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ORCIDBibTeX records: Olga G. Troyanskaya
@article{DBLP:journals/ncs/ChenWCCZNMRNTTV23,
author = {Xi Chen and
Yuan Wang and
Antonio Cappuccio and
Wan{-}Sze Cheng and
Frederique Ruf Zamojski and
Venugopalan D. Nair and
Clare M. Miller and
Aliza B. Rubenstein and
German Nudelman and
Alicja Tadych and
Chandra L. Theesfeld and
Alexandria Vornholt and
Mary{-}Catherine George and
Felicia Ruffin and
Michael Dagher and
Daniel G. Chawla and
Alessandra Soares{-}Schanoski and
Rachel R. Spurbeck and
Lishomwa C. Ndhlovu and
Robert P. Sebra and
Steven H. Kleinstein and
Andrew G. Letizia and
Irene Ramos and
Vance G. Fowler and
Christopher W. Woods and
Elena Zaslavsky and
Olga G. Troyanskaya and
Stuart C. Sealfon},
title = {Mapping disease regulatory circuits at cell-type resolution from single-cell
multiomics data},
journal = {Nat. Comput. Sci.},
volume = {3},
number = {7},
pages = {644--657},
year = {2023},
url = {https://doi.org/10.1038/s43588-023-00476-5},
doi = {10.1038/S43588-023-00476-5},
timestamp = {Tue, 05 Aug 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ncs/ChenWCCZNMRNTTV23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ncs/ChenWCCZNMRNTTV23a,
author = {Xi Chen and
Yuan Wang and
Antonio Cappuccio and
Wan{-}Sze Cheng and
Frederique Ruf Zamojski and
Venugopalan D. Nair and
Clare M. Miller and
Aliza B. Rubenstein and
German Nudelman and
Alicja Tadych and
Chandra L. Theesfeld and
Alexandria Vornholt and
Mary{-}Catherine George and
Felicia Ruffin and
Michael Dagher and
Daniel G. Chawla and
Alessandra Soares{-}Schanoski and
Rachel R. Spurbeck and
Lishomwa C. Ndhlovu and
Robert P. Sebra and
Steven H. Kleinstein and
Andrew G. Letizia and
Irene Ramos and
Vance G. Fowler and
Christopher W. Woods and
Elena Zaslavsky and
Olga G. Troyanskaya and
Stuart C. Sealfon},
title = {Author Correction: Mapping disease regulatory circuits at cell-type
resolution from single-cell multiomics data},
journal = {Nat. Comput. Sci.},
volume = {3},
number = {9},
pages = {805},
year = {2023},
url = {https://doi.org/10.1038/s43588-023-00523-1},
doi = {10.1038/S43588-023-00523-1},
timestamp = {Tue, 05 Aug 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ncs/ChenWCCZNMRNTTV23a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ncs/ZhangLST23,
author = {Zijun Zhang and
Adam R. Lamson and
Michael J. Shelley and
Olga G. Troyanskaya},
title = {Interpretable neural architecture search and transfer learning for
understanding CRISPR-Cas9 off-target enzymatic reactions},
journal = {Nat. Comput. Sci.},
volume = {3},
number = {12},
pages = {1056--1066},
year = {2023},
url = {https://doi.org/10.1038/s43588-023-00569-1},
doi = {10.1038/S43588-023-00569-1},
timestamp = {Tue, 07 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ncs/ZhangLST23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2305-11917,
author = {Zijun Zhang and
Adam R. Lamson and
Michael J. Shelley and
Olga G. Troyanskaya},
title = {Interpretable neural architecture search and transfer learning for
understanding sequence dependent enzymatic reactions},
journal = {CoRR},
volume = {abs/2305.11917},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2305.11917},
doi = {10.48550/ARXIV.2305.11917},
eprinttype = {arXiv},
eprint = {2305.11917},
timestamp = {Fri, 05 Apr 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2305-11917.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/LiZT21,
author = {Victoria R. Li and
Zijun Zhang and
Olga G. Troyanskaya},
title = {{CROTON:} an automated and variant-aware deep learning framework for
predicting CRISPR/Cas9 editing outcomes},
journal = {Bioinform.},
volume = {37},
number = {Supplement},
pages = {342--348},
year = {2021},
url = {https://doi.org/10.1093/bioinformatics/btab268},
doi = {10.1093/BIOINFORMATICS/BTAB268},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/LiZT21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/natmi/ZhangPTT21,
author = {Zijun Zhang and
Christopher Y. Park and
Chandra L. Theesfeld and
Olga G. Troyanskaya},
title = {An automated framework for efficiently designing deep convolutional
neural networks in genomics},
journal = {Nat. Mach. Intell.},
volume = {3},
number = {5},
pages = {392--400},
year = {2021},
url = {https://doi.org/10.1038/s42256-021-00316-z},
doi = {10.1038/S42256-021-00316-Z},
timestamp = {Wed, 15 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/natmi/ZhangPTT21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhuTTK20,
author = {Qian Zhu and
Xavier Tekpli and
Olga G. Troyanskaya and
Vessela N. Kristensen},
title = {Subtype-specific transcriptional regulators in breast tumors subjected
to genetic and epigenetic alterations},
journal = {Bioinform.},
volume = {36},
number = {4},
pages = {994--999},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btz709},
doi = {10.1093/BIOINFORMATICS/BTZ709},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhuTTK20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/WongKT18,
author = {Aaron K. Wong and
Arjun Krishnan and
Olga G. Troyanskaya},
title = {{GIANT} 2.0: genome-scale integrated analysis of gene networks in
tissues},
journal = {Nucleic Acids Res.},
volume = {46},
number = {Webserver-Issue},
pages = {W65--W70},
year = {2018},
url = {https://doi.org/10.1093/nar/gky408},
doi = {10.1093/NAR/GKY408},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/WongKT18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/RanganMKSSZKYTB18,
author = {Aaditya V. Rangan and
Caroline C. McGrouther and
John Kelsoe and
Nicholas J. Schork and
Eli Stahl and
Qian Zhu and
Arjun Krishnan and
Vicky Yao and
Olga G. Troyanskaya and
Seda Bilaloglu and
Preeti Raghavan and
Sarah Bergen and
Anders Jur{\'{e}}us and
Mikael Landen},
title = {A loop-counting method for covariate-corrected low-rank biclustering
of gene-expression and genome-wide association study data},
journal = {PLoS Comput. Biol.},
volume = {14},
number = {5},
year = {2018},
url = {https://doi.org/10.1371/journal.pcbi.1006105},
doi = {10.1371/JOURNAL.PCBI.1006105},
timestamp = {Fri, 04 Jul 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/RanganMKSSZKYTB18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/RobertsWFT16,
author = {Andrew M. Roberts and
Aaron K. Wong and
Ian Fisk and
Olga G. Troyanskaya},
title = {{GIANT} {API:} an application programming interface for functional
genomics},
journal = {Nucleic Acids Res.},
volume = {44},
number = {Webserver-Issue},
pages = {W587--W592},
year = {2016},
url = {https://doi.org/10.1093/nar/gkw289},
doi = {10.1093/NAR/GKW289},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/RobertsWFT16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ParkKZWLT15,
author = {Christopher Y. Park and
Arjun Krishnan and
Qian Zhu and
Aaron K. Wong and
Young{-}Suk Lee and
Olga G. Troyanskaya},
title = {Tissue-aware data integration approach for the inference of pathway
interactions in metazoan organisms},
journal = {Bioinform.},
volume = {31},
number = {7},
pages = {1093--1101},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu786},
doi = {10.1093/BIOINFORMATICS/BTU786},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ParkKZWLT15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/WongKYTT15,
author = {Aaron K. Wong and
Arjun Krishnan and
Victoria Yao and
Alicja Tadych and
Olga G. Troyanskaya},
title = {{IMP} 2.0: a multi-species functional genomics portal for integration,
visualization and prediction of protein functions and networks},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W128--W133},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv486},
doi = {10.1093/NAR/GKV486},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/WongKYTT15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GoyaWYKHT15,
author = {Jonathan Goya and
Aaron K. Wong and
Victoria Yao and
Arjun Krishnan and
Max Homilius and
Olga G. Troyanskaya},
title = {{FNTM:} a server for predicting functional networks of tissues in
mouse},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W182--W187},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv443},
doi = {10.1093/NAR/GKV443},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/GoyaWYKHT15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/editors14,
title = {{ISCB/SPRINGER} series in computational biology},
journal = {Bioinform.},
volume = {30},
number = {1},
pages = {146--147},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btt670},
doi = {10.1093/BIOINFORMATICS/BTT670},
timestamp = {Tue, 05 Aug 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/editors14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ZhouT14,
author = {Jian Zhou and
Olga G. Troyanskaya},
title = {Global Quantitative Modeling of Chromatin Factor Interactions},
journal = {PLoS Comput. Biol.},
volume = {10},
number = {3},
year = {2014},
url = {https://doi.org/10.1371/journal.pcbi.1003525},
doi = {10.1371/JOURNAL.PCBI.1003525},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/ZhouT14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icml/ZhouT14,
author = {Jian Zhou and
Olga G. Troyanskaya},
title = {Deep Supervised and Convolutional Generative Stochastic Network for
Protein Secondary Structure Prediction},
booktitle = {Proceedings of the 31th International Conference on Machine Learning,
{ICML} 2014, Beijing, China, 21-26 June 2014},
series = {{JMLR} Workshop and Conference Proceedings},
volume = {32},
pages = {745--753},
publisher = {JMLR.org},
year = {2014},
url = {http://proceedings.mlr.press/v32/zhou14.html},
timestamp = {Wed, 29 May 2019 08:41:45 +0200},
biburl = {https://dblp.org/rec/conf/icml/ZhouT14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/ZhouT14,
author = {Jian Zhou and
Olga G. Troyanskaya},
title = {Deep Supervised and Convolutional Generative Stochastic Network for
Protein Secondary Structure Prediction},
journal = {CoRR},
volume = {abs/1403.1347},
year = {2014},
url = {http://arxiv.org/abs/1403.1347},
eprinttype = {arXiv},
eprint = {1403.1347},
timestamp = {Mon, 13 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/ZhouT14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/LeeKZT13,
author = {Young{-}Suk Lee and
Arjun Krishnan and
Qian Zhu and
Olga G. Troyanskaya},
title = {Ontology-aware classification of tissue and cell-type signals in gene
expression profiles across platforms and technologies},
journal = {Bioinform.},
volume = {29},
number = {23},
pages = {3036--3044},
year = {2013},
url = {https://doi.org/10.1093/bioinformatics/btt529},
doi = {10.1093/BIOINFORMATICS/BTT529},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/LeeKZT13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ParkWGRGBBT13,
author = {Christopher Y. Park and
Aaron K. Wong and
Casey S. Greene and
Jessica Rowland and
Yuanfang Guan and
Lars Ailo Bongo and
Rebecca D. Burdine and
Olga G. Troyanskaya},
title = {Functional Knowledge Transfer for High-accuracy Prediction of Under-studied
Biological Processes},
journal = {PLoS Comput. Biol.},
volume = {9},
number = {3},
year = {2013},
url = {https://doi.org/10.1371/journal.pcbi.1002957},
doi = {10.1371/JOURNAL.PCBI.1002957},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/ParkWGRGBBT13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ChikinaT12,
author = {Maria D. Chikina and
Olga G. Troyanskaya},
title = {An effective statistical evaluation of ChIPseq dataset similarity},
journal = {Bioinform.},
volume = {28},
number = {5},
pages = {607--613},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts009},
doi = {10.1093/BIOINFORMATICS/BTS009},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ChikinaT12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/WongPGBGT12,
author = {Aaron K. Wong and
Christopher Y. Park and
Casey S. Greene and
Lars Ailo Bongo and
Yuanfang Guan and
Olga G. Troyanskaya},
title = {{IMP:} a multi-species functional genomics portal for integration,
visualization and prediction of protein functions and networks},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Web-Server-Issue},
pages = {484--490},
year = {2012},
url = {https://doi.org/10.1093/nar/gks458},
doi = {10.1093/NAR/GKS458},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/WongPGBGT12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GuanGBWSHBHT12,
author = {Yuanfang Guan and
Dmitriy Gorenshteyn and
Margit Burmeister and
Aaron K. Wong and
John C. Schimenti and
Mary Ann Handel and
Carol J. Bult and
Matthew A. Hibbs and
Olga G. Troyanskaya},
title = {Tissue-Specific Functional Networks for Prioritizing Phenotype and
Disease Genes},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {9},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002694},
doi = {10.1371/JOURNAL.PCBI.1002694},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/GuanGBWSHBHT12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GreeneT12,
author = {Casey S. Greene and
Olga G. Troyanskaya},
title = {Chapter 2: Data-Driven View of Disease Biology},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {12},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002816},
doi = {10.1371/JOURNAL.PCBI.1002816},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/GreeneT12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GreeneT11,
author = {Casey S. Greene and
Olga G. Troyanskaya},
title = {{PILGRM:} an interactive data-driven discovery platform for expert
biologists},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Web-Server-Issue},
pages = {368--374},
year = {2011},
url = {https://doi.org/10.1093/nar/gkr440},
doi = {10.1093/NAR/GKR440},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/GreeneT11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ChikinaT11,
author = {Maria D. Chikina and
Olga G. Troyanskaya},
title = {Accurate Quantification of Functional Analogy among Close Homologs},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {2},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1001074},
doi = {10.1371/JOURNAL.PCBI.1001074},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/ChikinaT11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icbo/MungallABCCCCDEEGKILMMTTTTWH11,
author = {Chris Mungall and
David Anderson and
Anita E. Bandrowski and
Brian A. Canada and
Andrew Chatr{-}aryamontri and
Keith C. Cheng and
P. Michael Conn and
Kara Dolinski and
Mark H. Ellisman and
Janan T. Eppig and
Jeffrey S. Grethe and
Joseph W. Kemnitz and
Shawn Iadonato and
Stephen D. Larson and
Charles Magness and
Maryann E. Martone and
Mike Tyers and
Carlo Torniai and
Olga G. Troyanskaya and
Judith Turner and
Monte Westerfield and
Melissa A. Haendel},
editor = {Olivier Bodenreider and
Maryann E. Martone and
Alan Ruttenberg},
title = {An Ontology-Based Approach to Linking Model Organisms and Resources
to Human Diseases},
booktitle = {Proceedings of the 2nd International Conference on Biomedical Ontology,
Buffalo, NY, USA, July 26-30, 2011},
series = {{CEUR} Workshop Proceedings},
volume = {833},
publisher = {CEUR-WS.org},
year = {2011},
url = {https://ceur-ws.org/Vol-833/paper43.pdf},
timestamp = {Fri, 10 Mar 2023 16:22:24 +0100},
biburl = {https://dblp.org/rec/conf/icbo/MungallABCCCCDEEGKILMMTTTTWH11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PopHIBT10,
author = {Ana Pop and
Curtis Huttenhower and
Anjali Iyer{-}Pascuzzi and
Philip N. Benfey and
Olga G. Troyanskaya},
title = {Integrated functional networks of process, tissue, and developmental
stage specific interactions in Arabidopsis thaliana},
journal = {{BMC} Syst. Biol.},
volume = {4},
pages = {180},
year = {2010},
url = {https://doi.org/10.1186/1752-0509-4-180},
doi = {10.1186/1752-0509-4-180},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcsb/PopHIBT10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GuanDCT10,
author = {Yuanfang Guan and
Maitreya J. Dunham and
Amy A. Caudy and
Olga G. Troyanskaya},
title = {Systematic Planning of Genome-Scale Experiments in Poorly Studied
Species},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {3},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000698},
doi = {10.1371/JOURNAL.PCBI.1000698},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/GuanDCT10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GuanAKTH10,
author = {Yuanfang Guan and
Cheryl L. Ackert{-}Bicknell and
Braden Kell and
Olga G. Troyanskaya and
Matthew A. Hibbs},
title = {Functional Genomics Complements Quantitative Genetics in Identifying
Disease-Gene Associations},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {11},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000991},
doi = {10.1371/JOURNAL.PCBI.1000991},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/GuanAKTH10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ParkHHT10,
author = {Christopher Y. Park and
David C. Hess and
Curtis Huttenhower and
Olga G. Troyanskaya},
title = {Simultaneous Genome-Wide Inference of Physical, Genetic, Regulatory,
and Functional Pathway Components},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {11},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1001009},
doi = {10.1371/JOURNAL.PCBI.1001009},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/ParkHHT10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/MarkowetzMALT10,
author = {Florian Markowetz and
Klaas W. Mulder and
Edoardo M. Airoldi and
Ihor Lemischka and
Olga G. Troyanskaya},
title = {Mapping Dynamic Histone Acetylation Patterns to Gene Expression in
Nanog-Depleted Murine Embryonic Stem Cells},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {12},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1001034},
doi = {10.1371/JOURNAL.PCBI.1001034},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/MarkowetzMALT10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/RockeITQD09,
author = {David M. Rocke and
Trey Ideker and
Olga G. Troyanskaya and
John Quackenbush and
Joaqu{\'{\i}}n Dopazo},
title = {Papers on normalization, variable selection, classification or clustering
of microarray data},
journal = {Bioinform.},
volume = {25},
number = {6},
pages = {701--702},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btp038},
doi = {10.1093/BIOINFORMATICS/BTP038},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/RockeITQD09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BarutcuogluADST09,
author = {Zafer Barut{\c{c}}uoglu and
Edoardo M. Airoldi and
Vanessa Dumeaux and
Robert E. Schapire and
Olga G. Troyanskaya},
title = {Aneuploidy prediction and tumor classification with heterogeneous
hidden conditional random fields},
journal = {Bioinform.},
volume = {25},
number = {10},
pages = {1307--1313},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btn585},
doi = {10.1093/BIOINFORMATICS/BTN585},
timestamp = {Sun, 06 Oct 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/BarutcuogluADST09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HuttenhowerHMCHT09,
author = {Curtis Huttenhower and
Matthew A. Hibbs and
Chad L. Myers and
Amy A. Caudy and
David C. Hess and
Olga G. Troyanskaya},
title = {The impact of incomplete knowledge on evaluation: an experimental
benchmark for protein function prediction},
journal = {Bioinform.},
volume = {25},
number = {18},
pages = {2404--2410},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btp397},
doi = {10.1093/BIOINFORMATICS/BTP397},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HuttenhowerHMCHT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HuttenhowerMIYSFTC09,
author = {Curtis Huttenhower and
K. Tsheko Mutungu and
Natasha Indik and
Woongcheol Yang and
Mark Schroeder and
Joshua J. Forman and
Olga G. Troyanskaya and
Hilary A. Coller},
title = {Detailing regulatory networks through large scale data integration},
journal = {Bioinform.},
volume = {25},
number = {24},
pages = {3267--3274},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btp588},
doi = {10.1093/BIOINFORMATICS/BTP588},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HuttenhowerMIYSFTC09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ButteSRLT09,
author = {Atul J. Butte and
Indra Neil Sarkar and
Marco Ramoni and
Yves A. Lussier and
Olga G. Troyanskaya},
title = {Selected proceedings of the First Summit on Translational Bioinformatics
2008},
journal = {{BMC} Bioinform.},
volume = {10},
number = {{S-2}},
year = {2009},
url = {http://www.biomedcentral.com/1471-2105/10/S2/I1},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ButteSRLT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/HuttenhowerMT09,
author = {Curtis Huttenhower and
Sajid O. Mehmood and
Olga G. Troyanskaya},
title = {Graphle: Interactive exploration of large, dense graphs},
journal = {{BMC} Bioinform.},
volume = {10},
pages = {417},
year = {2009},
url = {https://doi.org/10.1186/1471-2105-10-417},
doi = {10.1186/1471-2105-10-417},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/HuttenhowerMT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/AiroldiHGLCDBBT09,
author = {Edoardo M. Airoldi and
Curtis Huttenhower and
David Gresham and
Charles Lu and
Amy A. Caudy and
Maitreya J. Dunham and
James R. Broach and
David Botstein and
Olga G. Troyanskaya},
title = {Predicting Cellular Growth from Gene Expression Signatures},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {1},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000257},
doi = {10.1371/JOURNAL.PCBI.1000257},
timestamp = {Fri, 23 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/AiroldiHGLCDBBT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BradleyBRT09,
author = {Patrick H. Bradley and
Matthew J. Brauer and
Joshua D. Rabinowitz and
Olga G. Troyanskaya},
title = {Coordinated Concentration Changes of Transcripts and Metabolites in
\emph{Saccharomyces cerevisiae}},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {1},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000270},
doi = {10.1371/JOURNAL.PCBI.1000270},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/BradleyBRT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/HibbsMHHLCT09,
author = {Matthew A. Hibbs and
Chad L. Myers and
Curtis Huttenhower and
David C. Hess and
Kai Li and
Amy A. Caudy and
Olga G. Troyanskaya},
title = {Directing Experimental Biology: {A} Case Study in Mitochondrial Biogenesis},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {3},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000322},
doi = {10.1371/JOURNAL.PCBI.1000322},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/HibbsMHHLCT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ChikinaHMT09,
author = {Maria D. Chikina and
Curtis Huttenhower and
Coleen T. Murphy and
Olga G. Troyanskaya},
title = {Global Prediction of Tissue-Specific Gene Expression and Context-Dependent
Gene Networks in \emph{Caenorhabditis elegans}},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {6},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000417},
doi = {10.1371/JOURNAL.PCBI.1000417},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/ChikinaHMT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/3dui/StodleTLA09,
author = {Daniel St{\o}dle and
Olga G. Troyanskaya and
Kai Li and
Otto J. Anshus},
title = {Tech-note: Device-free interaction spaces},
booktitle = {{IEEE} Symposium on 3D User Interfaces, 3DUI 2009, Lafayette, LA,
USA, 14-15 March, 2009},
pages = {39--42},
publisher = {{IEEE} Computer Society},
year = {2009},
url = {https://doi.org/10.1109/3DUI.2009.4811203},
doi = {10.1109/3DUI.2009.4811203},
timestamp = {Wed, 16 Oct 2019 14:14:54 +0200},
biburl = {https://dblp.org/rec/conf/3dui/StodleTLA09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HuttenhowerSCT08,
author = {Curtis Huttenhower and
Mark Schroeder and
Maria D. Chikina and
Olga G. Troyanskaya},
title = {The Sleipnir library for computational functional genomics},
journal = {Bioinform.},
volume = {24},
number = {13},
pages = {1559--1561},
year = {2008},
url = {https://doi.org/10.1093/bioinformatics/btn237},
doi = {10.1093/BIOINFORMATICS/BTN237},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HuttenhowerSCT08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GuanMLLBT08,
author = {Yuanfang Guan and
Chad L. Myers and
Rong Lu and
Ihor Lemischka and
Carol J. Bult and
Olga G. Troyanskaya},
title = {A Genomewide Functional Network for the Laboratory Mouse},
journal = {PLoS Comput. Biol.},
volume = {4},
number = {9},
year = {2008},
url = {https://doi.org/10.1371/journal.pcbi.1000165},
doi = {10.1371/JOURNAL.PCBI.1000165},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/GuanMLLBT08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/HuttenhowerT08,
author = {Curtis Huttenhower and
Olga G. Troyanskaya},
title = {Assessing the functional structure of genomic data},
booktitle = {Proceedings 16th International Conference on Intelligent Systems for
Molecular Biology (ISMB), Toronto, Canada, July 19-23, 2008},
pages = {330--338},
year = {2008},
url = {https://doi.org/10.1093/bioinformatics/btn160},
doi = {10.1093/BIOINFORMATICS/BTN160},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ismb/HuttenhowerT08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MyersT07,
author = {Chad L. Myers and
Olga G. Troyanskaya},
title = {Context-sensitive data integration and prediction of biological networks},
journal = {Bioinform.},
volume = {23},
number = {17},
pages = {2322--2330},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btm332},
doi = {10.1093/BIOINFORMATICS/BTM332},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MyersT07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HibbsHMHLT07,
author = {Matthew A. Hibbs and
David C. Hess and
Chad L. Myers and
Curtis Huttenhower and
Kai Li and
Olga G. Troyanskaya},
title = {Exploring the functional landscape of gene expression: directed search
of large microarray compendia},
journal = {Bioinform.},
volume = {23},
number = {20},
pages = {2692--2699},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btm403},
doi = {10.1093/BIOINFORMATICS/BTM403},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HibbsHMHLT07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/HuttenhowerFLSMOHSTC07,
author = {Curtis Huttenhower and
Avi I. Flamholz and
Jessica N. Landis and
Sauhard Sahi and
Chad L. Myers and
Kellen L. Olszewski and
Matthew A. Hibbs and
Nathan O. Siemers and
Olga G. Troyanskaya and
Hilary A. Coller},
title = {Nearest Neighbor Networks: clustering expression data based on gene
neighborhoods},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-250},
doi = {10.1186/1471-2105-8-250},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/HuttenhowerFLSMOHSTC07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Troyanskaya07,
author = {Olga G. Troyanskaya},
title = {"Getting Started In...": {A} Series Not to Miss},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {10},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030224},
doi = {10.1371/JOURNAL.PCBI.0030224},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/Troyanskaya07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ipps/WallaceHDSTL07,
author = {Grant Wallace and
Matthew A. Hibbs and
Maitreya J. Dunham and
Rachel S. G. Sealfon and
Olga G. Troyanskaya and
Kai Li},
title = {Scalable, Dynamic Analysis and Visualization for Genomic Datasets},
booktitle = {21th International Parallel and Distributed Processing Symposium {(IPDPS}
2007), Proceedings, 26-30 March 2007, Long Beach, California, {USA}},
pages = {1--6},
publisher = {{IEEE}},
year = {2007},
url = {https://doi.org/10.1109/IPDPS.2007.370529},
doi = {10.1109/IPDPS.2007.370529},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ipps/WallaceHDSTL07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/MarkowetzKTS07,
author = {Florian Markowetz and
Dennis Kostka and
Olga G. Troyanskaya and
Rainer Spang},
title = {Nested effects models for high-dimensional phenotyping screens},
booktitle = {Proceedings 15th International Conference on Intelligent Systems for
Molecular Biology {(ISMB)} {\&} 6th European Conference on Computational
Biology (ECCB), Vienna, Austria, July 21-25, 2007},
pages = {305--312},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btm178},
doi = {10.1093/BIOINFORMATICS/BTM178},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ismb/MarkowetzKTS07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iv/HibbsWDLT07,
author = {Matthew A. Hibbs and
Grant Wallace and
Maitreya J. Dunham and
Kai Li and
Olga G. Troyanskaya},
title = {Viewing the Larger Context of Genomic Data through Horizontal Integration},
booktitle = {11th International Conference on Information Visualisation, {IV} 2007,
2-6 July 2007, Z{\"{u}}rich, Switzerland},
pages = {326--334},
publisher = {{IEEE} Computer Society},
year = {2007},
url = {https://doi.org/10.1109/IV.2007.120},
doi = {10.1109/IV.2007.120},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iv/HibbsWDLT07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BarutcuogluST06,
author = {Zafer Barut{\c{c}}uoglu and
Robert E. Schapire and
Olga G. Troyanskaya},
title = {Hierarchical multi-label prediction of gene function},
journal = {Bioinform.},
volume = {22},
number = {7},
pages = {830--836},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btk048},
doi = {10.1093/BIOINFORMATICS/BTK048},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BarutcuogluST06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HuttenhowerHMT06,
author = {Curtis Huttenhower and
Matthew A. Hibbs and
Chad L. Myers and
Olga G. Troyanskaya},
title = {A scalable method for integration and functional analysis of multiple
microarray datasets},
journal = {Bioinform.},
volume = {22},
number = {23},
pages = {2890--2897},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btl492},
doi = {10.1093/BIOINFORMATICS/BTL492},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HuttenhowerHMT06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/SealfonHHMT06,
author = {Rachel S. G. Sealfon and
Matthew A. Hibbs and
Curtis Huttenhower and
Chad L. Myers and
Olga G. Troyanskaya},
title = {{GOLEM:} an interactive graph-based gene-ontology navigation and analysis
tool},
journal = {{BMC} Bioinform.},
volume = {7},
pages = {443},
year = {2006},
url = {https://doi.org/10.1186/1471-2105-7-443},
doi = {10.1186/1471-2105-7-443},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/SealfonHHMT06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/gccb/BongoWLLT06,
author = {Lars Ailo Bongo and
Grant Wallace and
Tore Larsen and
Kai Li and
Olga G. Troyanskaya},
editor = {Werner Dubitzky and
Assaf Schuster and
Peter M. A. Sloot and
Michael Schroeder and
Mathilde Romberg},
title = {Systems Support for Remote Visualization of Genomics Applications
over Wide Area Networks},
booktitle = {Distributed, High-Performance and Grid Computing in Computational
Biology , International Workshop, {GCCB} 2006, Eilat, Israel, January
21, 2007, Proceeding},
series = {Lecture Notes in Computer Science},
volume = {4360},
pages = {157--174},
publisher = {Springer},
year = {2006},
url = {https://doi.org/10.1007/978-3-540-69968-2\_12},
doi = {10.1007/978-3-540-69968-2\_12},
timestamp = {Tue, 14 May 2019 10:00:38 +0200},
biburl = {https://dblp.org/rec/conf/gccb/BongoWLLT06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/Troyanskaya05,
author = {Olga G. Troyanskaya},
title = {Putting microarrays in a context: Integrated analysis of diverse biological
data},
journal = {Briefings Bioinform.},
volume = {6},
number = {1},
pages = {34--43},
year = {2005},
url = {https://doi.org/10.1093/bib/6.1.34},
doi = {10.1093/BIB/6.1.34},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/Troyanskaya05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/HibbsDLT05,
author = {Matthew A. Hibbs and
Nathaniel C. Dirksen and
Kai Li and
Olga G. Troyanskaya},
title = {Visualization methods for statistical analysis of microarray clusters},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {115},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-115},
doi = {10.1186/1471-2105-6-115},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/HibbsDLT05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/MyersCT05,
author = {Chad L. Myers and
Xing Chen and
Olga G. Troyanskaya},
title = {Visualization-based discovery and analysis of genomic aberrations
in microarray data},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {146},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-146},
doi = {10.1186/1471-2105-6-146},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/MyersCT05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cga/WallaceABCCCCFFGHLLSST05,
author = {Grant Wallace and
Otto J. Anshus and
Peng Bi and
Han Chen and
Yuqun Chen and
Douglas W. Clark and
Perry R. Cook and
Adam Finkelstein and
Thomas A. Funkhouser and
Anoop Gupta and
Matthew A. Hibbs and
Kai Li and
Zhiyan Liu and
Rudrajit Samanta and
Rahul Sukthankar and
Olga G. Troyanskaya},
title = {Tools and Applications for Large-Scale Display Walls},
journal = {{IEEE} Computer Graphics and Applications},
volume = {25},
number = {4},
pages = {24--33},
year = {2005},
url = {https://doi.org/10.1109/MCG.2005.89},
doi = {10.1109/MCG.2005.89},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/cga/WallaceABCCCCFFGHLLSST05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csb/HuttenhowerT05,
author = {Curtis Huttenhower and
Olga G. Troyanskaya},
title = {A General Methodology for Integration of Microarray Data},
booktitle = {Fourth International {IEEE} Computer Society Computational Systems
Bioinformatics Conference Workshops {\&} Poster Abstracts, {CSB}
2005 Workshops, Stanford, CA, USA, August 8-11, 2005},
pages = {109},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/CSBW.2005.8},
doi = {10.1109/CSBW.2005.8},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/csb/HuttenhowerT05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ipps/LiHWT05,
author = {Kai Li and
Matthew A. Hibbs and
Grant Wallace and
Olga G. Troyanskaya},
title = {Dynamic Scalable Visualization for Collaborative Scientific Applications},
booktitle = {19th International Parallel and Distributed Processing Symposium {(IPDPS}
2005), {CD-ROM} / Abstracts Proceedings, 4-8 April 2005, Denver, CO,
{USA}},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/IPDPS.2005.183},
doi = {10.1109/IPDPS.2005.183},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ipps/LiHWT05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:books/wi/05/Troyanskaya05,
author = {Olga G. Troyanskaya},
editor = {Francisco Azuaje and
Joaqu{\'{\i}}n Dopazo},
title = {Unsupervised Machine Learning to Support Functional Characterization
of Genes: Emphasis on Cluster Description and Class Discovery},
booktitle = {Data Analysis and Visualization in Genomics and Proteomics},
pages = {175--192},
publisher = {Wiley},
year = {2005},
url = {https://doi.org/10.1002/0470094419.ch11},
doi = {10.1002/0470094419.CH11},
timestamp = {Thu, 25 Jun 2020 14:30:22 +0200},
biburl = {https://dblp.org/rec/books/wi/05/Troyanskaya05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MyersDKT04,
author = {Chad L. Myers and
Maitreya J. Dunham and
Sun{-}Yuan Kung and
Olga G. Troyanskaya},
title = {Accurate detection of aneuploidies in array {CGH} and gene expression
microarray data},
journal = {Bioinform.},
volume = {20},
number = {18},
pages = {3533--3543},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/bth440},
doi = {10.1093/BIOINFORMATICS/BTH440},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MyersDKT04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/spm/LiangTLBA04,
author = {Mike P. Liang and
Olga G. Troyanskaya and
Alain Laederach and
Douglas L. Brutlag and
Russ B. Altman},
title = {Computational functional genomics},
journal = {{IEEE} Signal Process. Mag.},
volume = {21},
number = {6},
pages = {62--69},
year = {2004},
url = {https://doi.org/10.1109/MSP.2004.1359143},
doi = {10.1109/MSP.2004.1359143},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/spm/LiangTLBA04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TroyanskayaAKLB02,
author = {Olga G. Troyanskaya and
Ora Arbell and
Yair Koren and
Gad M. Landau and
Alexander Bolshoy},
title = {Sequence complexity profiles of prokaryotic genomic sequences: {A}
fast algorithm for calculating linguistic complexity},
journal = {Bioinform.},
volume = {18},
number = {5},
pages = {679--688},
year = {2002},
url = {https://doi.org/10.1093/bioinformatics/18.5.679},
doi = {10.1093/BIOINFORMATICS/18.5.679},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/TroyanskayaAKLB02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TroyanskayaGBBA02,
author = {Olga G. Troyanskaya and
Mitchell E. Garber and
Patrick O. Brown and
David Botstein and
Russ B. Altman},
title = {Nonparametric methods for identifying differentially expressed genes
in microarray data},
journal = {Bioinform.},
volume = {18},
number = {11},
pages = {1454--1461},
year = {2002},
url = {https://doi.org/10.1093/bioinformatics/18.11.1454},
doi = {10.1093/BIOINFORMATICS/18.11.1454},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/TroyanskayaGBBA02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TroyanskayaCSBHTBA01,
author = {Olga G. Troyanskaya and
Michael N. Cantor and
Gavin Sherlock and
Patrick O. Brown and
Trevor Hastie and
Robert Tibshirani and
David Botstein and
Russ B. Altman},
title = {Missing value estimation methods for {DNA} microarrays},
journal = {Bioinform.},
volume = {17},
number = {6},
pages = {520--525},
year = {2001},
url = {https://doi.org/10.1093/bioinformatics/17.6.520},
doi = {10.1093/BIOINFORMATICS/17.6.520},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/TroyanskayaCSBHTBA01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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