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2020 – today
- 2022
[j8]Michael Y. Lee, Jacob S. Bedia
, Salil S. Bhate, Graham L. Barlow, Darci Phillips, Wendy J. Fantl, Garry P. Nolan, Christian M. Schürch:
CellSeg: a robust, pre-trained nucleus segmentation and pixel quantification software for highly multiplexed fluorescence images. BMC Bioinform. 23(1): 46 (2022)- [i1]Shuxiao Chen, Sizun Jiang, Zongming Ma, Garry P. Nolan, Bokai Zhu:
One-Way Matching of Datasets with Low Rank Signals. CoRR abs/2204.13858 (2022) - 2020
- [j7]Anthony Culos, Amy Tsai, Natalie Stanley, Martin Becker, Mohammad Sajjad Ghaemi, David Mcilwain, Ramin Fallahzadeh, Athena Tanada, Huda Nassar, Camilo Espinosa, Maria Xenochristou, Edward Ganio, Laura Peterson, Xiaoyuan Han, Ina A. Stelzer, Kazuo Ando, Dyani Gaudilliere, Thanaphong Phongpreecha, Ivana Maric, Alan L. Chang, Gary M. Shaw, David K. Stevenson, Sean Bendall, Kara L. Davis, Wendy J. Fantl, Garry P. Nolan, Trevor Hastie, Robert Tibshirani, Martin S. Angst, Brice Gaudilliere, Nima Aghaeepour:
Integration of mechanistic immunological knowledge into a machine learning pipeline improves predictions. Nat. Mach. Intell. 2(10): 619-628 (2020)
2010 – 2019
- 2019
- [j6]Mohammad Sajjad Ghaemi, Daniel B. DiGiulio, Kévin Contrepois, Benjamin J. Callahan, Thuy T. M. Ngo, Brittany Lee-McMullen, Benoit Lehallier, Anna Robaczewska, David Mcilwain, Yael Rosenberg-Hasson, Ronald J. Wong, Cecele Quaintance, Anthony Culos, Natalie Stanley, Athena Tanada, Amy Tsai, Dyani Gaudilliere, Edward Ganio, Xiaoyuan Han, Kazuo Ando, Leslie McNeil, Martha Tingle, Paul H. Wise, Ivana Maric, Marina Sirota, Tony Wyss-Coray, Virginia D. Winn, Maurice L. Druzin, Ronald Gibbs, Gary L. Darmstadt, David B. Lewis, Vahid Partovi Nia, Bruno Agard, Robert Tibshirani, Garry P. Nolan, Michael P. Snyder, David A. Relman, Stephen R. Quake, Gary M. Shaw, David K. Stevenson, Martin S. Angst, Brice Gaudilliere, Nima Aghaeepour:
Multiomics modeling of the immunome, transcriptome, microbiome, proteome and metabolome adaptations during human pregnancy. Bioinform. 35(1): 95-103 (2019) - [j5]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) - 2018
- [j4]Nima Aghaeepour, Erin F. Simonds, David J. H. F. Knapp, Robert V. Bruggner, Karen Sachs, Anthony Culos, Pier Federico Gherardini, Nikolay Samusik, Gabriela K. Fragiadakis, Sean Bendall, Brice Gaudilliere, Martin S. Angst, Connie J. Eaves, William A. Weiss, Wendy J. Fantl, Garry P. Nolan:
GateFinder: projection-based gating strategy optimization for flow and mass cytometry. Bioinform. 34(23): 4131-4133 (2018) - 2017
- [j3]Ye Henry Li, Dangna Li, Nikolay Samusik, Xiaowei Wang, Leying Guan, Garry P. Nolan, Wing Hung Wong:
Scalable multi-sample single-cell data analysis by Partition-Assisted Clustering and Multiple Alignments of Networks. PLoS Comput. Biol. 13(12) (2017) - [c8]Kristin I. Fread, William D. Strickland, Garry P. Nolan, Eli R. Zunder:
An Updated Debarcoding Tool for Mass Cytometry with Cell Type-Specific and Cell Sample-Specific Stringency Adjustment. PSB 2017: 588-598 - 2012
- [j2]Michael D. Linderman, Zach Bjornson, Erin F. Simonds, Peng Qiu, Robert V. Bruggner, Ketaki Sheode, Teresa H. Meng, Sylvia K. Plevritis, Garry P. Nolan:
CytoSPADE: high-performance analysis and visualization of high-dimensional cytometry data. Bioinform. 28(18): 2400-2401 (2012) - 2010
- [c7]Michael D. Linderman, Matthew Ho, David L. Dill, Teresa H. Meng, Garry P. Nolan:
Towards program optimization through automated analysis of numerical precision. CGO 2010: 230-237 - [c6]Narges Bani Asadi, Christopher W. Fletcher, Greg Gibeling, John Wawrzynek, Wing H. Wong, Garry P. Nolan:
ParaLearn: a massively parallel, scalable system for learning interaction networks on FPGAs. ICS 2010: 83-94 - [c5]Michael D. Linderman, Robert V. Bruggner, Vivek Athalye, Teresa H. Meng, Narges Bani Asadi, Garry P. Nolan:
High-throughput Bayesian network learning using heterogeneous multicore computers. ICS 2010: 95-104 - [c4]Sleiman Itani, Mesrob I. Ohannessian, Karen Sachs, Garry P. Nolan, Munther A. Dahleh:
Recovering Cyclic Causal Structure. NIPS Causality: Objectives and Assessment 2010: 165-176
2000 – 2009
- 2009
- [j1]Karen Sachs, Solomon Itani, Jennifer Carlisle, Garry P. Nolan, Dana Pe'er, Douglas A. Lauffenburger:
Learning Signaling Network Structures with Sparsely Distributed Data. J. Comput. Biol. 16(2): 201-212 (2009) - [c3]Karen Sachs, Sleiman Itani, J. Fitzgerald, L. Wille, Birgit Schoeberl, Munther A. Dahleh, Garry P. Nolan:
Learning Cyclic Signaling Pathway Structures While Minimizing Data Requirements. Pacific Symposium on Biocomputing 2009: 63-74 - 2008
- [c2]Sleiman Itani, Karen Sachs, Garry P. Nolan, Munther A. Dahleh:
Structure learning for biomolecular pathways containing cycles. BIBE 2008: 1-6 - 2004
- [c1]Karen Sachs, Omar D. Perez, Dana Pe'er, Garry P. Nolan, David K. Gifford, Tommi S. Jaakkola, Douglas A. Lauffenburger:
Analysis of Signaling Pathways in Human T-Cells Using Bayesian Network Modeling of Single Cell Data. CSB 2004: 644
Coauthor Index
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