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2020 – today
- 2024
[c14]Romain Lopez, Jan-Christian Hütter, Ehsan Hajiramezanali, Jonathan K. Pritchard, Aviv Regev:
Toward the Identifiability of Comparative Deep Generative Models. CLeaR 2024: 868-912- [c13]Kexin Huang, Romain Lopez, Jan-Christian Hütter, Takamasa Kudo, Antonio Rios, Aviv Regev:
Sequential Optimal Experimental Design of Perturbation Screens Guided by Multi-modal Priors. RECOMB 2024: 17-37 - [i8]Romain Lopez, Jan-Christian Hütter, Ehsan Hajiramezanali, Jonathan K. Pritchard, Aviv Regev:
Toward the Identifiability of Comparative Deep Generative Models. CoRR abs/2401.15903 (2024) - [i7]Xiner Li, Yulai Zhao, Chenyu Wang, Gabriele Scalia, Gökcen Eraslan, Surag Nair, Tommaso Biancalani, Aviv Regev, Sergey Levine, Masatoshi Uehara:
Derivative-Free Guidance in Continuous and Discrete Diffusion Models with Soft Value-Based Decoding. CoRR abs/2408.08252 (2024) - [i6]Charlotte Bunne, Yusuf Roohani, Yanay Rosen, Ankit Gupta, Xikun Zhang, Marcel Roed, Theo Alexandrov, Mohammed AlQuraishi, Patricia Brennan, Daniel B. Burkhardt, Andrea Califano, Jonah Cool, Abby F. Dernburg, Kirsty Ewing, Emily B. Fox, Matthias Haury, Amy E. Herr, Eric Horvitz, Patrick D. Hsu, Viren Jain, Gregory R. Johnson, Thomas Kalil, David R. Kelley, Shana O. Kelley, Anna Kreshuk, Tim Mitchison, Stephani Otte, Jay Shendure, Nicolas J. Sofroniew, Fabian J. Theis, Christina V. Theodoris, Srigokul Upadhyayula, Marc Valer, Bo Wang, Eric Xing, Serena Yeung-Levy, Marinka Zitnik, Theofanis Karaletsos, Aviv Regev, Emma Lundberg, Jure Leskovec, Stephen R. Quake:
How to Build the Virtual Cell with Artificial Intelligence: Priorities and Opportunities. CoRR abs/2409.11654 (2024) - 2023
- [c12]Romain Lopez, Natasa Tagasovska, Stephen Ra, Kyunghyun Cho, Jonathan K. Pritchard, Aviv Regev:
Learning Causal Representations of Single Cells via Sparse Mechanism Shift Modeling. CLeaR 2023: 662-691 - [c11]Xinming Tu, Jan-Christian Hütter, Zitong Jerry Wang, Takamasa Kudo, Aviv Regev, Romain Lopez:
A Supervised Contrastive Framework for Learning Disentangled Representations of Cellular Perturbation Data. MLCB 2023: 90-100 - 2022
- [c10]Ethan Weinberger, Romain Lopez, Jan-Christian Hütter, Aviv Regev:
Disentangling shared and group-specific variations in single-cell transcriptomics data with multiGroupVI. MLCB 2022: 16-32 - [c9]Romain Lopez, Jan-Christian Hütter, Jonathan K. Pritchard, Aviv Regev:
Large-Scale Differentiable Causal Discovery of Factor Graphs. NeurIPS 2022 - [i5]Romain Lopez, Jan-Christian Hütter, Jonathan K. Pritchard, Aviv Regev:
Large-Scale Differentiable Causal Discovery of Factor Graphs. CoRR abs/2206.07824 (2022) - [i4]Romain Lopez, Natasa Tagasovska, Stephen Ra, Kyunghyun Cho, Jonathan K. Pritchard, Aviv Regev:
Learning Causal Representations of Single Cells via Sparse Mechanism Shift Modeling. CoRR abs/2211.03553 (2022) - 2021
- [c8]Aviv Regev, Jonatan Ostrometzky, Hagit Messer:
Inherent Limitations of Parameter Estimation of a Tempo-Spatial Field Using an Array of Heterogeneous Sensors. EUSIPCO 2021: 2010-2014 - [i3]Weiqi Ji, Bo Yuan, Ciyue Shen, Aviv Regev, Chris Sander, Sili Deng:
Inference of cell dynamics on perturbation data using adjoint sensitivity. CoRR abs/2104.06467 (2021)
2010 – 2019
- 2019
- [j12]Volker Hovestadt, Kyle S. Smith, Laure Bihannic, Mariella G. Filbin, McKenzie L. Shaw, Alicia Baumgartner, John C. DeWitt, Andrew Groves
, Lisa Mayr, Hannah R. Weisman, Alyssa R. Richman, Marni E. Shore, Liliana Goumnerova, Celeste Rosencrance, Robert A. Carter, Timothy N. Phoenix, Jennifer L. Hadley, Yiai Tong, Jim Houston, Richard A. Ashmun, Michael DeCuypere, Tanvi Sharma, Diane Flasch, Antonina Silkov, Keith L. Ligon, Scott L. Pomeroy, Miguel N. Rivera, Orit Rozenblatt-Rosen, Jessica M. Rusert, Robert J. Wechsler-Reya, Xiao-Nan Li, Andreas Peyrl, Johannes Gojo, Dominik Kirchhofer, Daniela Lötsch, Thomas Czech, Christian Dorfer, Christine Haberler, Rene Geyeregger, Angela Halfmann, Charles Gawad, John Easton, Stefan M. Pfister, Aviv Regev, Amar Gajjar, Brent A. Orr, Irene Slavc, Giles W. Robinson, Bradley E. Bernstein, Mario L. Suvà, Paul A. Northcott:
Resolving medulloblastoma cellular architecture by single-cell genomics. Nat. 572(7767): 74-79 (2019) - [j11]Michael P. Snyder, Shin Lin, Amanda Posgai, Mark Atkinson, Aviv Regev, Jennifer Rood, Orit Rozenblatt-Rosen, Leslie Gaffney, Anna Hupalowska, Rahul Satija, Nils Gehlenborg, Jay Shendure, Julia Laskin, Pehr Harbury, Nicholas A. Nystrom, Jonathan C. Silverstein, Ziv Bar-Joseph, Kun Zhang, Katy Börner, Yiing Lin, Richard Conroy, Dena Procaccini, Ananda L. Roy, Ajay Pillai, Marishka Brown, Zorina S. Galis, Long Cai, Cole Trapnell, Dana Jackson, Garry P. Nolan, William James Greenleaf, Sylvia K. Plevritis, Sara Ahadi, Stephanie A. Nevins, Hayan Lee, Christian Martijn Schuerch, Sarah Black, Vishal Gautham Venkataraaman, Ed Esplin, Aaron Horning, Amir Bahmani, Xin Sun, Sanjay Jain, James S. Hagood, Gloria Pryhuber, Peter V. Kharchenko, Bernd Bodenmiller, Todd Brusko, Michael Clare-Salzler, Harry Nick, Kevin Otto, Clive Wasserfall, Marda Jorgensen, Maigan Brusko, Sergio Maffioletti, Richard M. Caprioli, Jeffrey M. Spraggins, Danielle Gutierrez, Nathan Heath Patterson, Elizabeth K. Neumann, Raymond Harris, Mark P. de Caestecker, Agnes B. Fogo, Raf Van de Plas, Ken Lau, Guo-Cheng Yuan, Qian Zhu, Ruben Dries, Peng Yin, Sinem K. Saka, Jocelyn Y. Kishi, Yu Wang, Isabel Goldaracena, Dong Hye Ye, Kristin E. Burnum-Johnson, Paul D. Piehowski, Charles Ansong, Ying Zhu, Tushar Desai, Jay Mulye, Peter Chou, Monica Nagendran, Sarah A. Teichmann, Benedict Paten, Robert F. Murphy, Jian Ma, Vladimir Yu. Kiselev, Carl Kingsford, Allyson Ricarte, Maria Keays, Sushma Anand Akoju, Matthew Ruffalo, Margaret Vella, Chuck McCallum, Leonard E. Cross, Samuel H. Friedman, Randy W. Heiland, Bruce William Herr II, Paul Macklin, Ellen M. Quardokus, Lisel Record, James P. Sluka, Griffin M. Weber, Philip D. Blood, Alexander Ropelewski, William Shirey, Robin M. Scibek, Paula M. Mabee, W. Christopher Lenhardt, Kimberly Robasky, Stavros Michailidis, John C. Marioni, Andrew Butler, Tim Stuart, Eyal Fisher, Shila Ghazanfar, Gökcen Eraslan, Tommaso Biancalani, Eeshit D. Vaishnav, Pothur Srinivas, Aaron Pawlyk, Salvatore Sechi, Elizabeth L. Wilder, James Anderson:
The human body at cellular resolution: the NIH Human Biomolecular Atlas Program. Nat. 574(7777): 187-192 (2019) - [j10]Dorin-Mirel Popescu, Rachel A. Botting, Emily Stephenson, Kile Green, Simone Webb, Laura Jardine, Emily F. Calderbank, Krzysztof Polanski, Issac Goh, Mirjana Efremova, Meghan Acres, Daniel Maunder, Peter Vegh, Yorick Gitton, Jong-Eun Park, Roser Vento-Tormo, Zhichao Miao, David Dixon, Rachel Rowell, David McDonald, James Fletcher, Elizabeth Poyner, Gary Reynolds, Michael Mather, Corina Moldovan, Lira Mamanova, Frankie Greig, Matthew D. Young, Kerstin B. Meyer, Steven Lisgo, Jaume Bacardit, Andrew Fuller, Ben Millar, Barbara Innes, Susan Lindsay, Michael J. T. Stubbington, Monika S. Kowalczyk, Bo Li, Orr Ashenberg, Marcin Tabaka, Danielle Dionne, Timothy L. Tickle, Michal Slyper, Orit Rozenblatt-Rosen, Andrew Filby, Peter Carey, Alexandra-Chloé Villani, Anindita Roy, Aviv Regev, Alain Chédotal, Irene Roberts, Berthold Göttgens, Sam Behjati, Elisa Laurenti, Sarah A. Teichmann, Muzlifah Haniffa:
Decoding human fetal liver haematopoiesis. Nat. 574(7778): 365-371 (2019) - 2018
- [j9]Carl G. de Boer, Aviv Regev:
BROCKMAN: deciphering variance in epigenomic regulators by k-mer factorization. BMC Bioinform. 19(1): 253:1-253:13 (2018) - [j8]Daniel T. Montoro, Adam L. Haber, Moshe Biton, Vladimir Vinarsky, Brian Lin, Susan E. Birket, Feng Yuan, Sijia Chen, Hui Min Leung, Jorge Villoria, Noga Rogel, Grace Burgin, Alexander M. Tsankov, Avinash Waghray, Michal Slyper, Julia Waldman, Lan Nguyen, Danielle Dionne, Orit Rozenblatt-Rosen, Purushothama Rao Tata, Hongmei Mou, Manjunatha Shivaraju, Hermann Bihler, Martin Mense, Guillermo J. Tearney, Steven M. Rowe, John F. Engelhardt, Aviv Regev, Jayaraj Rajagopal:
A revised airway epithelial hierarchy includes CFTR-expressing ionocytes. Nat. 560(7718): 319-324 (2018) - [i2]Miriam Shiffman, William T. Stephenson, Geoffrey Schiebinger, Jonathan H. Huggins, Trevor Campbell, Aviv Regev, Tamara Broderick:
Reconstructing probabilistic trees of cellular differentiation from single-cell RNA-seq data. CoRR abs/1811.11790 (2018) - 2017
- [j7]Adam L. Haber, Moshe Biton, Noga Rogel, Rebecca H. Herbst, Karthik Shekhar, Christopher Smillie, Grace Burgin, Toni M. Delorey, Michael R. Howitt, Yarden Katz, Itay Tirosh, Semir Beyaz, Danielle Dionne, Mei Zhang, Raktima Raychowdhury, Wendy S. Garrett, Orit Rozenblatt-Rosen, Hai Ning Shi, Omer Yilmaz, Ramnik J. Xavier, Aviv Regev:
A single-cell survey of the small intestinal epithelium. Nat. 551(7680): 333-339 (2017) - 2012
- [i1]Eran Segal, Dana Pe'er, Aviv Regev, Daphne Koller, Nir Friedman:
Learning Module Networks. CoRR abs/1212.2517 (2012) - 2011
- [j6]Noa Novershtern, Aviv Regev, Nir Friedman:
Physical Module Networks: an integrative approach for reconstructing transcription regulation. Bioinform. 27(13): 177-185 (2011) - [c7]Leonid Chindelevitch, Aviv Regev, Bonnie Berger:
Metabolic Network Analysis Demystified. RECOMB 2011: 31-33
2000 – 2009
- 2009
- [j5]Iftach Nachman, Aviv Regev:
BRNI: Modular analysis of transcriptional regulatory programs. BMC Bioinform. 10 (2009) - 2007
- [c6]Ilan Wapinski, Avi Pfeffer, Nir Friedman, Aviv Regev:
Automatic genome-wide reconstruction of phylogenetic gene trees. ISMB/ECCB (Supplement of Bioinformatics) 2007: 549-558 - 2006
- [j4]Dana Pe'er, Amos Tanay, Aviv Regev:
MinReg: A Scalable Algorithm for Learning Parsimonious Regulatory Networks in Yeast and Mammals. J. Mach. Learn. Res. 7: 167-189 (2006) - 2005
- [j3]Eran Segal, Dana Pe'er, Aviv Regev, Daphne Koller, Nir Friedman:
Learning Module Networks. J. Mach. Learn. Res. 6: 557-588 (2005) - 2004
- [j2]Aviv Regev, Ekaterina M. Panina, William Silverman, Luca Cardelli, Ehud Shapiro:
BioAmbients: an abstraction for biological compartments. Theor. Comput. Sci. 325(1): 141-167 (2004) - [c5]Iftach Nachman, Aviv Regev, Nir Friedman:
Inferring quantitative models of regulatory networks from expression data. ISMB/ECCB (Supplement of Bioinformatics) 2004: 248-256 - 2003
- [c4]Eran Segal, Dana Pe'er, Aviv Regev, Daphne Koller, Nir Friedman:
Learning Module Networks. UAI 2003: 525-534 - 2002
- [c3]Dana Pe'er, Aviv Regev, Amos Tanay:
Minreg: Inferring an active regulator set. ISMB 2002: 258-267 - 2001
- [j1]Corrado Priami, Aviv Regev, Ehud Shapiro, William Silverman:
Application of a stochastic name-passing calculus to representation and simulation of molecular processes. Inf. Process. Lett. 80(1): 25-31 (2001) - [c2]Dana Pe'er, Aviv Regev, Gal Elidan, Nir Friedman:
Inferring subnetworks from perturbed expression profiles. ISMB (Supplement of Bioinformatics) 2001: 215-224 - [c1]Aviv Regev, William Silverman, Ehud Shapiro:
Representation and Simulation of Biochemical Processes Using the pi-Calculus Process Algebra. Pacific Symposium on Biocomputing 2001: 459-470
Coauthor Index
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last updated on 2024-10-23 21:29 CEST by the dblp team
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