networks. IEEE ACM Transactions on Computational Biology and Bioinformatics. IEEE. https://doi.org/10.1109/TCBB.2012.91","ama":"Henzinger TA, Mateescu M. The propagation approach for computing biochemical reaction networks. IEEE ACM Transactions on Computational Biology and Bioinformatics. 2012;10(2):310-322. doi:10.1109/TCBB.2012.91"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"abstract":[{"text":"The translation of "next-generation" sequencing directly to the clinic is still being assessed but has the potential for genetic diseases to reduce costs, advance accuracy, and point to unsuspected yet treatable conditions. To study its capability in the clinic, we performed whole-exome sequencing in 118 probands with a diagnosis of a pediatric-onset neurodevelopmental disease in which most known causes had been excluded. Twenty-two genes not previously identified as disease-causing were identified in this study (19% of cohort), further establishing exome sequencing as a useful tool for gene discovery. New genes identified included EXOC8 in Joubert syndrome and GFM2 in a patient with microcephaly, simplified gyral pattern, and insulin-dependent diabetes. Exome sequencing uncovered 10 probands (8% of cohort) with mutations in genes known to cause a disease different from the initial diagnosis. Upon further medical evaluation, these mutations were found to account for each proband's disease, leading to a change in diagnosis, some of which led to changes in patient management. Our data provide proof of principle that genomic strategies are useful in clarifying diagnosis in a proportion of patients with neurodevelopmental disorders.","lang":"eng"}],"intvolume":" 4","month":"06","quality_controlled":0,"publisher":"American Association for the Advancement of Science","publication":"Science Translational Medicine","day":"13","publication_status":"published","year":"2012","date_created":"2018-12-11T11:56:56Z","doi":"10.1126/scitranslmed.3003544","issue":"138","date_published":"2012-06-13T00:00:00Z","volume":4,"_id":"2313","status":"public","type":"journal_article","extern":1,"citation":{"mla":"Dixon Salazar, Tracy, et al. “Exome Sequencing Can Improve Diagnosis and Alter Patient Management.” Science Translational Medicine, vol. 4, no. 138, American Association for the Advancement of Science, 2012, doi:10.1126/scitranslmed.3003544.","apa":"Dixon Salazar, T., Silhavy, J., Udpa, N., Schroth, J., Bielas, S., Schaffer, A., … Gleeson, J. (2012). Exome sequencing can improve diagnosis and alter patient management. Science Translational Medicine. American Association for the Advancement of Science. https://doi.org/10.1126/scitranslmed.3003544","ama":"Dixon Salazar T, Silhavy J, Udpa N, et al. Exome sequencing can improve diagnosis and alter patient management. Science Translational Medicine. 2012;4(138). doi:10.1126/scitranslmed.3003544","ieee":"T. Dixon Salazar et al., “Exome sequencing can improve diagnosis and alter patient management,” Science Translational Medicine, vol. 4, no. 138. American Association for the Advancement of Science, 2012.","short":"T. Dixon Salazar, J. Silhavy, N. Udpa, J. Schroth, S. Bielas, A. Schaffer, J. Olvera, V. Bafna, M. Zaki, G. Abdel Salam, L. Mansour, L. Selim, S. Abdel Hadi, N. Marzouki, T. Ben Omran, N. Al Saana, F. Sönmez, F. Celep, M. Azam, K. Hill, A. Collazo, A. Fenstermaker, G. Novarino, N. Akizu, K. Garimella, C. Sougnez, C. Russ, S. Gabriel, J. Gleeson, Science Translational Medicine 4 (2012).","chicago":"Dixon Salazar, Tracy, Jennifer Silhavy, Nitin Udpa, Jana Schroth, Stephanie Bielas, Ashleigh Schaffer, Jesus Olvera, et al. “Exome Sequencing Can Improve Diagnosis and Alter Patient Management.” Science Translational Medicine. American Association for the Advancement of Science, 2012. https://doi.org/10.1126/scitranslmed.3003544.","ista":"Dixon Salazar T, Silhavy J, Udpa N, Schroth J, Bielas S, Schaffer A, Olvera J, Bafna V, Zaki M, Abdel Salam G, Mansour L, Selim L, Abdel Hadi S, Marzouki N, Ben Omran T, Al Saana N, Sönmez F, Celep F, Azam M, Hill K, Collazo A, Fenstermaker A, Novarino G, Akizu N, Garimella K, Sougnez C, Russ C, Gabriel S, Gleeson J. 2012. Exome sequencing can improve diagnosis and alter patient management. Science Translational Medicine. 4(138)."},"date_updated":"2021-01-12T06:56:43Z","title":"Exome sequencing can improve diagnosis and alter patient management","author":[{"full_name":"Dixon-Salazar, Tracy J","last_name":"Dixon Salazar","first_name":"Tracy"},{"first_name":"Jennifer","full_name":"Silhavy, Jennifer L","last_name":"Silhavy"},{"first_name":"Nitin","last_name":"Udpa","full_name":"Udpa, Nitin"},{"first_name":"Jana","last_name":"Schroth","full_name":"Schroth, Jana"},{"first_name":"Stephanie","last_name":"Bielas","full_name":"Bielas, Stephanie L"},{"first_name":"Ashleigh","last_name":"Schaffer","full_name":"Schaffer, Ashleigh E"},{"first_name":"Jesus","last_name":"Olvera","full_name":"Olvera, Jesus"},{"full_name":"Bafna, Vineet K","last_name":"Bafna","first_name":"Vineet"},{"full_name":"Zaki, Maha S","last_name":"Zaki","first_name":"Maha"},{"last_name":"Abdel Salam","full_name":"Abdel-Salam, Ghada M","first_name":"Ghada"},{"first_name":"Lobna","last_name":"Mansour","full_name":"Mansour, Lobna A"},{"first_name":"Laila","last_name":"Selim","full_name":"Selim, Laila A"},{"first_name":"Sawsan","last_name":"Abdel Hadi","full_name":"Abdel-Hadi, Sawsan S"},{"full_name":"Marzouki, Naima","last_name":"Marzouki","first_name":"Naima"},{"last_name":"Ben Omran","full_name":"Ben-Omran, Tawfeg I","first_name":"Tawfeg"},{"first_name":"Nouriya","last_name":"Al Saana","full_name":"Al-Saana, Nouriya A"},{"first_name":"Fatma","full_name":"Sönmez, Fatma M","last_name":"Sönmez"},{"first_name":"Figen","full_name":"Celep, Figen","last_name":"Celep"},{"last_name":"Azam","full_name":"Azam, Matloob","first_name":"Matloob"},{"last_name":"Hill","full_name":"Hill, Kiley J","first_name":"Kiley"},{"last_name":"Collazo","full_name":"Collazo, Adrienne","first_name":"Adrienne"},{"last_name":"Fenstermaker","full_name":"Fenstermaker, Ali G","first_name":"Ali"},{"last_name":"Novarino","full_name":"Gaia Novarino","orcid":"0000-0002-7673-7178","first_name":"Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Naiara","last_name":"Akizu","full_name":"Akizu, Naiara"},{"first_name":"Kiran","last_name":"Garimella","full_name":"Garimella, Kiran V"},{"first_name":"Carrie","full_name":"Sougnez, Carrie L","last_name":"Sougnez"},{"full_name":"Russ, Carsten","last_name":"Russ","first_name":"Carsten"},{"first_name":"Stacey","full_name":"Gabriel, Stacey B","last_name":"Gabriel"},{"first_name":"Joseph","last_name":"Gleeson","full_name":"Gleeson, Joseph G"}],"publist_id":"4614"}]