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ORCIDBibTeX records: Garry P. Nolan
@article{DBLP:journals/bmcbi/LeeBBBPFNS22,
author = {Michael Y. Lee and
Jacob S. Bedia and
Salil S. Bhate and
Graham L. Barlow and
Darci Phillips and
Wendy J. Fantl and
Garry P. Nolan and
Christian M. Sch{\"{u}}rch},
title = {CellSeg: a robust, pre-trained nucleus segmentation and pixel quantification
software for highly multiplexed fluorescence images},
journal = {{BMC} Bioinform.},
volume = {23},
number = {1},
pages = {46},
year = {2022},
url = {https://doi.org/10.1186/s12859-022-04570-9},
doi = {10.1186/S12859-022-04570-9},
timestamp = {Wed, 16 Mar 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/LeeBBBPFNS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2204-13858,
author = {Shuxiao Chen and
Sizun Jiang and
Zongming Ma and
Garry P. Nolan and
Bokai Zhu},
title = {One-Way Matching of Datasets with Low Rank Signals},
journal = {CoRR},
volume = {abs/2204.13858},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2204.13858},
doi = {10.48550/ARXIV.2204.13858},
eprinttype = {arXiv},
eprint = {2204.13858},
timestamp = {Mon, 02 May 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2204-13858.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/natmi/CulosTSBGMFTNEX20,
author = {Anthony Culos and
Amy Tsai and
Natalie Stanley and
Martin Becker and
Mohammad Sajjad Ghaemi and
David Mcilwain and
Ramin Fallahzadeh and
Athena Tanada and
Huda Nassar and
Camilo Espinosa and
Maria Xenochristou and
Edward Ganio and
Laura Peterson and
Xiaoyuan Han and
Ina A. Stelzer and
Kazuo Ando and
Dyani Gaudilliere and
Thanaphong Phongpreecha and
Ivana Maric and
Alan L. Chang and
Gary M. Shaw and
David K. Stevenson and
Sean Bendall and
Kara L. Davis and
Wendy J. Fantl and
Garry P. Nolan and
Trevor Hastie and
Robert Tibshirani and
Martin S. Angst and
Brice Gaudilliere and
Nima Aghaeepour},
title = {Integration of mechanistic immunological knowledge into a machine
learning pipeline improves predictions},
journal = {Nat. Mach. Intell.},
volume = {2},
number = {10},
pages = {619--628},
year = {2020},
url = {https://doi.org/10.1038/s42256-020-00232-8},
doi = {10.1038/S42256-020-00232-8},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/natmi/CulosTSBGMFTNEX20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GhaemiDCCNLLRMR19,
author = {Mohammad Sajjad Ghaemi and
Daniel B. DiGiulio and
K{\'{e}}vin Contrepois and
Benjamin J. Callahan and
Thuy T. M. Ngo and
Brittany Lee{-}McMullen and
Benoit Lehallier and
Anna Robaczewska and
David Mcilwain and
Yael Rosenberg{-}Hasson and
Ronald J. Wong and
Cecele Quaintance and
Anthony Culos and
Natalie Stanley and
Athena Tanada and
Amy Tsai and
Dyani Gaudilliere and
Edward Ganio and
Xiaoyuan Han and
Kazuo Ando and
Leslie McNeil and
Martha Tingle and
Paul H. Wise and
Ivana Maric and
Marina Sirota and
Tony Wyss{-}Coray and
Virginia D. Winn and
Maurice L. Druzin and
Ronald Gibbs and
Gary L. Darmstadt and
David B. Lewis and
Vahid Partovi Nia and
Bruno Agard and
Robert Tibshirani and
Garry P. Nolan and
Michael P. Snyder and
David A. Relman and
Stephen R. Quake and
Gary M. Shaw and
David K. Stevenson and
Martin S. Angst and
Brice Gaudilliere and
Nima Aghaeepour},
title = {Multiomics modeling of the immunome, transcriptome, microbiome, proteome
and metabolome adaptations during human pregnancy},
journal = {Bioinform.},
volume = {35},
number = {1},
pages = {95--103},
year = {2019},
url = {https://doi.org/10.1093/bioinformatics/bty537},
doi = {10.1093/BIOINFORMATICS/BTY537},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/GhaemiDCCNLLRMR19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nature/SnyderLPARRRGHS19,
author = {Michael P. Snyder and
Shin Lin and
Amanda Posgai and
Mark Atkinson and
Aviv Regev and
Jennifer Rood and
Orit Rozenblatt{-}Rosen and
Leslie Gaffney and
Anna Hupalowska and
Rahul Satija and
Nils Gehlenborg and
Jay Shendure and
Julia Laskin and
Pehr Harbury and
Nicholas A. Nystrom and
Jonathan C. Silverstein and
Ziv Bar{-}Joseph and
Kun Zhang and
Katy B{\"{o}}rner and
Yiing Lin and
Richard Conroy and
Dena Procaccini and
Ananda L. Roy and
Ajay Pillai and
Marishka Brown and
Zorina S. Galis and
Long Cai and
Cole Trapnell and
Dana Jackson and
Garry P. Nolan and
William James Greenleaf and
Sylvia K. Plevritis and
Sara Ahadi and
Stephanie A. Nevins and
Hayan Lee and
Christian Martijn Schuerch and
Sarah Black and
Vishal Gautham Venkataraaman and
Ed Esplin and
Aaron Horning and
Amir Bahmani and
Xin Sun and
Sanjay Jain and
James S. Hagood and
Gloria Pryhuber and
Peter V. Kharchenko and
Bernd Bodenmiller and
Todd Brusko and
Michael Clare{-}Salzler and
Harry Nick and
Kevin Otto and
Clive Wasserfall and
Marda Jorgensen and
Maigan Brusko and
Sergio Maffioletti and
Richard M. Caprioli and
Jeffrey M. Spraggins and
Danielle Gutierrez and
Nathan Heath Patterson and
Elizabeth K. Neumann and
Raymond Harris and
Mark P. de Caestecker and
Agnes B. Fogo and
Raf Van de Plas and
Ken Lau and
Guo{-}Cheng Yuan and
Qian Zhu and
Ruben Dries and
Peng Yin and
Sinem K. Saka and
Jocelyn Y. Kishi and
Yu Wang and
Isabel Goldaracena and
Dong Hye Ye and
Kristin E. Burnum{-}Johnson and
Paul D. Piehowski and
Charles Ansong and
Ying Zhu and
Tushar Desai and
Jay Mulye and
Peter Chou and
Monica Nagendran and
Sarah A. Teichmann and
Benedict Paten and
Robert F. Murphy and
Jian Ma and
Vladimir Yu. Kiselev and
Carl Kingsford and
Allyson Ricarte and
Maria Keays and
Sushma Anand Akoju and
Matthew Ruffalo and
Margaret Vella and
Chuck McCallum and
Leonard E. Cross and
Samuel H. Friedman and
Randy W. Heiland and
Bruce William Herr II and
Paul Macklin and
Ellen M. Quardokus and
Lisel Record and
James P. Sluka and
Griffin M. Weber and
Philip D. Blood and
Alexander Ropelewski and
William Shirey and
Robin M. Scibek and
Paula M. Mabee and
W. Christopher Lenhardt and
Kimberly Robasky and
Stavros Michailidis and
John C. Marioni and
Andrew Butler and
Tim Stuart and
Eyal Fisher and
Shila Ghazanfar and
G{\"{o}}kcen Eraslan and
Tommaso Biancalani and
Eeshit D. Vaishnav and
Pothur Srinivas and
Aaron Pawlyk and
Salvatore Sechi and
Elizabeth L. Wilder and
James Anderson},
title = {The human body at cellular resolution: the {NIH} Human Biomolecular
Atlas Program},
journal = {Nat.},
volume = {574},
number = {7777},
pages = {187--192},
year = {2019},
url = {https://doi.org/10.1038/s41586-019-1629-x},
doi = {10.1038/S41586-019-1629-X},
timestamp = {Fri, 22 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nature/SnyderLPARRRGHS19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/AghaeepourSKBSC18,
author = {Nima Aghaeepour and
Erin F. Simonds and
David J. H. F. Knapp and
Robert V. Bruggner and
Karen Sachs and
Anthony Culos and
Pier Federico Gherardini and
Nikolay Samusik and
Gabriela K. Fragiadakis and
Sean Bendall and
Brice Gaudilliere and
Martin S. Angst and
Connie J. Eaves and
William A. Weiss and
Wendy J. Fantl and
Garry P. Nolan},
title = {GateFinder: projection-based gating strategy optimization for flow
and mass cytometry},
journal = {Bioinform.},
volume = {34},
number = {23},
pages = {4131--4133},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/bty430},
doi = {10.1093/BIOINFORMATICS/BTY430},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/AghaeepourSKBSC18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/LiLSWGNW17,
author = {Ye Henry Li and
Dangna Li and
Nikolay Samusik and
Xiaowei Wang and
Leying Guan and
Garry P. Nolan and
Wing Hung Wong},
title = {Scalable multi-sample single-cell data analysis by Partition-Assisted
Clustering and Multiple Alignments of Networks},
journal = {PLoS Comput. Biol.},
volume = {13},
number = {12},
year = {2017},
url = {https://doi.org/10.1371/journal.pcbi.1005875},
doi = {10.1371/JOURNAL.PCBI.1005875},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/LiLSWGNW17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/FreadSNZ17,
author = {Kristin I. Fread and
William D. Strickland and
Garry P. Nolan and
Eli R. Zunder},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Marylyn D. Ritchie and
Teri E. Klein},
title = {An Updated Debarcoding Tool for Mass Cytometry with Cell Type-Specific
and Cell Sample-Specific Stringency Adjustment},
booktitle = {Biocomputing 2017: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 3-7, 2017},
pages = {588--598},
year = {2017},
url = {http://psb.stanford.edu/psb-online/proceedings/psb17/fread.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/FreadSNZ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/LindermanBSQBSMPN12,
author = {Michael D. Linderman and
Zach Bjornson and
Erin F. Simonds and
Peng Qiu and
Robert V. Bruggner and
Ketaki Sheode and
Teresa H. Meng and
Sylvia K. Plevritis and
Garry P. Nolan},
title = {CytoSPADE: high-performance analysis and visualization of high-dimensional
cytometry data},
journal = {Bioinform.},
volume = {28},
number = {18},
pages = {2400--2401},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts425},
doi = {10.1093/BIOINFORMATICS/BTS425},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/LindermanBSQBSMPN12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cgo/LindermanHDMN10,
author = {Michael D. Linderman and
Matthew Ho and
David L. Dill and
Teresa H. Meng and
Garry P. Nolan},
editor = {Andreas Moshovos and
J. Gregory Steffan and
Kim M. Hazelwood and
David R. Kaeli},
title = {Towards program optimization through automated analysis of numerical
precision},
booktitle = {Proceedings of the {CGO} 2010, The 8th International Symposium on
Code Generation and Optimization, Toronto, Ontario, Canada, April
24-28, 2010},
pages = {230--237},
publisher = {{ACM}},
year = {2010},
url = {https://doi.org/10.1145/1772954.1772987},
doi = {10.1145/1772954.1772987},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/cgo/LindermanHDMN10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ics/AsadiFGWWN10,
author = {Narges Bani Asadi and
Christopher W. Fletcher and
Greg Gibeling and
John Wawrzynek and
Wing H. Wong and
Garry P. Nolan},
editor = {Taisuke Boku and
Hiroshi Nakashima and
Avi Mendelson},
title = {\emph{ParaLearn}: a massively parallel, scalable system for learning
interaction networks on FPGAs},
booktitle = {Proceedings of the 24th International Conference on Supercomputing,
2010, Tsukuba, Ibaraki, Japan, June 2-4, 2010},
pages = {83--94},
publisher = {{ACM}},
year = {2010},
url = {https://doi.org/10.1145/1810085.1810100},
doi = {10.1145/1810085.1810100},
timestamp = {Tue, 06 Nov 2018 11:07:03 +0100},
biburl = {https://dblp.org/rec/conf/ics/AsadiFGWWN10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ics/LindermanBAMAN10,
author = {Michael D. Linderman and
Robert V. Bruggner and
Vivek Athalye and
Teresa H. Meng and
Narges Bani Asadi and
Garry P. Nolan},
editor = {Taisuke Boku and
Hiroshi Nakashima and
Avi Mendelson},
title = {High-throughput Bayesian network learning using heterogeneous multicore
computers},
booktitle = {Proceedings of the 24th International Conference on Supercomputing,
2010, Tsukuba, Ibaraki, Japan, June 2-4, 2010},
pages = {95--104},
publisher = {{ACM}},
year = {2010},
url = {https://doi.org/10.1145/1810085.1810101},
doi = {10.1145/1810085.1810101},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ics/LindermanBAMAN10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:journals/jmlr/ItaniOSND10,
author = {Sleiman Itani and
Mesrob I. Ohannessian and
Karen Sachs and
Garry P. Nolan and
Munther A. Dahleh},
editor = {Isabelle Guyon and
Dominik Janzing and
Bernhard Sch{\"{o}}lkopf},
title = {Recovering Cyclic Causal Structure},
booktitle = {Causality: Objectives and Assessment {(NIPS} 2008 Workshop), Whistler,
Canada, December 12, 2008},
series = {{JMLR} Proceedings},
volume = {6},
pages = {165--176},
publisher = {JMLR.org},
year = {2010},
url = {http://proceedings.mlr.press/v6/itani10a.html},
timestamp = {Wed, 29 May 2019 08:41:44 +0200},
biburl = {https://dblp.org/rec/journals/jmlr/ItaniOSND10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/SachsICNPL09,
author = {Karen Sachs and
Solomon Itani and
Jennifer Carlisle and
Garry P. Nolan and
Dana Pe'er and
Douglas A. Lauffenburger},
title = {Learning Signaling Network Structures with Sparsely Distributed Data},
journal = {J. Comput. Biol.},
volume = {16},
number = {2},
pages = {201--212},
year = {2009},
url = {https://doi.org/10.1089/cmb.2008.07TT},
doi = {10.1089/CMB.2008.07TT},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcb/SachsICNPL09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/SachsIFWSDN09,
author = {Karen Sachs and
Sleiman Itani and
J. Fitzgerald and
L. Wille and
Birgit Schoeberl and
Munther A. Dahleh and
Garry P. Nolan},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Learning Cyclic Signaling Pathway Structures While Minimizing Data
Requirements},
booktitle = {Biocomputing 2009: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, 5-9 January 2009},
pages = {63--74},
year = {2009},
url = {http://psb.stanford.edu/psb-online/proceedings/psb09/sachs.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/SachsIFWSDN09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibe/ItaniSND08,
author = {Sleiman Itani and
Karen Sachs and
Garry P. Nolan and
Munther A. Dahleh},
title = {Structure learning for biomolecular pathways containing cycles},
booktitle = {Proceedings of the 8th {IEEE} International Conference on Bioinformatics
and Bioengineering, {BIBE} 2008, October 8-10, 2008, Athens, Greece},
pages = {1--6},
publisher = {{IEEE}},
year = {2008},
url = {https://doi.org/10.1109/BIBE.2008.4696729},
doi = {10.1109/BIBE.2008.4696729},
timestamp = {Wed, 16 Oct 2019 14:14:56 +0200},
biburl = {https://dblp.org/rec/conf/bibe/ItaniSND08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csb/SachsPPNGJL04,
author = {Karen Sachs and
Omar D. Perez and
Dana Pe'er and
Garry P. Nolan and
David K. Gifford and
Tommi S. Jaakkola and
Douglas A. Lauffenburger},
title = {Analysis of Signaling Pathways in Human T-Cells Using Bayesian Network
Modeling of Single Cell Data},
booktitle = {3rd International {IEEE} Computer Society Computational Systems Bioinformatics
Conference, {CSB} 2004, Stanford, CA, USA, August 16-19, 2004},
pages = {644},
publisher = {{IEEE} Computer Society},
year = {2004},
url = {https://doi.org/10.1109/CSB.2004.1332529},
doi = {10.1109/CSB.2004.1332529},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/csb/SachsPPNGJL04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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