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ORCIDBibTeX records: Quaid Morris
@article{DBLP:journals/jamia/ShiZM22,
author = {Ruian Shi and
Haoran Zhang and
Quaid Morris},
title = {PAN-cODE: {COVID-19} forecasting using conditional latent ODEs},
journal = {J. Am. Medical Informatics Assoc.},
volume = {29},
number = {12},
pages = {2089--2095},
year = {2022},
url = {https://doi.org/10.1093/jamia/ocac160},
doi = {10.1093/JAMIA/OCAC160},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jamia/ShiZM22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/TimmonsMH22,
author = {Caitlin Timmons and
Quaid Morris and
Caitlin F. Harrigan},
title = {Regional mutational signature activities in cancer genomes},
journal = {PLoS Comput. Biol.},
volume = {18},
number = {12},
pages = {1010733},
year = {2022},
url = {https://doi.org/10.1371/journal.pcbi.1010733},
doi = {10.1371/JOURNAL.PCBI.1010733},
timestamp = {Wed, 17 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/TimmonsMH22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/ElbasirYSWHLMZS22,
author = {Abdurrahman Elbasir and
Ying Ye and
Daniel E. Sch{\"{a}}ffer and
Jayamanna Wickramasinghe and
Xue Hao and
Paul M. Lieberman and
Quaid Morris and
Rugang Zhang and
Alejandro A. Sch{\"{a}}ffer and
Noam Auslander},
editor = {Donald A. Adjeroh and
Qi Long and
Xinghua Mindy Shi and
Fei Guo and
Xiaohua Hu and
Srinivas Aluru and
Giri Narasimhan and
Jianxin Wang and
Mingon Kang and
Ananda Mondal and
Jin Liu},
title = {Characterizing The Landscape Of Viral Expression In Cancer By Deep
Learning},
booktitle = {{IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2022, Las Vegas, NV, USA, December 6-8, 2022},
pages = {3801--3803},
publisher = {{IEEE}},
year = {2022},
url = {https://doi.org/10.1109/BIBM55620.2022.9994939},
doi = {10.1109/BIBM55620.2022.9994939},
timestamp = {Thu, 12 Jan 2023 09:26:28 +0100},
biburl = {https://dblp.org/rec/conf/bibm/ElbasirYSWHLMZS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/SundermannWRSM21,
author = {Linda K. Sundermann and
Jeff Wintersinger and
Gunnar R{\"{a}}tsch and
Jens Stoye and
Quaid Morris},
title = {Reconstructing tumor evolutionary histories and clone trees in polynomial-time
with SubMARine},
journal = {PLoS Comput. Biol.},
volume = {17},
number = {1},
year = {2021},
url = {https://doi.org/10.1371/journal.pcbi.1008400},
doi = {10.1371/JOURNAL.PCBI.1008400},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/SundermannWRSM21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/chil/ZhangDSMJG21,
author = {Haoran Zhang and
Natalie Dullerud and
Laleh Seyyed{-}Kalantari and
Quaid Morris and
Shalmali Joshi and
Marzyeh Ghassemi},
editor = {Marzyeh Ghassemi and
Tristan Naumann and
Emma Pierson},
title = {An empirical framework for domain generalization in clinical settings},
booktitle = {{ACM} {CHIL} '21: {ACM} Conference on Health, Inference, and Learning,
Virtual Event, USA, April 8-9, 2021},
pages = {279--290},
publisher = {{ACM}},
year = {2021},
url = {https://doi.org/10.1145/3450439.3451878},
doi = {10.1145/3450439.3451878},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/chil/ZhangDSMJG21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icml/ShiM21,
author = {Ruian Shi and
Quaid Morris},
editor = {Marina Meila and
Tong Zhang},
title = {Segmenting Hybrid Trajectories using Latent ODEs},
booktitle = {Proceedings of the 38th International Conference on Machine Learning,
{ICML} 2021, 18-24 July 2021, Virtual Event},
series = {Proceedings of Machine Learning Research},
volume = {139},
pages = {9569--9579},
publisher = {{PMLR}},
year = {2021},
url = {http://proceedings.mlr.press/v139/shi21c.html},
timestamp = {Wed, 25 Aug 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/icml/ShiM21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nips/ZhangMUG21,
author = {Haoran Zhang and
Quaid Morris and
Berk Ustun and
Marzyeh Ghassemi},
editor = {Marc'Aurelio Ranzato and
Alina Beygelzimer and
Yann N. Dauphin and
Percy Liang and
Jennifer Wortman Vaughan},
title = {Learning Optimal Predictive Checklists},
booktitle = {Advances in Neural Information Processing Systems 34: Annual Conference
on Neural Information Processing Systems 2021, NeurIPS 2021, December
6-14, 2021, virtual},
pages = {1215--1229},
year = {2021},
url = {https://proceedings.neurips.cc/paper/2021/hash/09676fac73eda6cac726c43e43e86c58-Abstract.html},
timestamp = {Tue, 03 May 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/nips/ZhangMUG21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2103-11163,
author = {Haoran Zhang and
Natalie Dullerud and
Laleh Seyyed{-}Kalantari and
Quaid Morris and
Shalmali Joshi and
Marzyeh Ghassemi},
title = {An Empirical Framework for Domain Generalization in Clinical Settings},
journal = {CoRR},
volume = {abs/2103.11163},
year = {2021},
url = {https://arxiv.org/abs/2103.11163},
eprinttype = {arXiv},
eprint = {2103.11163},
timestamp = {Wed, 24 Mar 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2103-11163.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2105-03835,
author = {Ruian Shi and
Quaid Morris},
title = {Segmenting Hybrid Trajectories using Latent ODEs},
journal = {CoRR},
volume = {abs/2105.03835},
year = {2021},
url = {https://arxiv.org/abs/2105.03835},
eprinttype = {arXiv},
eprint = {2105.03835},
timestamp = {Fri, 14 May 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2105-03835.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2112-01020,
author = {Haoran Zhang and
Quaid Morris and
Berk Ustun and
Marzyeh Ghassemi},
title = {Learning Optimal Predictive Checklists},
journal = {CoRR},
volume = {abs/2112.01020},
year = {2021},
url = {https://arxiv.org/abs/2112.01020},
eprinttype = {arXiv},
eprint = {2112.01020},
timestamp = {Tue, 07 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2112-01020.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nature/GerstungJLDGRMR20,
author = {Moritz Gerstung and
Clemency Jolly and
Ignaty Leshchiner and
Stefan C. Dentro and
Santiago Gonzalez and
Thomas J. Mitchell and
Yulia Rubanova and
Pavana Anur and
Kaixian Yu and
Maxime Tarabichi and
Amit G. Deshwar and
Jeff Wintersinger and
Kortine Kleinheinz and
Ignacio V{\'{a}}zquez{-}Garc{\'{\i}}a and
Kerstin Haase and
Lara Jerman and
Subhajit Sengupta and
Geoff MacIntyre and
Salem Malikic and
Nilgun Donmez and
Dimitri G. Livitz and
Marek Cmero and
Jonas Demeulemeester and
Steven E. Schumacher and
Yu Fan and
Xiaotong Yao and
Juhee Lee and
Matthias Schlesner and
Paul C. Boutros and
David D. L. Bowtell and
Hongtu Zhu and
Gad Getz and
Marcin Imielinski and
Rameen Beroukhim and
S{\"{u}}leyman Cenk Sahinalp and
Yuan Ji and
Martin Peifer and
Florian Markowetz and
Ville Mustonen and
Ke Yuan and
Wenyi Wang and
Quaid D. Morris and
David J. Adams and
Peter J. Campbell and
Shaolong Cao and
Elizabeth L. Christie and
Yupeng Cun and
Kevin J. Dawson and
Ruben M. Drews and
Roland Eils and
Matthew Fittall and
Dale W. Garsed and
Gavin Ha and
Henry Lee{-}Six and
I{\~{n}}igo Martincorena and
Layla Oesper and
Myron Peto and
Benjamin J. Raphael and
Daniel T. Rosebrock and
Adriana Salcedo and
Ruian Shi and
Seung Jun Shin and
Oliver Spiro and
Lincoln D. Stein and
Shankar Vembu and
David A. Wheeler and
Tsun{-}Po Yang and
Paul T. Spellman and
David C. Wedge and
Peter Van Loo},
title = {The evolutionary history of 2,658 cancers},
journal = {Nat.},
volume = {578},
number = {7793},
pages = {122--128},
year = {2020},
url = {https://doi.org/10.1038/s41586-019-1907-7},
doi = {10.1038/S41586-019-1907-7},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nature/GerstungJLDGRMR20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iclr/AhmadiHMLM20,
author = {Amir Hosein Khas Ahmadi and
Kaveh Hassani and
Parsa Moradi and
Leo Lee and
Quaid Morris},
title = {Memory-Based Graph Networks},
booktitle = {8th International Conference on Learning Representations, {ICLR} 2020,
Addis Ababa, Ethiopia, April 26-30, 2020},
publisher = {OpenReview.net},
year = {2020},
url = {https://openreview.net/forum?id=r1laNeBYPB},
timestamp = {Thu, 07 May 2020 17:11:47 +0200},
biburl = {https://dblp.org/rec/conf/iclr/AhmadiHMLM20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/ZhangCWDJWM20,
author = {Haoran Zhang and
Elisa Candido and
Andrew S. Wilton and
Raquel Duchen and
Liisa Jaakkimainen and
Walter P. Wodchis and
Quaid Morris},
title = {Identifying Transitional High Cost Users from Unstructured Patient
Profiles Written by Primary CarePhysicians},
booktitle = {Pacific Symposium on Biocomputing 2020, Fairmont Orchid, Hawaii, USA,
January 3-7, 2020},
pages = {127--138},
year = {2020},
url = {https://psb.stanford.edu/psb-online/proceedings/psb20/Zhang.pdf},
timestamp = {Fri, 13 Aug 2021 16:31:26 +0200},
biburl = {https://dblp.org/rec/conf/psb/ZhangCWDJWM20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/HarriganRMS20,
author = {Caitlin F. Harrigan and
Yulia Rubanova and
Quaid Morris and
Alina Selega},
title = {TrackSigFreq: Subclonal Reconstructions Based on Mutation Signatures
and Allele Frequencies},
booktitle = {Pacific Symposium on Biocomputing 2020, Fairmont Orchid, Hawaii, USA,
January 3-7, 2020},
pages = {238--249},
year = {2020},
url = {https://psb.stanford.edu/psb-online/proceedings/psb20/Harrigan.pdf},
timestamp = {Fri, 13 Aug 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/psb/HarriganRMS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/YoungCPMA20,
author = {Adamo Young and
Jacob Chmura and
Yoon{-}Sik Park and
Quaid Morris and
Gurnit Atwal},
title = {Genome Gerrymandering: Optimal Division of the Genome into Regions
with Cancer Type SpecificDifferences in Mutation Rates},
booktitle = {Pacific Symposium on Biocomputing 2020, Fairmont Orchid, Hawaii, USA,
January 3-7, 2020},
pages = {274--285},
year = {2020},
url = {https://psb.stanford.edu/psb-online/proceedings/psb20/Young.pdf},
timestamp = {Fri, 13 Aug 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/psb/YoungCPMA20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2002-09518,
author = {Amir Hosein Khas Ahmadi and
Kaveh Hassani and
Parsa Moradi and
Leo Lee and
Quaid Morris},
title = {Memory-Based Graph Networks},
journal = {CoRR},
volume = {abs/2002.09518},
year = {2020},
url = {https://arxiv.org/abs/2002.09518},
eprinttype = {arXiv},
eprint = {2002.09518},
timestamp = {Sat, 23 Jan 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2002-09518.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/FranzRLZMBM18,
author = {Max Franz and
Harold Rodriguez and
Christian Tannus Lopes and
Khalid Zuberi and
Jason Montojo and
Gary D. Bader and
Quaid Morris},
title = {GeneMANIA update 2018},
journal = {Nucleic Acids Res.},
volume = {46},
number = {Webserver-Issue},
pages = {W60--W64},
year = {2018},
url = {https://doi.org/10.1093/nar/gky311},
doi = {10.1093/NAR/GKY311},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/FranzRLZMBM18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iclr/RubanovaSLWDSM18,
author = {Yulia Rubanova and
Ruian Shi and
Roujia Li and
Jeff Wintersinger and
Amit G. Deshwar and
Nil Sahin and
Quaid Morris},
title = {Reconstructing evolutionary trajectories of mutations in cancer},
booktitle = {6th International Conference on Learning Representations, {ICLR} 2018,
Vancouver, BC, Canada, April 30 - May 3, 2018, Workshop Track Proceedings},
publisher = {OpenReview.net},
year = {2018},
url = {https://openreview.net/forum?id=Hkjg7N1Pz},
timestamp = {Thu, 04 Apr 2019 13:20:09 +0200},
biburl = {https://dblp.org/rec/conf/iclr/RubanovaSLWDSM18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iclr/CremerMD17,
author = {Chris Cremer and
Quaid Morris and
David Duvenaud},
title = {Reinterpreting Importance-Weighted Autoencoders},
booktitle = {5th International Conference on Learning Representations, {ICLR} 2017,
Toulon, France, April 24-26, 2017, Workshop Track Proceedings},
publisher = {OpenReview.net},
year = {2017},
url = {https://openreview.net/forum?id=Syw2ZgrFx},
timestamp = {Thu, 04 Apr 2019 13:20:08 +0200},
biburl = {https://dblp.org/rec/conf/iclr/CremerMD17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/DobbsBHJLM16,
author = {Drena Dobbs and
Steven E. Brenner and
Vasant G. Honavar and
Robert L. Jernigan and
Alain Laederach and
Quaid Morris},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Teri E. Klein and
Marylyn D. Ritchie},
title = {Session Introduction},
booktitle = {Biocomputing 2016: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 4-8, 2016},
pages = {429--432},
year = {2016},
url = {http://psb.stanford.edu/psb-online/proceedings/psb16/intro-rna.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/DobbsBHJLM16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/VlasblomZRAGDKLRSCPGGHEMBB15,
author = {James Vlasblom and
Khalid Zuberi and
Harold Rodriguez and
Roland Arnold and
Alla Gagarinova and
Viktor Deineko and
Ashwani Kumar and
Elisa Leung and
Kamran Rizzolo and
Bahram Samanfar and
Luke Chang and
Sadhna Phanse and
Ashkan Golshani and
Jack Greenblatt and
Walid A. Houry and
Andrew Emili and
Quaid Morris and
Gary D. Bader and
Mohan Babu},
title = {Novel function discovery with GeneMANIA: a new integrated resource
for gene function prediction in \emph{Escherichia coli}},
journal = {Bioinform.},
volume = {31},
number = {3},
pages = {306--310},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu671},
doi = {10.1093/BIOINFORMATICS/BTU671},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/VlasblomZRAGDKLRSCPGGHEMBB15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AnghelQHNDMB15,
author = {Catalina V. Anghel and
Gerald T. Quon and
Syed Haider and
Francis Nguyen and
Amit G. Deshwar and
Quaid Morris and
Paul C. Boutros},
title = {ISOpureR: an {R} implementation of a computational purification algorithm
of mixed tumour profiles},
journal = {{BMC} Bioinform.},
volume = {16},
pages = {156:1--156:11},
year = {2015},
url = {https://doi.org/10.1186/s12859-015-0597-x},
doi = {10.1186/S12859-015-0597-X},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/AnghelQHNDMB15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/DeshwarVM15,
author = {Amit G. Deshwar and
Shankar Vembu and
Quaid Morris},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Teri E. Klein and
Marylyn D. Ritchie},
title = {Comparing Nonparametric Bayesian Tree Priors for Clonal Reconstruction
of Tumors},
booktitle = {Biocomputing 2015: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 4-8, 2015},
pages = {20--31},
year = {2015},
url = {http://psb.stanford.edu/psb-online/proceedings/psb15/deshwar.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/DeshwarVM15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/DeshwarM14,
author = {Amit G. Deshwar and
Quaid Morris},
title = {{PLIDA:} cross-platform gene expression normalization using perturbed
topic models},
journal = {Bioinform.},
volume = {30},
number = {7},
pages = {956--961},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btt574},
doi = {10.1093/BIOINFORMATICS/BTT574},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/DeshwarM14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/JiaoVDSM14,
author = {Wei Jiao and
Shankar Vembu and
Amit G. Deshwar and
Lincoln Stein and
Quaid Morris},
title = {Inferring clonal evolution of tumors from single nucleotide somatic
mutations},
journal = {{BMC} Bioinform.},
volume = {15},
pages = {35},
year = {2014},
url = {https://doi.org/10.1186/1471-2105-15-35},
doi = {10.1186/1471-2105-15-35},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/JiaoVDSM14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/ListgartenSMBP14,
author = {Jennifer Listgarten and
Oliver Stegle and
Quaid Morris and
Steven E. Brenner and
Leopold Parts},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Teri E. Klein and
Marylyn D. Ritchie},
title = {Session introduction},
booktitle = {Biocomputing 2014: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 3-7, 2014},
pages = {247--249},
year = {2014},
url = {http://psb.stanford.edu/psb-online/proceedings/psb14/intro-pm.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/ListgartenSMBP14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/VembuM14,
author = {Shankar Vembu and
Quaid Morris},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Teri E. Klein and
Marylyn D. Ritchie},
title = {An Efficient Algorithm to Integrate Network and Attribute Data for
Gene Function Prediction},
booktitle = {Biocomputing 2014: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 3-7, 2014},
pages = {388--399},
year = {2014},
url = {http://psb.stanford.edu/psb-online/proceedings/psb14/vembu.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/VembuM14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/DeshwarVYJSM14,
author = {Amit G. Deshwar and
Shankar Vembu and
Christina K. Yung and
Gun Ho Jang and
Lincoln Stein and
Quaid Morris},
title = {Reconstructing subclonal composition and evolution from whole genome
sequencing of tumors},
journal = {CoRR},
volume = {abs/1406.7250},
year = {2014},
url = {http://arxiv.org/abs/1406.7250},
eprinttype = {arXiv},
eprint = {1406.7250},
timestamp = {Mon, 13 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/DeshwarVYJSM14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/DeshwarVM14,
author = {Amit G. Deshwar and
Shankar Vembu and
Quaid Morris},
title = {Comparing Nonparametric Bayesian Tree Priors for Clonal Reconstruction
of Tumors},
journal = {CoRR},
volume = {abs/1408.2552},
year = {2014},
url = {http://arxiv.org/abs/1408.2552},
eprinttype = {arXiv},
eprint = {1408.2552},
timestamp = {Mon, 13 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/DeshwarVM14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ZuberiFRMLBM13,
author = {Khalid Zuberi and
Max Franz and
Harold Rodriguez and
Jason Montojo and
Christian Tannus Lopes and
Gary D. Bader and
Quaid Morris},
title = {GeneMANIA Prediction Server 2013 Update},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Webserver-Issue},
pages = {115--122},
year = {2013},
url = {https://doi.org/10.1093/nar/gkt533},
doi = {10.1093/NAR/GKT533},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/ZuberiFRMLBM13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/KazanM13,
author = {Hilal Kazan and
Quaid Morris},
title = {RBPmotif: a web server for the discovery of sequence and structure
preferences of RNA-binding proteins},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Webserver-Issue},
pages = {180--186},
year = {2013},
url = {https://doi.org/10.1093/nar/gkt463},
doi = {10.1093/NAR/GKT463},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/KazanM13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nature/RayKCWNLGAZYNIM13,
author = {Debashish Ray and
Hilal Kazan and
Kate B. Cook and
Matthew T. Weirauch and
Hamed S. Najafabadi and
Xiao Li and
Serge Gueroussov and
Mihai Albu and
Hong Zheng and
Ally Yang and
Hong Na and
Manuel Irimia and
Leah H. Matzat and
Ryan K. Dale and
Sarah A. Smith and
Christopher A. Yarosh and
Seth M. Kelly and
Behnam Nabet and
Desirea Mecenas and
Weimin Li and
Rakesh S. Laishram and
Mei Qiao and
Howard D. Lipshitz and
Fabio Piano and
Anita H. Corbett and
Russ P. Carstens and
Brendan J. Frey and
Richard A. Anderson and
Kristen W. Lynch and
Luiz O. F. Penalva and
Elissa P. Lei and
Andrew G. Fraser and
Benjamin J. Blencowe and
Quaid Morris and
Timothy R. Hughes},
title = {A compendium of RNA-binding motifs for decoding gene regulation},
journal = {Nat.},
volume = {499},
number = {7457},
pages = {172--177},
year = {2013},
url = {https://doi.org/10.1038/nature12311},
doi = {10.1038/NATURE12311},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nature/RayKCWNLGAZYNIM13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/StegleBML13,
author = {Oliver Stegle and
Steven E. Brenner and
Quaid Morris and
Jennifer Listgarten},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Session introduction},
booktitle = {Biocomputing 2013: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 3-7, 2013},
pages = {171--174},
publisher = {World Scientific Publishing},
year = {2013},
url = {http://psb.stanford.edu/psb-online/proceedings/psb13/intro-pm.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/StegleBML13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/MorrisBLS13,
author = {Quaid Morris and
Steven E. Brenner and
Jennifer Listgarten and
Oliver Stegle},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {The Future of Genome-Based Medicine},
booktitle = {Biocomputing 2013: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 3-7, 2013},
pages = {456--458},
publisher = {World Scientific Publishing},
year = {2013},
url = {http://psb.stanford.edu/psb-online/proceedings/psb13/wkshp-pm.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/MorrisBLS13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1301-2295,
author = {Quaid Morris},
title = {Recognition Networks for Approximate Inference in {BN20} Networks},
journal = {CoRR},
volume = {abs/1301.2295},
year = {2013},
url = {http://arxiv.org/abs/1301.2295},
eprinttype = {arXiv},
eprint = {1301.2295},
timestamp = {Mon, 13 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1301-2295.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AlshalalfaBGMA12,
author = {Mohammed Alshalalfa and
Gary D. Bader and
Anna Goldenberg and
Quaid Morris and
Reda Alhajj},
title = {Detecting microRNAs of high influence on protein functional interaction
networks: a prostate cancer case study},
journal = {{BMC} Syst. Biol.},
volume = {6},
pages = {112},
year = {2012},
url = {https://doi.org/10.1186/1752-0509-6-112},
doi = {10.1186/1752-0509-6-112},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/AlshalalfaBGMA12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/QiaoQCYMZ12,
author = {Wenlian Qiao and
Gerald T. Quon and
Elizabeth Csaszar and
Mei Yu and
Quaid Morris and
Peter W. Zandstra},
title = {{PERT:} {A} Method for Expression Deconvolution of Human Blood Samples
from Varied Microenvironmental and Developmental Conditions},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {12},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002838},
doi = {10.1371/JOURNAL.PCBI.1002838},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/QiaoQCYMZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/StegleRML12,
author = {Oliver Stegle and
Frederick P. Roth and
Quaid Morris and
Jennifer Listgarten},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Session introduction},
booktitle = {Biocomputing 2012: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 3-7, 2012},
pages = {323--326},
publisher = {World Scientific Publishing},
year = {2012},
url = {http://psb.stanford.edu/psb-online/proceedings/psb12/intro-pm.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/StegleRML12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/Warde-FarleyBMG12,
author = {David Warde{-}Farley and
Michael Brudno and
Quaid Morris and
Anna Goldenberg},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Mixture Model for Sub-Phenotyping in {GWAS}},
booktitle = {Biocomputing 2012: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 3-7, 2012},
pages = {363--374},
publisher = {World Scientific Publishing},
year = {2012},
url = {http://psb.stanford.edu/psb-online/proceedings/psb12/warde-farley.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/Warde-FarleyBMG12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1205-2622,
author = {Sara Mostafavi and
Quaid Morris},
title = {Using the Gene Ontology Hierarchy when Predicting Gene Function},
journal = {CoRR},
volume = {abs/1205.2622},
year = {2012},
url = {http://arxiv.org/abs/1205.2622},
eprinttype = {arXiv},
eprint = {1205.2622},
timestamp = {Mon, 13 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1205-2622.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1210-3384,
author = {Wei Jiao and
Shankar Vembu and
Amit G. Deshwar and
Lincoln Stein and
Quaid Morris},
title = {Modeling the Clonal Evolution of Cancer from Next Generation Sequencing
Data},
journal = {CoRR},
volume = {abs/1210.3384},
year = {2012},
url = {http://arxiv.org/abs/1210.3384},
eprinttype = {arXiv},
eprint = {1210.3384},
timestamp = {Mon, 13 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1210-3384.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GoldenbergMQBM11,
author = {Anna Goldenberg and
Sara Mostafavi and
Gerald T. Quon and
Paul C. Boutros and
Quaid Morris},
title = {Unsupervised detection of genes of influence in lung cancer using
biological networks},
journal = {Bioinform.},
volume = {27},
number = {22},
pages = {3166--3172},
year = {2011},
url = {https://doi.org/10.1093/bioinformatics/btr533},
doi = {10.1093/BIOINFORMATICS/BTR533},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/GoldenbergMQBM11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/DeshwarQM11,
author = {Amit G. Deshwar and
Gerald T. Quon and
Quaid Morris},
title = {Computational purification of tumor gene expression data},
journal = {{BMC} Bioinform.},
volume = {12},
number = {{S-11}},
pages = {A9},
year = {2011},
url = {https://doi.org/10.1186/1471-2105-12-S11-A9},
doi = {10.1186/1471-2105-12-S11-A9},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/DeshwarQM11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/CookKZMH11,
author = {Kate B. Cook and
Hilal Kazan and
Khalid Zuberi and
Quaid Morris and
Timothy R. Hughes},
title = {{RBPDB:} a database of RNA-binding specificities},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Database-Issue},
pages = {301--308},
year = {2011},
url = {https://doi.org/10.1093/nar/gkq1069},
doi = {10.1093/NAR/GKQ1069},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/CookKZMH11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MostafaviM10,
author = {Sara Mostafavi and
Quaid Morris},
title = {Fast integration of heterogeneous data sources for predicting gene
function with limited annotation},
journal = {Bioinform.},
volume = {26},
number = {14},
pages = {1759--1765},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq262},
doi = {10.1093/BIOINFORMATICS/BTQ262},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MostafaviM10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/LopesFKDMB10,
author = {Christian Tannus Lopes and
Max Franz and
Farzana Kazi and
Sylva L. Donaldson and
Quaid Morris and
Gary D. Bader},
title = {Cytoscape Web: an interactive web-based network browser},
journal = {Bioinform.},
volume = {26},
number = {18},
pages = {2347--2348},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq430},
doi = {10.1093/BIOINFORMATICS/BTQ430},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/LopesFKDMB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MontojoZRKWDMB10,
author = {Jason Montojo and
Khalid Zuberi and
Harold Rodriguez and
Farzana Kazi and
George Wright and
Sylva L. Donaldson and
Quaid Morris and
Gary D. Bader},
title = {GeneMANIA Cytoscape plugin: fast gene function predictions on the
desktop},
journal = {Bioinform.},
volume = {26},
number = {22},
pages = {2927--2928},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq562},
doi = {10.1093/BIOINFORMATICS/BTQ562},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MontojoZRKWDMB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Warde-FarleyDCZBCFGKLMMMSWBM10,
author = {David Warde{-}Farley and
Sylva L. Donaldson and
Ovi Comes and
Khalid Zuberi and
Rashad Badrawi and
Pauline Chao and
Max Franz and
Chris Grouios and
Farzana Kazi and
Christian Tannus Lopes and
Anson Maitland and
Sara Mostafavi and
Jason Montojo and
Quentin Shao and
George Wright and
Gary D. Bader and
Quaid Morris},
title = {The GeneMANIA prediction server: biological network integration for
gene prioritization and predicting gene function},
journal = {Nucleic Acids Res.},
volume = {38},
number = {Web-Server-Issue},
pages = {214--220},
year = {2010},
url = {https://doi.org/10.1093/nar/gkq537},
doi = {10.1093/NAR/GKQ537},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/Warde-FarleyDCZBCFGKLMMMSWBM10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/KazanRCHM10,
author = {Hilal Kazan and
Debashish Ray and
Esther T. Chan and
Timothy R. Hughes and
Quaid Morris},
title = {RNAcontext: {A} New Method for Learning the Sequence and Structure
Binding Preferences of RNA-Binding Proteins},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {7},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000832},
doi = {10.1371/JOURNAL.PCBI.1000832},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/KazanRCHM10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/AlleyneCBTBGPBMH09,
author = {Trevis M. Alleyne and
Lourdes Pe{\~{n}}a Castillo and
Gwenael Badis and
Shaheynoor Talukder and
Michael F. Berger and
Andrew R. Gehrke and
Anthony A. Philippakis and
Martha L. Bulyk and
Quaid Morris and
Timothy R. Hughes},
title = {Predicting the binding preference of transcription factors to individual
{DNA} \emph{k}-mers},
journal = {Bioinform.},
volume = {25},
number = {8},
pages = {1012--1018},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btn645},
doi = {10.1093/BIOINFORMATICS/BTN645},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/AlleyneCBTBGPBMH09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/QuonM09,
author = {Gerald T. Quon and
Quaid Morris},
title = {{ISOLATE:} a computational strategy for identifying the primary origin
of cancers using high-throughput sequencing},
journal = {Bioinform.},
volume = {25},
number = {21},
pages = {2882--2889},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btp378},
doi = {10.1093/BIOINFORMATICS/BTP378},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/QuonM09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/BlencoweBHM09,
author = {Benjamin J. Blencowe and
Steven E. Brenner and
Timothy R. Hughes and
Quaid Morris},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Post-Transcriptional Gene Regulation: RNA-Protein Interactions, {RNA}
Processing, mRNA Stability and Localization},
booktitle = {Biocomputing 2009: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, 5-9 January 2009},
pages = {545--548},
year = {2009},
url = {http://psb.stanford.edu/psb-online/proceedings/psb09/workshop-post.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/BlencoweBHM09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/uai/MostafaviM09,
author = {Sara Mostafavi and
Quaid Morris},
editor = {Jeff A. Bilmes and
Andrew Y. Ng},
title = {Using the Gene Ontology Hierarchy when Predicting Gene Function},
booktitle = {{UAI} 2009, Proceedings of the Twenty-Fifth Conference on Uncertainty
in Artificial Intelligence, Montreal, QC, Canada, June 18-21, 2009},
pages = {419--427},
publisher = {{AUAI} Press},
year = {2009},
url = {https://www.auai.org/uai2009/papers/UAI2009\_0206\_6f1a169120c8fae1d866e60adc067e42.pdf},
timestamp = {Tue, 25 Oct 2022 12:03:45 +0200},
biburl = {https://dblp.org/rec/conf/uai/MostafaviM09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/AndrewsMB08,
author = {Emad A. M. Andrews and
Quaid Morris and
Anthony J. Bonner},
title = {Neural networks approaches for discovering the learnable correlation
between gene function and gene expression in mouse},
journal = {Neurocomputing},
volume = {71},
number = {16-18},
pages = {3168--3175},
year = {2008},
url = {https://doi.org/10.1016/j.neucom.2008.04.035},
doi = {10.1016/J.NEUCOM.2008.04.035},
timestamp = {Sat, 19 Oct 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/AndrewsMB08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nips/QuonTCHBM08,
author = {Gerald T. Quon and
Yee Whye Teh and
Esther T. Chan and
Timothy R. Hughes and
Michael Brudno and
Quaid Morris},
editor = {Daphne Koller and
Dale Schuurmans and
Yoshua Bengio and
L{\'{e}}on Bottou},
title = {A mixture model for the evolution of gene expression in non-homogeneous
datasets},
booktitle = {Advances in Neural Information Processing Systems 21, Proceedings
of the Twenty-Second Annual Conference on Neural Information Processing
Systems, Vancouver, British Columbia, Canada, December 8-11, 2008},
pages = {1297--1304},
publisher = {Curran Associates, Inc.},
year = {2008},
url = {https://proceedings.neurips.cc/paper/2008/hash/38913e1d6a7b94cb0f55994f679f5956-Abstract.html},
timestamp = {Mon, 16 May 2022 15:41:51 +0200},
biburl = {https://dblp.org/rec/conf/nips/QuonTCHBM08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/HuangFM08,
author = {Jim C. Huang and
Brendan J. Frey and
Quaid Morris},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Comparing Sequence and Expression for Predicting microRNA Targets
Using GenMIR3},
booktitle = {Biocomputing 2008, Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, 4-8 January 2008},
pages = {52--63},
publisher = {World Scientific},
year = {2008},
url = {http://psb.stanford.edu/psb-online/proceedings/psb08/huang.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/HuangFM08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ChechikLNRMT07,
author = {Gal Chechik and
Christina S. Leslie and
William Stafford Noble and
Gunnar R{\"{a}}tsch and
Quaid Morris and
Koji Tsuda},
title = {{NIPS} workshop on New Problems and Methods in Computational Biology},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-10}},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-S10-S1},
doi = {10.1186/1471-2105-8-S10-S1},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ChechikLNRMT07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/HuangMF07,
author = {Jim C. Huang and
Quaid Morris and
Brendan J. Frey},
title = {Bayesian Inference of MicroRNA Targets from Sequence and Expression
Data},
journal = {J. Comput. Biol.},
volume = {14},
number = {5},
pages = {550--563},
year = {2007},
url = {https://doi.org/10.1089/cmb.2007.R002},
doi = {10.1089/CMB.2007.R002},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcb/HuangMF07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/ChenHM07,
author = {Xiaoyu Chen and
Timothy R. Hughes and
Quaid Morris},
title = {RankMotif++: a motif-search algorithm that accounts for relative ranks
of K-mers in binding transcription factors},
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 = {72--79},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btm224},
doi = {10.1093/BIOINFORMATICS/BTM224},
timestamp = {Sat, 19 Oct 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ismb/ChenHM07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ShaiMBF06,
author = {Ofer Shai and
Quaid Morris and
Benjamin J. Blencowe and
Brendan J. Frey},
title = {Inferring global levels of alternative splicing isoforms using a generative
model of microarray data},
journal = {Bioinform.},
volume = {22},
number = {5},
pages = {606--613},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btk028},
doi = {10.1093/BIOINFORMATICS/BTK028},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ShaiMBF06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/FreyMH06,
author = {Brendan J. Frey and
Quaid Morris and
Timothy R. Hughes},
title = {GenRate: {A} Generative Model that Reveals Novel Transcripts in Genome-Tiling
Microarray Data},
journal = {J. Comput. Biol.},
volume = {13},
number = {2},
pages = {200--214},
year = {2006},
url = {https://doi.org/10.1089/cmb.2006.13.200},
doi = {10.1089/CMB.2006.13.200},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcb/FreyMH06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iconip/ShenoudaMB06,
author = {Emad A. M. Andrews Shenouda and
Quaid Morris and
Anthony J. Bonner},
editor = {Irwin King and
Jun Wang and
Laiwan Chan and
DeLiang L. Wang},
title = {Connectionist Approaches for Predicting Mouse Gene Function from Gene
Expression},
booktitle = {Neural Information Processing, 13th International Conference, {ICONIP}
2006, Hong Kong, China, October 3-6, 2006, Proceedings, Part {I}},
series = {Lecture Notes in Computer Science},
volume = {4232},
pages = {280--289},
publisher = {Springer},
year = {2006},
url = {https://doi.org/10.1007/11893028\_32},
doi = {10.1007/11893028\_32},
timestamp = {Tue, 14 May 2019 10:00:42 +0200},
biburl = {https://dblp.org/rec/conf/iconip/ShenoudaMB06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/HuangMF06,
author = {Jim C. Huang and
Quaid Morris and
Brendan J. Frey},
editor = {Alberto Apostolico and
Concettina Guerra and
Sorin Istrail and
Pavel A. Pevzner and
Michael S. Waterman},
title = {Detecting MicroRNA Targets by Linking Sequence, MicroRNA and Gene
Expression Data},
booktitle = {Research in Computational Molecular Biology, 10th Annual International
Conference, {RECOMB} 2006, Venice, Italy, April 2-5, 2006, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {3909},
pages = {114--129},
publisher = {Springer},
year = {2006},
url = {https://doi.org/10.1007/11732990\_11},
doi = {10.1007/11732990\_11},
timestamp = {Mon, 13 May 2019 09:30:09 +0200},
biburl = {https://dblp.org/rec/conf/recomb/HuangMF06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/DueckMF05,
author = {Delbert Dueck and
Quaid Morris and
Brendan J. Frey},
title = {Multi-way clustering of microarray data using probabilistic sparse
matrix factorization},
booktitle = {Proceedings Thirteenth International Conference on Intelligent Systems
for Molecular Biology 2005, Detroit, MI, USA, 25-29 June 2005},
pages = {144--151},
year = {2005},
url = {https://doi.org/10.1093/bioinformatics/bti1041},
doi = {10.1093/BIOINFORMATICS/BTI1041},
timestamp = {Sat, 19 Oct 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ismb/DueckMF05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/HuangMHF05,
author = {Jim C. Huang and
Quaid Morris and
Timothy R. Hughes and
Brendan J. Frey},
title = {GenXHC: a probabilistic generative model for cross-hybridization compensation
in high-density genome-wide microarray data},
booktitle = {Proceedings Thirteenth International Conference on Intelligent Systems
for Molecular Biology 2005, Detroit, MI, USA, 25-29 June 2005},
pages = {222--231},
year = {2005},
url = {https://doi.org/10.1093/bioinformatics/bti1045},
doi = {10.1093/BIOINFORMATICS/BTI1045},
timestamp = {Sat, 19 Oct 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ismb/HuangMHF05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/FreyMZMH05,
author = {Brendan J. Frey and
Quaid Morris and
Wen Zhang and
Naveed Mohammad and
Timothy R. Hughes},
editor = {Russ B. Altman and
Tiffany A. Jung and
Teri E. Klein and
A. Keith Dunker and
Lawrence Hunter},
title = {GenRate: {A} Generative Model That Finds and Scores New Genes and
Exons in Genomic Microarray Data},
booktitle = {Biocomputing 2005, Proceedings of the Pacific Symposium, Hawaii, USA,
4-8 January 2005},
publisher = {World Scientific},
year = {2005},
url = {http://psb.stanford.edu/psb-online/proceedings/psb05/frey.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/FreyMZMH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/FreyMRH05,
author = {Brendan J. Frey and
Quaid Morris and
Mark D. Robinson and
Timothy R. Hughes},
editor = {Satoru Miyano and
Jill P. Mesirov and
Simon Kasif and
Sorin Istrail and
Pavel A. Pevzner and
Michael S. Waterman},
title = {Finding Novel Transcripts in High-Resolution Genome-Wide Microarray
Data Using the GenRate Model},
booktitle = {Research in Computational Molecular Biology, 9th Annual International
Conference, {RECOMB} 2005, Cambridge, MA, USA, May 14-18, 2005, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {3500},
pages = {66--82},
publisher = {Springer},
year = {2005},
url = {https://doi.org/10.1007/11415770\_5},
doi = {10.1007/11415770\_5},
timestamp = {Mon, 13 May 2019 09:30:09 +0200},
biburl = {https://dblp.org/rec/conf/recomb/FreyMRH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nips/ShaiFMPMB04,
author = {Ofer Shai and
Brendan J. Frey and
Quaid Morris and
Qun Pan and
Christine Misquitta and
Benjamin J. Blencowe},
title = {Probabilistic Inference of Alternative Splicing Events in Microarray
Data},
booktitle = {Advances in Neural Information Processing Systems 17 [Neural Information
Processing Systems, {NIPS} 2004, December 13-18, 2004, Vancouver,
British Columbia, Canada]},
pages = {1241--1248},
year = {2004},
url = {https://proceedings.neurips.cc/paper/2004/hash/94aef38441efa3380a3bed3faf1f9d5d-Abstract.html},
timestamp = {Mon, 16 May 2022 15:41:51 +0200},
biburl = {https://dblp.org/rec/conf/nips/ShaiFMPMB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nips/MorrisF03,
author = {Quaid Morris and
Brendan J. Frey},
editor = {Sebastian Thrun and
Lawrence K. Saul and
Bernhard Sch{\"{o}}lkopf},
title = {Denoising and Untangling Graphs Using Degree Priors},
booktitle = {Advances in Neural Information Processing Systems 16 [Neural Information
Processing Systems, {NIPS} 2003, December 8-13, 2003, Vancouver and
Whistler, British Columbia, Canada]},
pages = {385--392},
publisher = {{MIT} Press},
year = {2003},
url = {https://proceedings.neurips.cc/paper/2003/hash/d254c8a084d4545bd80577481aa03076-Abstract.html},
timestamp = {Mon, 16 May 2022 15:41:51 +0200},
biburl = {https://dblp.org/rec/conf/nips/MorrisF03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/uai/Morris01,
author = {Quaid Morris},
editor = {Jack S. Breese and
Daphne Koller},
title = {Recognition Networks for Approximate Inference in {BN20} Networks},
booktitle = {{UAI} '01: Proceedings of the 17th Conference in Uncertainty in Artificial
Intelligence, University of Washington, Seattle, Washington, USA,
August 2-5, 2001},
pages = {370--377},
publisher = {Morgan Kaufmann},
year = {2001},
url = {https://dslpitt.org/uai/displayArticleDetails.jsp?mmnu=1\&\#38;smnu=2\&\#38;article\_id=121\&\#38;proceeding\_id=17},
timestamp = {Wed, 03 Feb 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/uai/Morris01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/eccv/SiskindM96,
author = {Jeffrey Mark Siskind and
Quaid Morris},
editor = {Bernard F. Buxton and
Roberto Cipolla},
title = {A Maximum-Likelihood Approach to Visual Event Classification},
booktitle = {Computer Vision - ECCV'96, 4th European Conference on Computer Vision,
Cambridge, UK, April 15-18, 1996, Proceedings, Volume {II}},
series = {Lecture Notes in Computer Science},
volume = {1065},
pages = {347--360},
publisher = {Springer},
year = {1996},
url = {https://doi.org/10.1007/3-540-61123-1\_152},
doi = {10.1007/3-540-61123-1\_152},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/eccv/SiskindM96.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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