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ORCIDBibTeX records: Philip E. Bourne
@article{DBLP:journals/bmcbi/DraizenRMB24,
author = {Eli J. Draizen and
John Readey and
Cameron Mura and
Philip E. Bourne},
title = {Prop3D: {A} flexible, Python-based platform for machine learning with
protein structural properties and biophysical data},
journal = {{BMC} Bioinform.},
volume = {25},
number = {1},
pages = {11},
year = {2024},
url = {https://doi.org/10.1186/s12859-023-05586-5},
doi = {10.1186/S12859-023-05586-5},
timestamp = {Wed, 10 Jan 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/DraizenRMB24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bigdatasociety/MurilloWB23,
author = {Luis Felipe R. Murillo and
Caitlin D. Wylie and
Philip E. Bourne},
title = {Critical data ethics pedagogies: Three (non-rival) approaches},
journal = {Big Data Soc.},
volume = {10},
number = {2},
year = {2023},
url = {https://doi.org/10.1177/20539517231203666},
doi = {10.1177/20539517231203666},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bigdatasociety/MurilloWB23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/ZhaoBB23,
author = {Zheng Zhao and
Niraja Bohidar and
Philip E. Bourne},
title = {Analysis of KRAS-Ligand Interaction Modes and Flexibilities Reveals
the Binding Characteristics},
journal = {J. Chem. Inf. Model.},
volume = {63},
number = {4},
pages = {1362--1370},
year = {2023},
url = {https://doi.org/10.1021/acs.jcim.3c00097},
doi = {10.1021/ACS.JCIM.3C00097},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/ZhaoBB23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/CaiXZCHBLNDHMBX23,
author = {Tian Cai and
Li Xie and
Shuo Zhang and
Muge Chen and
Di He and
Amitesh Badkul and
Yang Liu and
Hari Krishna Namballa and
Michael Dorogan and
Wayne W. Harding and
Cameron Mura and
Philip E. Bourne and
Lei Xie},
title = {End-to-end sequence-structure-function meta-learning predicts genome-wide
chemical-protein interactions for dark proteins},
journal = {PLoS Comput. Biol.},
volume = {19},
number = {1},
year = {2023},
url = {https://doi.org/10.1371/journal.pcbi.1010851},
doi = {10.1371/JOURNAL.PCBI.1010851},
timestamp = {Sun, 10 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/CaiXZCHBLNDHMBX23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/MuraB23,
author = {Cameron Mura and
Philip E. Bourne},
title = {Ten simple rules for serving as an editor},
journal = {PLoS Comput. Biol.},
volume = {19},
number = {3},
year = {2023},
url = {https://doi.org/10.1371/journal.pcbi.1010911},
doi = {10.1371/JOURNAL.PCBI.1010911},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/MuraB23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BerezinABBDFGHHKKMMMMMMNPZP23,
author = {Casey{-}Tyler Berezin and
Luis U. Aguilera and
Sonja Billerbeck and
Philip E. Bourne and
Douglas Densmore and
Paul S. Freemont and
Thomas E. Gorochowski and
Sarah I. Hernandez and
Nathan J. Hillson and
Connor R. King and
Michael K{\"{o}}pke and
Shuyi Ma and
Katie M. Miller and
Tae Seok Moon and
Jason H. Moore and
Brian Munsky and
Chris J. Myers and
Dequina A. Nicholas and
Samuel J. Peccoud and
Wen Zhou and
Jean Peccoud},
title = {Ten simple rules for managing laboratory information},
journal = {PLoS Comput. Biol.},
volume = {19},
number = {12},
year = {2023},
url = {https://doi.org/10.1371/journal.pcbi.1011652},
doi = {10.1371/JOURNAL.PCBI.1011652},
timestamp = {Sat, 16 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/BerezinABBDFGHHKKMMMMMMNPZP23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/MasumB23,
author = {Hassan Masum and
Philip E. Bourne},
title = {Ten simple rules for humane data science},
journal = {PLoS Comput. Biol.},
volume = {19},
number = {12},
year = {2023},
url = {https://doi.org/10.1371/journal.pcbi.1011698},
doi = {10.1371/JOURNAL.PCBI.1011698},
timestamp = {Mon, 11 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/MasumB23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2303-10829,
author = {Bruce A. Corliss and
Yaotian Wang and
Francis P. Driscoll and
Heman Shakeri and
Philip E. Bourne},
title = {{MAD-FC:} {A} Fold Change Visualization with Readability, Proportionality,
and Symmetry},
journal = {CoRR},
volume = {abs/2303.10829},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2303.10829},
doi = {10.48550/ARXIV.2303.10829},
eprinttype = {arXiv},
eprint = {2303.10829},
timestamp = {Wed, 22 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2303-10829.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2311-05668,
author = {Terence R. Johnson and
Philip E. Bourne},
title = {The Biological Data Sustainability Paradox},
journal = {CoRR},
volume = {abs/2311.05668},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2311.05668},
doi = {10.48550/ARXIV.2311.05668},
eprinttype = {arXiv},
eprint = {2311.05668},
timestamp = {Thu, 16 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2311-05668.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/ZhaoXB22,
author = {Zheng Zhao and
Lei Xie and
Philip E. Bourne},
title = {Correction to "Structural Insights into Characterizing Binding
Sites in Epidermal Growth Factor Receptor Kinase Mutants"},
journal = {J. Chem. Inf. Model.},
volume = {62},
number = {1},
pages = {223--224},
year = {2022},
url = {https://doi.org/10.1021/acs.jcim.1c01357},
doi = {10.1021/ACS.JCIM.1C01357},
timestamp = {Tue, 15 Mar 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/ZhaoXB22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BawnDB22,
author = {Matt Bawn and
David Dent and
Philip E. Bourne},
title = {Ten simple rules for using entrepreneurship skills to improve research
careers and culture},
journal = {PLoS Comput. Biol.},
volume = {18},
number = {4},
year = {2022},
url = {https://doi.org/10.1371/journal.pcbi.1009946},
doi = {10.1371/JOURNAL.PCBI.1009946},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BawnDB22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BautistaADGFB22,
author = {Carla Bautista and
Narjes Alfuraiji and
Anna Drangowska{-}Way and
Karishma Gangwani and
Alida de Flamingh and
Philip E. Bourne},
title = {Ten simple rules for improving communication among scientists},
journal = {PLoS Comput. Biol.},
volume = {18},
number = {6},
year = {2022},
url = {https://doi.org/10.1371/journal.pcbi.1010130},
doi = {10.1371/JOURNAL.PCBI.1010130},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BautistaADGFB22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne22,
author = {Philip E. Bourne},
title = {Ten simple rules for good leadership},
journal = {PLoS Comput. Biol.},
volume = {18},
number = {6},
year = {2022},
url = {https://doi.org/10.1371/journal.pcbi.1010133},
doi = {10.1371/JOURNAL.PCBI.1010133},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ChiccoB22,
author = {Davide Chicco and
Philip E. Bourne},
title = {Ten simple rules for organizing a special session at a scientific
conference},
journal = {PLoS Comput. Biol.},
volume = {18},
number = {8},
year = {2022},
url = {https://doi.org/10.1371/journal.pcbi.1010395},
doi = {10.1371/JOURNAL.PCBI.1010395},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ChiccoB22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2208-04682,
author = {Philip E. Bourne and
Vivien Bonazzi and
Amy Brand and
Bonnie Carroll and
Ian T. Foster and
Ramanathan V. Guha and
Robert J. Hanisch and
Sallie Ann Keller and
Mary Lee Kennedy and
Christine R. Kirkpatrick and
Barend Mons and
Sarah M. Nusser and
Michael Stebbins and
George O. Strawn and
Alex Szalay},
title = {Playing catch-up in building an open research commons},
journal = {CoRR},
volume = {abs/2208.04682},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2208.04682},
doi = {10.48550/ARXIV.2208.04682},
eprinttype = {arXiv},
eprint = {2208.04682},
timestamp = {Tue, 16 Aug 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2208-04682.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jamia/ValdezDBKAMRW21,
author = {Rupa S. Valdez and
Don E. Detmer and
Philip E. Bourne and
Katherine K. Kim and
Robin Austin and
Anna McCollister{-}Slipp and
Courtney C. Rogers and
Karen C. Waters{-}Wicks},
title = {Informatics-enabled citizen science to advance health equity},
journal = {J. Am. Medical Informatics Assoc.},
volume = {28},
number = {9},
pages = {2009--2012},
year = {2021},
url = {https://doi.org/10.1093/jamia/ocab088},
doi = {10.1093/JAMIA/OCAB088},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jamia/ValdezDBKAMRW21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ParkerBB21,
author = {Micaela S. Parker and
Arlyn E. Burgess and
Philip E. Bourne},
title = {Ten simple rules for starting (and sustaining) an academic data science
initiative},
journal = {PLoS Comput. Biol.},
volume = {17},
number = {2},
year = {2021},
url = {https://doi.org/10.1371/journal.pcbi.1008628},
doi = {10.1371/JOURNAL.PCBI.1008628},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ParkerBB21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2109-01694,
author = {Christine L. Borgman and
Philip E. Bourne},
title = {Why it takes a village to manage and share data},
journal = {CoRR},
volume = {abs/2109.01694},
year = {2021},
url = {https://arxiv.org/abs/2109.01694},
eprinttype = {arXiv},
eprint = {2109.01694},
timestamp = {Mon, 20 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2109-01694.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2111-14283,
author = {Tian Cai and
Li Xie and
Muge Chen and
Yang Liu and
Di He and
Shuo Zhang and
Cameron Mura and
Philip E. Bourne and
Lei Xie},
title = {Exploration of Dark Chemical Genomics Space via Portal Learning: Applied
to Targeting the Undruggable Genome and {COVID-19} Anti-Infective
Polypharmacology},
journal = {CoRR},
volume = {abs/2111.14283},
year = {2021},
url = {https://arxiv.org/abs/2111.14283},
eprinttype = {arXiv},
eprint = {2111.14283},
timestamp = {Mon, 13 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2111-14283.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/FletcherWB20,
author = {Anthony C. Fletcher and
Georges A. Wagner and
Philip E. Bourne},
title = {Ten simple rules for more objective decision-making},
journal = {PLoS Comput. Biol.},
volume = {16},
number = {4},
year = {2020},
url = {https://doi.org/10.1371/journal.pcbi.1007706},
doi = {10.1371/JOURNAL.PCBI.1007706},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/FletcherWB20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GohB20,
author = {Hoe{-}Han Goh and
Philip E. Bourne},
title = {Ten simple rules for researchers while in isolation from a pandemic},
journal = {PLoS Comput. Biol.},
volume = {16},
number = {6},
year = {2020},
url = {https://doi.org/10.1371/journal.pcbi.1007946},
doi = {10.1371/JOURNAL.PCBI.1007946},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/GohB20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GohB20a,
author = {Hoe{-}Han Goh and
Philip E. Bourne},
title = {Ten simple rules for writing scientific op-ed articles},
journal = {PLoS Comput. Biol.},
volume = {16},
number = {9},
year = {2020},
url = {https://doi.org/10.1371/journal.pcbi.1008187},
doi = {10.1371/JOURNAL.PCBI.1008187},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/GohB20a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/MuraCNCB20,
author = {Cameron Mura and
Mike Chalupa and
Abigail M. Newbury and
Jack Chalupa and
Philip E. Bourne},
title = {Ten simple rules for starting research in your late teens},
journal = {PLoS Comput. Biol.},
volume = {16},
number = {11},
year = {2020},
url = {https://doi.org/10.1371/journal.pcbi.1008403},
doi = {10.1371/JOURNAL.PCBI.1008403},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/MuraCNCB20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijmi/DreisbachKBB19,
author = {Caitlin N. Dreisbach and
Theresa A. Koleck and
Philip E. Bourne and
Suzanne Bakken},
title = {A systematic review of natural language processing and text mining
of symptoms from electronic patient-authored text data},
journal = {Int. J. Medical Informatics},
volume = {125},
pages = {37--46},
year = {2019},
url = {https://doi.org/10.1016/j.ijmedinf.2019.02.008},
doi = {10.1016/J.IJMEDINF.2019.02.008},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijmi/DreisbachKBB19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jamia/KoleckDBB19,
author = {Theresa A. Koleck and
Caitlin N. Dreisbach and
Philip E. Bourne and
Suzanne Bakken},
title = {Natural language processing of symptoms documented in free-text narratives
of electronic health records: a systematic review},
journal = {J. Am. Medical Informatics Assoc.},
volume = {26},
number = {4},
pages = {364--379},
year = {2019},
url = {https://doi.org/10.1093/jamia/ocy173},
doi = {10.1093/JAMIA/OCY173},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jamia/KoleckDBB19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/ZhaoXB19,
author = {Zheng Zhao and
Lei Xie and
Philip E. Bourne},
title = {Structural Insights into Characterizing Binding Sites in Epidermal
Growth Factor Receptor Kinase Mutants},
journal = {J. Chem. Inf. Model.},
volume = {59},
number = {1},
pages = {453--462},
year = {2019},
url = {https://doi.org/10.1021/acs.jcim.8b00458},
doi = {10.1021/ACS.JCIM.8B00458},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/ZhaoXB19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/LewitterBA19,
author = {Fran Lewitter and
Philip E. Bourne and
Teresa K. Attwood},
title = {Ten Simple Rules for avoiding and resolving conflicts with your colleagues},
journal = {PLoS Comput. Biol.},
volume = {15},
number = {1},
year = {2019},
url = {https://doi.org/10.1371/journal.pcbi.1006708},
doi = {10.1371/JOURNAL.PCBI.1006708},
timestamp = {Sat, 25 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/LewitterBA19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BlivenLRCPB19,
author = {Spencer E. Bliven and
Aleix Lafita and
Peter W. Rose and
Guido Capitani and
Andreas Prlic and
Philip E. Bourne},
title = {Analyzing the symmetrical arrangement of structural repeats in proteins
with CE-Symm},
journal = {PLoS Comput. Biol.},
volume = {15},
number = {4},
year = {2019},
url = {https://doi.org/10.1371/journal.pcbi.1006842},
doi = {10.1371/JOURNAL.PCBI.1006842},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BlivenLRCPB19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne19,
author = {Philip E. Bourne},
title = {Ten simple rules to aid in achieving a vision},
journal = {PLoS Comput. Biol.},
volume = {15},
number = {10},
year = {2019},
url = {https://doi.org/10.1371/journal.pcbi.1007395},
doi = {10.1371/JOURNAL.PCBI.1007395},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1905-00455,
author = {Sean Mullane and
Ruoyan Chen and
Sri Vaishnavi Vemulapalli and
Eli J. Draizen and
Ke Wang and
Cameron Mura and
Philip E. Bourne},
title = {Machine Learning for Classification of Protein Helix Capping Motifs},
journal = {CoRR},
volume = {abs/1905.00455},
year = {2019},
url = {http://arxiv.org/abs/1905.00455},
eprinttype = {arXiv},
eprint = {1905.00455},
timestamp = {Sat, 23 Jan 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-1905-00455.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/NavaleB18,
author = {Vivek Navale and
Philip E. Bourne},
title = {Cloud computing applications for biomedical science: {A} perspective},
journal = {PLoS Comput. Biol.},
volume = {14},
number = {6},
year = {2018},
url = {https://doi.org/10.1371/journal.pcbi.1006144},
doi = {10.1371/JOURNAL.PCBI.1006144},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/NavaleB18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne18,
author = {Philip E. Bourne},
title = {Ten simple rules when considering retirement},
journal = {PLoS Comput. Biol.},
volume = {14},
number = {10},
year = {2018},
url = {https://doi.org/10.1371/journal.pcbi.1006411},
doi = {10.1371/JOURNAL.PCBI.1006411},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneLMP18,
author = {Philip E. Bourne and
Fran Lewitter and
Scott Markel and
Jason A. Papin},
title = {One thousand simple rules},
journal = {PLoS Comput. Biol.},
volume = {14},
number = {12},
year = {2018},
url = {https://doi.org/10.1371/journal.pcbi.1006670},
doi = {10.1371/JOURNAL.PCBI.1006670},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneLMP18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GaoPBBDXBR17,
author = {Jianjiong Gao and
Andreas Prlic and
Chunxiao Bi and
Wolfgang Bluhm and
Dimitris Dimitropoulos and
Dong Xu and
Philip E. Bourne and
Peter W. Rose},
title = {BioJava-ModFinder: identification of protein modifications in 3D structures
from the Protein Data Bank},
journal = {Bioinform.},
volume = {33},
number = {13},
pages = {2047--2049},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btx101},
doi = {10.1093/BIOINFORMATICS/BTX101},
timestamp = {Thu, 23 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/GaoPBBDXBR17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BournePVK17,
author = {Philip E. Bourne and
Jessica K. Polka and
Ronald D. Vale and
Robert Kiley},
title = {Ten simple rules to consider regarding preprint submission},
journal = {PLoS Comput. Biol.},
volume = {13},
number = {5},
year = {2017},
url = {https://doi.org/10.1371/journal.pcbi.1005473},
doi = {10.1371/JOURNAL.PCBI.1005473},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BournePVK17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne17,
author = {Philip E. Bourne},
title = {Ten simple rules in considering a career in academia versus government},
journal = {PLoS Comput. Biol.},
volume = {13},
number = {10},
year = {2017},
url = {https://doi.org/10.1371/journal.pcbi.1005729},
doi = {10.1371/JOURNAL.PCBI.1005729},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ZhaoMFBX16,
author = {Zheng Zhao and
Che L. Martin and
Raymond Fan and
Philip E. Bourne and
Lei Xie},
title = {Drug repurposing to target Ebola virus replication and virulence using
structural systems pharmacology},
journal = {{BMC} Bioinform.},
volume = {17},
pages = {90},
year = {2016},
url = {https://doi.org/10.1186/s12859-016-0941-9},
doi = {10.1186/S12859-016-0941-9},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ZhaoMFBX16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BrunkMMZOBCCBP16,
author = {Elizabeth Brunk and
Nathan Mih and
Jonathan Monk and
Zhen Zhang and
Edward J. O'Brien and
Spencer E. Bliven and
Ke Chen and
Roger L. Chang and
Philip E. Bourne and
Bernhard O. Palsson},
title = {Systems biology of the structural proteome},
journal = {{BMC} Syst. Biol.},
volume = {10},
pages = {26},
year = {2016},
url = {https://doi.org/10.1186/s12918-016-0271-6},
doi = {10.1186/S12918-016-0271-6},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/BrunkMMZOBCCBP16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/QuinnBCPPNZVBBR15,
author = {Gregory B. Quinn and
Chunxiao Bi and
Cole H. Christie and
Kyle Pang and
Andreas Prlic and
Takanori Nakane and
Christine Zardecki and
Maria Voigt and
Helen M. Berman and
Philip E. Bourne and
Peter W. Rose},
title = {{RCSB} {PDB} \emph{Mobile}: iOS and Android mobile apps to provide
data access and visualization to the {RCSB} Protein Data Bank},
journal = {Bioinform.},
volume = {31},
number = {1},
pages = {126--127},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu596},
doi = {10.1093/BIOINFORMATICS/BTU596},
timestamp = {Mon, 03 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/QuinnBCPPNZVBBR15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/SamishBN15,
author = {Ilan Samish and
Philip E. Bourne and
Rafael J. Najmanovich},
title = {Editor's Choice: Achievements and challenges in structural bioinformatics
and computational biophysics},
journal = {Bioinform.},
volume = {31},
number = {1},
pages = {146--150},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu769},
doi = {10.1093/BIOINFORMATICS/BTU769},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/SamishBN15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BlivenBP15,
author = {Spencer E. Bliven and
Philip E. Bourne and
Andreas Prlic},
title = {Detection of circular permutations within protein structures using
{CE-CP}},
journal = {Bioinform.},
volume = {31},
number = {8},
pages = {1316--1318},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu823},
doi = {10.1093/BIOINFORMATICS/BTU823},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BlivenBP15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jamia/BourneBDGGKLR15,
author = {Philip E. Bourne and
Vivien Bonazzi and
Michelle Dunn and
Eric D. Green and
Mark Guyer and
George A. Komatsoulis and
Jennie Larkin and
Beth Russell},
title = {The {NIH} Big Data to Knowledge {(BD2K)} initiative},
journal = {J. Am. Medical Informatics Assoc.},
volume = {22},
number = {6},
pages = {1114},
year = {2015},
url = {https://doi.org/10.1093/jamia/ocv136},
doi = {10.1093/JAMIA/OCV136},
timestamp = {Mon, 11 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jamia/BourneBDGGKLR15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/RosePBBCDGGWWYZBBB15,
author = {Peter W. Rose and
Andreas Prlic and
Chunxiao Bi and
Wolfgang Bluhm and
Cole H. Christie and
Shuchismita Dutta and
Rachel Kramer Green and
David S. Goodsell and
John D. Westbrook and
Jesse Woo and
Jasmine Young and
Christine Zardecki and
Helen M. Berman and
Philip E. Bourne and
Stephen K. Burley},
title = {The {RCSB} Protein Data Bank: views of structural biology for basic
and applied research and education},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Database-Issue},
pages = {345--356},
year = {2015},
url = {https://doi.org/10.1093/nar/gku1214},
doi = {10.1093/NAR/GKU1214},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/RosePBBCDGGWWYZBBB15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nature/BourneLG15,
author = {Philip E. Bourne and
Jon R. Lorsch and
Eric D. Green},
title = {Perspective: Sustaining the big-data ecosystem},
journal = {Nat.},
volume = {527},
number = {7576},
pages = {S16--S17},
year = {2015},
url = {https://doi.org/10.1038/527S16a},
doi = {10.1038/527S16A},
timestamp = {Mon, 08 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nature/BourneLG15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne15,
author = {Philip E. Bourne},
title = {Confronting the Ethical Challenges of Big Data in Public Health},
journal = {PLoS Comput. Biol.},
volume = {11},
number = {2},
year = {2015},
url = {https://doi.org/10.1371/journal.pcbi.1004073},
doi = {10.1371/JOURNAL.PCBI.1004073},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ErrenSGBC15,
author = {Thomas C. Erren and
Tracy E. Slanger and
J. Val{\'{e}}rie Gro{\ss} and
Philip E. Bourne and
Paul Cullen},
title = {Ten Simple Rules for Lifelong Learning, According to Hamming},
journal = {PLoS Comput. Biol.},
volume = {11},
number = {2},
year = {2015},
url = {https://doi.org/10.1371/journal.pcbi.1004020},
doi = {10.1371/JOURNAL.PCBI.1004020},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ErrenSGBC15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneBE15,
author = {Philip E. Bourne and
Steven E. Brenner and
Michael B. Eisen},
title = {Ten Years of \emph{PLoS\({}^{\mbox{{\textdaggerdbl}}}\) Computational
Biology: } {A} Decade of Appreciation and Innovation},
journal = {PLoS Comput. Biol.},
volume = {11},
number = {6},
year = {2015},
url = {https://doi.org/10.1371/journal.pcbi.1004317},
doi = {10.1371/JOURNAL.PCBI.1004317},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneBE15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/Bourne15,
author = {Philip E. Bourne},
editor = {Jun Huan and
Satoru Miyano and
Amarda Shehu and
Xiaohua Tony Hu and
Bin Ma and
Sanguthevar Rajasekaran and
Vijay K. Gombar and
Matthieu{-}P. Schapranow and
Illhoi Yoo and
Jiayu Zhou and
Brian Chen and
Vinay Pai and
Brian G. Pierce},
title = {Big data in biomedicine - An {NIH} perspective},
booktitle = {2015 {IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2015, Washington, DC, USA, November 9-12, 2015},
pages = {1},
publisher = {{IEEE} Computer Society},
year = {2015},
url = {https://doi.org/10.1109/BIBM.2015.7359644},
doi = {10.1109/BIBM.2015.7359644},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/Bourne15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jamia/Bourne14,
author = {Philip E. Bourne},
title = {What \emph{Big Data} means to me},
journal = {J. Am. Medical Informatics Assoc.},
volume = {21},
number = {2},
pages = {194},
year = {2014},
url = {https://doi.org/10.1136/amiajnl-2014-002651},
doi = {10.1136/AMIAJNL-2014-002651},
timestamp = {Mon, 11 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jamia/Bourne14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/XieGTXZHYB14,
author = {Lei Xie and
Xiaoxia Ge and
Hepan Tan and
Li Xie and
Yinliang Zhang and
Thomas Hart and
Xiaowei Yang and
Philip E. Bourne},
title = {Towards Structural Systems Pharmacology to Study Complex Diseases
and Personalized Medicine},
journal = {PLoS Comput. Biol.},
volume = {10},
number = {5},
year = {2014},
url = {https://doi.org/10.1371/journal.pcbi.1003554},
doi = {10.1371/JOURNAL.PCBI.1003554},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/XieGTXZHYB14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne14,
author = {Philip E. Bourne},
title = {Ten Simple Rules for Approaching a New Job},
journal = {PLoS Comput. Biol.},
volume = {10},
number = {6},
year = {2014},
url = {https://doi.org/10.1371/journal.pcbi.1003660},
doi = {10.1371/JOURNAL.PCBI.1003660},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/RougierDB14,
author = {Nicolas P. Rougier and
Michael Droettboom and
Philip E. Bourne},
title = {Ten Simple Rules for Better Figures},
journal = {PLoS Comput. Biol.},
volume = {10},
number = {9},
year = {2014},
url = {https://doi.org/10.1371/journal.pcbi.1003833},
doi = {10.1371/JOURNAL.PCBI.1003833},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/RougierDB14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/DashnowLB14,
author = {Harriet Dashnow and
Andrew Lonsdale and
Philip E. Bourne},
title = {Ten Simple Rules for Writing a {PLOS} Ten Simple Rules Article},
journal = {PLoS Comput. Biol.},
volume = {10},
number = {10},
year = {2014},
url = {https://doi.org/10.1371/journal.pcbi.1003858},
doi = {10.1371/JOURNAL.PCBI.1003858},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/DashnowLB14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/NgHZBX14,
author = {Clara Ng and
Ruth Hauptman and
Yinliang Zhang and
Philip E. Bourne and
Lei Xie},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Teri E. Klein and
Marylyn D. Ritchie},
title = {Anti-Infectious Drug Repurposing Using an Integrated Chemical Genomics
and Structural Systems Biology Approach},
booktitle = {Biocomputing 2014: Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, January 3-7, 2014},
pages = {136--147},
year = {2014},
url = {http://psb.stanford.edu/psb-online/proceedings/psb14/ng.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/NgHZBX14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChangXBP13,
author = {Roger L. Chang and
Lei Xie and
Philip E. Bourne and
Bernhard O. Palsson},
title = {Antibacterial mechanisms identified through structural systems pharmacology},
journal = {{BMC} Syst. Biol.},
volume = {7},
pages = {102},
year = {2013},
url = {https://doi.org/10.1186/1752-0509-7-102},
doi = {10.1186/1752-0509-7-102},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/ChangXBP13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/concurrency/Bourne13,
author = {Philip E. Bourne},
title = {The reaming of life: based on the 2010 Jim Gray eScience Award Lecture},
journal = {Concurr. Comput. Pract. Exp.},
volume = {25},
number = {4},
pages = {445--453},
year = {2013},
url = {https://doi.org/10.1002/cpe.2924},
doi = {10.1002/CPE.2924},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/concurrency/Bourne13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/RoseBBCDDGGPQQRWYZBB13,
author = {Peter W. Rose and
Chunxiao Bi and
Wolfgang Bluhm and
Cole H. Christie and
Dimitris Dimitropoulos and
Shuchismita Dutta and
Rachel Kramer Green and
David S. Goodsell and
Andreas Prlic and
Martha Quesada and
Greg B. Quinn and
Alexander G. Ramos and
John D. Westbrook and
Jasmine Young and
Christine Zardecki and
Helen M. Berman and
Philip E. Bourne},
title = {The {RCSB} Protein Data Bank: new resources for research and education},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Database-Issue},
pages = {475--482},
year = {2013},
url = {https://doi.org/10.1093/nar/gks1200},
doi = {10.1093/NAR/GKS1200},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/RoseBBCDDGGPQQRWYZBB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne13,
author = {Philip E. Bourne},
title = {Let's Make Those Book Chapters Open Too!},
journal = {PLoS Comput. Biol.},
volume = {9},
number = {2},
year = {2013},
url = {https://doi.org/10.1371/journal.pcbi.1002941},
doi = {10.1371/JOURNAL.PCBI.1002941},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/MasumRGTECBSTB13,
author = {Hassan Masum and
Aarthi Rao and
Benjamin M. Good and
Matthew H. Todd and
Aled M. Edwards and
Leslie Chan and
Barry A. Bunin and
Andrew I. Su and
Zakir Thomas and
Philip E. Bourne},
title = {Ten Simple Rules for Cultivating Open Science and Collaborative R{\&}D},
journal = {PLoS Comput. Biol.},
volume = {9},
number = {9},
year = {2013},
url = {https://doi.org/10.1371/journal.pcbi.1003244},
doi = {10.1371/JOURNAL.PCBI.1003244},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/MasumRGTECBSTB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/AlexandrovB13,
author = {Theodore Alexandrov and
Philip E. Bourne},
title = {Learning How to Run a Lab: Interviews with Principal Investigators},
journal = {PLoS Comput. Biol.},
volume = {9},
number = {11},
year = {2013},
url = {https://doi.org/10.1371/journal.pcbi.1003349},
doi = {10.1371/JOURNAL.PCBI.1003349},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/AlexandrovB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wikis/Bourne13,
author = {Philip E. Bourne},
editor = {Ademar Aguiar and
Dirk Riehle},
title = {The era of open},
booktitle = {Proceedings of the 9th International Symposium on Open Collaboration,
Hong Kong, China, August 05 - 07, 2013},
pages = {36:1},
publisher = {{ACM}},
year = {2013},
url = {https://doi.org/10.1145/2491055.2491091},
doi = {10.1145/2491055.2491091},
timestamp = {Tue, 06 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/wikis/Bourne13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PrlicYBRJTCGKFHRHBBW12,
author = {Andreas Prlic and
Andrew D. Yates and
Spencer Bliven and
Peter W. Rose and
Julius O. B. Jacobsen and
Peter V. Troshin and
Mark Chapman and
Jianjiong Gao and
Chuan Hock Koh and
Sylvain Foisy and
Richard C. G. Holland and
Gediminas Rimsa and
Michael L. Heuer and
Hannes Brandst{\"{a}}tter{-}M{\"{u}}ller and
Philip E. Bourne and
Scooter Willis},
title = {BioJava: an open-source framework for bioinformatics in 2012},
journal = {Bioinform.},
volume = {28},
number = {20},
pages = {2693--2695},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts494},
doi = {10.1093/BIOINFORMATICS/BTS494},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/PrlicYBRJTCGKFHRHBBW12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/HeckerAEDMEGBP12,
author = {Nikolai Hecker and
Jessica Ahmed and
Joachim von Eichborn and
Mathias Dunkel and
Karel Macha and
Andreas Eckert and
Michael K. Gilson and
Philip E. Bourne and
Robert Preissner},
title = {SuperTarget goes quantitative: update on drug-target interactions},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Database-Issue},
pages = {1113--1117},
year = {2012},
url = {https://doi.org/10.1093/nar/gkr912},
doi = {10.1093/NAR/GKR912},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/HeckerAEDMEGBP12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/KimPZTWGLSLBNP12,
author = {Yohan Kim and
Julia V. Ponomarenko and
Zhanyang Zhu and
Dorjee Tamang and
Peng Wang and
Jason Greenbaum and
Claus Lundegaard and
Alessandro Sette and
Ole Lund and
Philip E. Bourne and
Morten Nielsen and
Bjoern Peters},
title = {Immune epitope database analysis resource},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Web-Server-Issue},
pages = {525--530},
year = {2012},
url = {https://doi.org/10.1093/nar/gks438},
doi = {10.1093/NAR/GKS438},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/KimPZTWGLSLBNP12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/DickinHTCNB12,
author = {Rosemary Dickin and
Chris James Hall and
Laura K. Taylor and
Andrew M. Collings and
Ruth Nussinov and
Philip E. Bourne},
title = {A Review of 2011 for \emph{PLoS Computational Biology}},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {1},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002387},
doi = {10.1371/JOURNAL.PCBI.1002387},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/DickinHTCNB12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/FletcherB12,
author = {Anthony C. Fletcher and
Philip E. Bourne},
title = {Ten Simple Rules for Starting a Company},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {3},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002439},
doi = {10.1371/JOURNAL.PCBI.1002439},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/FletcherB12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/WodakMCRB12,
author = {Shoshana J. Wodak and
Daniel Mietchen and
Andrew M. Collings and
Robert B. Russell and
Philip E. Bourne},
title = {Topic Pages: \emph{PLoS Computational Biology} Meets Wikipedia},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {3},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002446},
doi = {10.1371/JOURNAL.PCBI.1002446},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/WodakMCRB12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/FletcherB12a,
author = {Anthony C. Fletcher and
Philip E. Bourne},
title = {Ten Simple Rules To Commercialize Scientific Research},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {9},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002712},
doi = {10.1371/JOURNAL.PCBI.1002712},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/FletcherB12a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne12,
author = {Philip E. Bourne},
title = {Seven Years; It's Time for a Change},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {10},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002728},
doi = {10.1371/JOURNAL.PCBI.1002728},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/JollyFB12,
author = {Mark Jolly and
Anthony C. Fletcher and
Philip E. Bourne},
title = {Ten Simple Rules to Protect Your Intellectual Property},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {11},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002766},
doi = {10.1371/JOURNAL.PCBI.1002766},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/JollyFB12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/EvangelidisBXX12,
author = {Thomas Evangelidis and
Philip E. Bourne and
Li Xie and
Lei Xie},
title = {An integrated workflow for proteome-wide off-target identification
and polypharmacology drug design},
booktitle = {2012 {IEEE} International Conference on Bioinformatics and Biomedicine
Workshops, {BIBMW} 2012, Philadelphia, USA, October 4-7, 2012},
pages = {32--39},
publisher = {{IEEE} Computer Society},
year = {2012},
url = {https://doi.org/10.1109/BIBMW.2012.6470348},
doi = {10.1109/BIBMW.2012.6470348},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/EvangelidisBXX12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodb/BluhmBBDPQRSYYBB11,
author = {Wolfgang Bluhm and
Bojan Beran and
Chunxiao Bi and
Dimitris Dimitropoulos and
Andreas Prlic and
Greg B. Quinn and
Peter W. Rose and
Chaitali Shah and
Jasmine Young and
Benjamin T. Yukich and
Helen M. Berman and
Philip E. Bourne},
title = {Quality assurance for the query and distribution systems of the {RCSB}
Protein Data Bank},
journal = {Database J. Biol. Databases Curation},
volume = {2011},
year = {2011},
url = {https://doi.org/10.1093/database/bar003},
doi = {10.1093/DATABASE/BAR003},
timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biodb/BluhmBBDPQRSYYBB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/EichbornBP11,
author = {Joachim von Eichborn and
Philip E. Bourne and
Robert Preissner},
title = {Cobweb: a Java applet for network exploration and visualisation},
journal = {Bioinform.},
volume = {27},
number = {12},
pages = {1725--1726},
year = {2011},
url = {https://doi.org/10.1093/bioinformatics/btr195},
doi = {10.1093/BIOINFORMATICS/BTR195},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/EichbornBP11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cphysics/GramadaB11,
author = {Apostol Gramada and
Philip E. Bourne},
title = {Coarse-graining the electrostatic potential via distributed multipole
expansions},
journal = {Comput. Phys. Commun.},
volume = {182},
number = {7},
pages = {1455--1462},
year = {2011},
url = {https://doi.org/10.1016/j.cpc.2011.03.014},
doi = {10.1016/J.CPC.2011.03.014},
timestamp = {Fri, 21 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/cphysics/GramadaB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/dagstuhl-manifestos/BourneCDWHHS11,
author = {Philip E. Bourne and
Timothy W. Clark and
Robert Dale and
Anita de Waard and
Ivan Herman and
Eduard H. Hovy and
David M. Shotton},
title = {Improving The Future of Research Communications and e-Scholarship
(Dagstuhl Perspectives Workshop 11331)},
journal = {Dagstuhl Manifestos},
volume = {1},
number = {1},
pages = {41--60},
year = {2011},
url = {https://doi.org/10.4230/DagMan.1.1.41},
doi = {10.4230/DAGMAN.1.1.41},
timestamp = {Wed, 14 Jun 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/dagstuhl-manifestos/BourneCDWHHS11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/KinningsLTJXB11,
author = {Sarah L. Kinnings and
Nina Liu and
Peter J. Tonge and
Richard M. Jackson and
Lei Xie and
Philip E. Bourne},
title = {A Machine Learning-Based Method To Improve Docking Scoring Functions
and Its Application to Drug Repurposing},
journal = {J. Chem. Inf. Model.},
volume = {51},
number = {2},
pages = {408--419},
year = {2011},
url = {https://doi.org/10.1021/ci100369f},
doi = {10.1021/CI100369F},
timestamp = {Fri, 06 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/KinningsLTJXB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/KinningsLTJXB11a,
author = {Sarah L. Kinnings and
Nina Liu and
Peter J. Tonge and
Richard M. Jackson and
Lei Xie and
Philip E. Bourne},
title = {Correction to "A Machine Learning-Based Method To Improve Docking
Scoring Functions and Its Application to Drug Repurposing"},
journal = {J. Chem. Inf. Model.},
volume = {51},
number = {5},
pages = {1195--1197},
year = {2011},
url = {https://doi.org/10.1021/ci2001346},
doi = {10.1021/CI2001346},
timestamp = {Fri, 06 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/KinningsLTJXB11a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/RoseBBBDGPQQWYYZBB11,
author = {Peter W. Rose and
Bojan Beran and
Chunxiao Bi and
Wolfgang Bluhm and
Dimitris Dimitropoulos and
David S. Goodsell and
Andreas Prlic and
Martha Quesada and
Greg B. Quinn and
John D. Westbrook and
Jasmine Young and
Benjamin T. Yukich and
Christine Zardecki and
Helen M. Berman and
Philip E. Bourne},
title = {The {RCSB} Protein Data Bank: redesigned web site and web services},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Database-Issue},
pages = {392--401},
year = {2011},
url = {https://doi.org/10.1093/nar/gkq1021},
doi = {10.1093/NAR/GKQ1021},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/RoseBBBDGPQQWYYZBB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/EichbornMDKBP11,
author = {Joachim von Eichborn and
Manuela S. Murgueitio and
Mathias Dunkel and
Soeren Koerner and
Philip E. Bourne and
Robert Preissner},
title = {{PROMISCUOUS:} a database for network-based drug-repositioning},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Database-Issue},
pages = {1060--1066},
year = {2011},
url = {https://doi.org/10.1093/nar/gkq1037},
doi = {10.1093/NAR/GKQ1037},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/EichbornMDKBP11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/PonomarenkoPZPSB11,
author = {Julia V. Ponomarenko and
Nikitas Papangelopoulos and
Dirk M. Zajonc and
Bj{\"{o}}rn Peters and
Alessandro Sette and
Philip E. Bourne},
title = {{IEDB-3D:} structural data within the immune epitope database},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Database-Issue},
pages = {1164--1170},
year = {2011},
url = {https://doi.org/10.1093/nar/gkq888},
doi = {10.1093/NAR/GKQ888},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/PonomarenkoPZPSB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne11,
author = {Philip E. Bourne},
title = {Ten Simple Rules for Getting Ahead as a Computational Biologist in
Academia},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {1},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1002001},
doi = {10.1371/JOURNAL.PCBI.1002001},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/DickinMCNB11,
author = {Rosemary Dickin and
Cecy Marden and
Andrew M. Collings and
Ruth Nussinov and
Philip E. Bourne},
title = {A Review of 2010 for \emph{PLoS Computational Biology}},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {1},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1002003},
doi = {10.1371/JOURNAL.PCBI.1002003},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/DickinMCNB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/XieEXB11,
author = {Li Xie and
Thomas Evangelidis and
Lei Xie and
Philip E. Bourne},
title = {Drug Discovery Using Chemical Systems Biology: Weak Inhibition of
Multiple Kinases May Contribute to the Anti-Cancer Effect of Nelfinavir},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {4},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1002037},
doi = {10.1371/JOURNAL.PCBI.1002037},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/XieEXB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneB11,
author = {Philip E. Bourne and
Virginia Barbour},
title = {Ten Simple Rules for Building and Maintaining a Scientific Reputation},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {6},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1002108},
doi = {10.1371/JOURNAL.PCBI.1002108},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/LewitterB11,
author = {Fran Lewitter and
Philip E. Bourne},
title = {Teaching Bioinformatics at the Secondary School Level},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {10},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1002242},
doi = {10.1371/JOURNAL.PCBI.1002242},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/LewitterB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PrlicBRBBGB10,
author = {Andreas Prlic and
Spencer Bliven and
Peter W. Rose and
Wolfgang Bluhm and
Chris Bizon and
Adam Godzik and
Philip E. Bourne},
title = {Pre-calculated protein structure alignments at the {RCSB} {PDB} website},
journal = {Bioinform.},
volume = {26},
number = {23},
pages = {2983--2985},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq572},
doi = {10.1093/BIOINFORMATICS/BTQ572},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/PrlicBRBBGB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/FinkFCPWNQB10,
author = {J. Lynn Fink and
Pablo Fernicola and
Rahul Chandran and
Savas Parastatidis and
Alex D. Wade and
Oscar Naim and
Greg B. Quinn and
Philip E. Bourne},
title = {Word add-in for ontology recognition: semantic enrichment of scientific
literature},
journal = {{BMC} Bioinform.},
volume = {11},
pages = {103},
year = {2010},
url = {https://doi.org/10.1186/1471-2105-11-103},
doi = {10.1186/1471-2105-11-103},
timestamp = {Thu, 19 Nov 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/FinkFCPWNQB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/PrlicMDBYRBF10,
author = {Andreas Prlic and
Marco A. Martinez and
Dimitris Dimitropoulos and
Bojan Beran and
Benjamin T. Yukich and
Peter W. Rose and
Philip E. Bourne and
J. Lynn Fink},
title = {Integration of open access literature into the {RCSB} Protein Data
Bank using BioLit},
journal = {{BMC} Bioinform.},
volume = {11},
pages = {220},
year = {2010},
url = {https://doi.org/10.1186/1471-2105-11-220},
doi = {10.1186/1471-2105-11-220},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/PrlicMDBYRBF10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AldenVB10,
author = {Kieran Alden and
Stella Veretnik and
Philip E. Bourne},
title = {dConsensus: a tool for displaying domain assignments by multiple structure-based
algorithms and for construction of a consensus assignment},
journal = {{BMC} Bioinform.},
volume = {11},
pages = {310},
year = {2010},
url = {https://doi.org/10.1186/1471-2105-11-310},
doi = {10.1186/1471-2105-11-310},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/AldenVB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/RenXLB10,
author = {Jingyuan Ren and
Lei Xie and
Wilfred W. Li and
Philip E. Bourne},
title = {{SMAP-WS:} a parallel web service for structural proteome-wide ligand-binding
site comparison},
journal = {Nucleic Acids Res.},
volume = {38},
number = {Web-Server-Issue},
pages = {441--444},
year = {2010},
url = {https://doi.org/10.1093/nar/gkq400},
doi = {10.1093/NAR/GKQ400},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/RenXLB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/DurrantAXUFHCGWBM10,
author = {Jacob D. Durrant and
Rommie E. Amaro and
Lei Xie and
Michael D. Urbaniak and
Michael A. J. Ferguson and
Antti Haapalainen and
Zhijun Chen and
Anne Marie Di Guilmi and
Frank Wunder and
Philip E. Bourne and
James Andrew McCammon},
title = {A Multidimensional Strategy to Detect Polypharmacological Targets
in the Absence of Structural and Sequence Homology},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {1},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000648},
doi = {10.1371/JOURNAL.PCBI.1000648},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/DurrantAXUFHCGWBM10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneBBBDPQRSTWY10,
author = {Philip E. Bourne and
Bojan Beran and
Chunxiao Bi and
Wolfgang Bluhm and
Roland L. Dunbrack Jr. and
Andreas Prlic and
Greg B. Quinn and
Peter W. Rose and
Raship Shah and
Wendy Tao and
Brian D. Weitzner and
Benjamin T. Yukich},
title = {Will Widgets and Semantic Tagging Change Computational Biology?},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {2},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000673},
doi = {10.1371/JOURNAL.PCBI.1000673},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneBBBDPQRSTWY10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/DickinMNB10,
author = {Rosemary Dickin and
Cecy Marden and
Catherine Nancarrow and
Philip E. Bourne},
title = {A Review of 2009 for \emph{PLoS Computational Biology}},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {2},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000687},
doi = {10.1371/JOURNAL.PCBI.1000687},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/DickinMNB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/DattaLB10,
author = {Ruchira S. Datta and
Matthew W. Lux and
Philip E. Bourne},
title = {\emph{PLoS Computational Biology} Conference Postcards from {PSB}
2010},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {4},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000746},
doi = {10.1371/JOURNAL.PCBI.1000746},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/DattaLB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne10,
author = {Philip E. Bourne},
title = {What Do {I} Want from the Publisher of the Future?},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {5},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000787},
doi = {10.1371/JOURNAL.PCBI.1000787},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ChangXXBP10,
author = {Roger L. Chang and
Li Xie and
Lei Xie and
Philip E. Bourne and
Bernhard {\O}. Palsson},
title = {Drug Off-Target Effects Predicted Using Structural Analysis in the
Context of a Metabolic Network Model},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {9},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000938},
doi = {10.1371/JOURNAL.PCBI.1000938},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ChangXXBP10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/KinningsXFJXB10,
author = {Sarah L. Kinnings and
Li Xie and
Kingston H. Fung and
Richard M. Jackson and
Lei Xie and
Philip E. Bourne},
title = {The \emph{Mycobacterium tuberculosis} Drugome and Its Polypharmacological
Implications},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {11},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000976},
doi = {10.1371/JOURNAL.PCBI.1000976},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/KinningsXFJXB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/XieXB09,
author = {Lei Xie and
Li Xie and
Philip E. Bourne},
title = {A unified statistical model to support local sequence order independent
similarity searching for ligand-binding sites and its application
to genome-based drug discovery},
journal = {Bioinform.},
volume = {25},
number = {12},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btp220},
doi = {10.1093/BIOINFORMATICS/BTP220},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/XieXB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BrowneDB09,
author = {Evie Browne and
Rosemary Dickin and
Philip E. Bourne},
title = {A Review of 2008 for \emph{PLoS Computational Biology}},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {1},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000275},
doi = {10.1371/JOURNAL.PCBI.1000275},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BrowneDB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/VeretnikWYVB09,
author = {Stella Veretnik and
Christopher Wills and
Philippe Youkharibache and
Ruben E. Valas and
Philip E. Bourne},
title = {Sm/Lsm Genes Provide a Glimpse into the Early Evolution of the Spliceosome},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {3},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000315},
doi = {10.1371/JOURNAL.PCBI.1000315},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/VeretnikWYVB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/VicensB09,
author = {Quentin Vicens and
Philip E. Bourne},
title = {Ten Simple Rules To Combine Teaching and Research},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {4},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000358},
doi = {10.1371/JOURNAL.PCBI.1000358},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/VicensB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/XieLXB09,
author = {Li Xie and
Jerry Li and
Lei Xie and
Philip E. Bourne},
title = {Drug Discovery Using Chemical Systems Biology: Identification of the
Protein-Ligand Binding Network To Explain the Side Effects of {CETP}
Inhibitors},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {5},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000387},
doi = {10.1371/JOURNAL.PCBI.1000387},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/XieLXB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/KinningsLBTXB09,
author = {Sarah L. Kinnings and
Nina Liu and
Nancy Buchmeier and
Peter J. Tonge and
Lei Xie and
Philip E. Bourne},
title = {Drug Discovery Using Chemical Systems Biology: Repositioning the Safe
Medicine Comtan to Treat Multi-Drug and Extensively Drug Resistant
Tuberculosis},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {7},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000423},
doi = {10.1371/JOURNAL.PCBI.1000423},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/KinningsLBTXB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BatemanB09,
author = {Alex Bateman and
Philip E. Bourne},
title = {Ten Simple Rules for Chairing a Scientific Session},
journal = {PLoS Comput. Biol.},
volume = {5},
number = {9},
year = {2009},
url = {https://doi.org/10.1371/journal.pcbi.1000517},
doi = {10.1371/JOURNAL.PCBI.1000517},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BatemanB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/PonomarenkoBLFBSP08,
author = {Julia V. Ponomarenko and
Huynh{-}Hoa Bui and
Wei Li and
Nicholas Fusseder and
Philip E. Bourne and
Alessandro Sette and
Bj{\"{o}}rn Peters},
title = {ElliPro: a new structure-based tool for the prediction of antibody
epitopes},
journal = {{BMC} Bioinform.},
volume = {9},
year = {2008},
url = {https://doi.org/10.1186/1471-2105-9-514},
doi = {10.1186/1471-2105-9-514},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/PonomarenkoBLFBSP08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GuntherKDCSPAUGJSSRBBP08,
author = {Stefan G{\"{u}}nther and
Michael Kuhn and
Mathias Dunkel and
Monica Campillos and
Christian Senger and
Evangelia Petsalaki and
Jessica Ahmed and
Eduardo Garcia Urdiales and
Andreas Gewiess and
Lars Juhl Jensen and
Reinhard Schneider and
Roman Skoblo and
Robert B. Russell and
Philip E. Bourne and
Peer Bork and
Robert Preissner},
title = {SuperTarget and Matador: resources for exploring drug-target relationships},
journal = {Nucleic Acids Res.},
volume = {36},
number = {Database-Issue},
pages = {919--922},
year = {2008},
url = {https://doi.org/10.1093/nar/gkm862},
doi = {10.1093/NAR/GKM862},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GuntherKDCSPAUGJSSRBBP08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BauerBFFGGGHKPWZP08,
author = {Raphael A. Bauer and
Philip E. Bourne and
Arno Formella and
Cornelius Fr{\"{o}}mmel and
Christoph Gille and
Andrean Goede and
Aysam Guerler and
Andreas Hoppe and
Ernst{-}Walter Knapp and
Thorsten P{\"{o}}schel and
Burghardt Wittig and
Valentin Ziegler and
Robert Preissner},
title = {Superimpos{\'{e}}: a 3D structural superposition server},
journal = {Nucleic Acids Res.},
volume = {36},
number = {Web-Server-Issue},
pages = {47--54},
year = {2008},
url = {https://doi.org/10.1093/nar/gkn285},
doi = {10.1093/NAR/GKN285},
timestamp = {Sun, 12 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/BauerBFFGGGHKPWZP08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/FinkKWB08,
author = {J. Lynn Fink and
Sergey Kushch and
Parker R. Williams and
Philip E. Bourne},
title = {BioLit: integrating biological literature with databases},
journal = {Nucleic Acids Res.},
volume = {36},
number = {Web-Server-Issue},
pages = {385--389},
year = {2008},
url = {https://doi.org/10.1093/nar/gkn317},
doi = {10.1093/NAR/GKN317},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/FinkKWB08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ZhangWKHBBBBFGLLNPSZP08,
author = {Qing Zhang and
Peng Wang and
Yohan Kim and
Pernille Haste{-}Andersen and
John E. Beaver and
Philip E. Bourne and
Huynh{-}Hoa Bui and
S{\o}ren Buus and
Sune Frankild and
Jason Greenbaum and
Ole Lund and
Claus Lundegaard and
Morten Nielsen and
Julia V. Ponomarenko and
Alessandro Sette and
Zhanyang Zhu and
Bj{\"{o}}rn Peters},
title = {Immune epitope database analysis resource {(IEDB-AR)}},
journal = {Nucleic Acids Res.},
volume = {36},
number = {Web-Server-Issue},
pages = {513--518},
year = {2008},
url = {https://doi.org/10.1093/nar/gkn254},
doi = {10.1093/NAR/GKN254},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ZhangWKHBBBBFGLLNPSZP08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneFG08,
author = {Philip E. Bourne and
J. Lynn Fink and
Mark Gerstein},
title = {Open Access: Taking Full Advantage of the Content},
journal = {PLoS Comput. Biol.},
volume = {4},
number = {3},
year = {2008},
url = {https://doi.org/10.1371/journal.pcbi.1000037},
doi = {10.1371/JOURNAL.PCBI.1000037},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneFG08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/CorpasGJB08,
author = {Manuel Corpas and
Nils Gehlenborg and
Sarath Chandra Janga and
Philip E. Bourne},
title = {Ten Simple Rules for Organizing a Scientific Meeting},
journal = {PLoS Comput. Biol.},
volume = {4},
number = {6},
year = {2008},
url = {https://doi.org/10.1371/journal.pcbi.1000080},
doi = {10.1371/JOURNAL.PCBI.1000080},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/CorpasGJB08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/VeretnikFB08,
author = {Stella Veretnik and
J. Lynn Fink and
Philip E. Bourne},
title = {Computational Biology Resources Lack Persistence and Usability},
journal = {PLoS Comput. Biol.},
volume = {4},
number = {7},
year = {2008},
url = {https://doi.org/10.1371/journal.pcbi.1000136},
doi = {10.1371/JOURNAL.PCBI.1000136},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/VeretnikFB08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneF08,
author = {Philip E. Bourne and
J. Lynn Fink},
title = {I Am Not a Scientist, {I} Am a Number},
journal = {PLoS Comput. Biol.},
volume = {4},
number = {12},
year = {2008},
url = {https://doi.org/10.1371/journal.pcbi.1000247},
doi = {10.1371/JOURNAL.PCBI.1000247},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneF08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/CohenYBH08,
author = {K. Bretonnel Cohen and
Hong Yu and
Philip E. Bourne and
Lynette Hirschman},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Session Introduction},
booktitle = {Biocomputing 2008, Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, 4-8 January 2008},
pages = {551--555},
publisher = {World Scientific},
year = {2008},
url = {http://psb.stanford.edu/psb-online/proceedings/psb08/textmining.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/CohenYBH08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/CaporasoDFBCH08,
author = {J. Gregory Caporaso and
Nita Deshpande and
J. Lynn Fink and
Philip E. Bourne and
K. Bretonnel Cohen and
Lawrence Hunter},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Intrinsic Evaluation of Text Mining Tools May Not Predict Performance
on Realistic Tasks},
booktitle = {Biocomputing 2008, Proceedings of the Pacific Symposium, Kohala Coast,
Hawaii, USA, 4-8 January 2008},
pages = {640--651},
publisher = {World Scientific},
year = {2008},
url = {http://psb.stanford.edu/psb-online/proceedings/psb08/caporaso.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/CaporasoDFBCH08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ChungBSB07,
author = {Jo{-}Lan Chung and
John E. Beaver and
Eric D. Scheeff and
Philip E. Bourne},
title = {Con-Struct Map: a comparative contact map analysis tool},
journal = {Bioinform.},
volume = {23},
number = {18},
pages = {2491--2492},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btm356},
doi = {10.1093/BIOINFORMATICS/BTM356},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ChungBSB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ChungWB07,
author = {Jo{-}Lan Chung and
Wei Wang and
Philip E. Bourne},
title = {High-throughput identification of interacting protein-protein binding
sites},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-223},
doi = {10.1186/1471-2105-8-223},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ChungWB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/GuB07,
author = {Jenny Gu and
Philip E. Bourne},
title = {Identifying allosteric fluctuation transitions between different protein
conformational states as applied to Cyclin Dependent Kinase 2},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-45},
doi = {10.1186/1471-2105-8-45},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/GuB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/XieB07,
author = {Lei Xie and
Philip E. Bourne},
title = {A robust and efficient algorithm for the shape description of protein
structures and its application in predicting ligand binding sites},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-4}},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-S4-S9},
doi = {10.1186/1471-2105-8-S4-S9},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/XieB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/VicensB07,
author = {Quentin Vicens and
Philip E. Bourne},
title = {Ten Simple Rules for a Successful Collaboration},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {3},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030044},
doi = {10.1371/JOURNAL.PCBI.0030044},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/VicensB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne07,
author = {Philip E. Bourne},
title = {Ten Simple Rules for Making Good Oral Presentations},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {4},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030077},
doi = {10.1371/JOURNAL.PCBI.0030077},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ErrenB07,
author = {Thomas C. Erren and
Philip E. Bourne},
title = {Ten Simple Rules for a Good Poster Presentation},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {5},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030102},
doi = {10.1371/JOURNAL.PCBI.0030102},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ErrenB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/HunterAB07,
author = {Lawrence Hunter and
Russ B. Altman and
Philip E. Bourne},
title = {The International Society for Computational Biology 10th Anniversary},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {6},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030135},
doi = {10.1371/JOURNAL.PCBI.0030135},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/HunterAB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneB07,
author = {Philip E. Bourne and
Steven E. Brenner},
title = {Developing Computational Biology},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {9},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030157},
doi = {10.1371/JOURNAL.PCBI.0030157},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ErrenCEB07,
author = {Thomas C. Erren and
Paul Cullen and
Michael Erren and
Philip E. Bourne},
title = {Ten Simple Rules for Doing Your Best Research, According to Hamming},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {10},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030213},
doi = {10.1371/JOURNAL.PCBI.0030213},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ErrenCEB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GuB07,
author = {Jenny Gu and
Philip E. Bourne},
title = {Ten Simple Rules for Graduate Students},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {11},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030229},
doi = {10.1371/JOURNAL.PCBI.0030229},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/GuB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/XieWB07,
author = {Lei Xie and
Jian Wang and
Philip E. Bourne},
title = {In Silico Elucidation of the Molecular Mechanism Defining the Adverse
Effect of Selective Estrogen Receptor Modulators},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {11},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030217},
doi = {10.1371/JOURNAL.PCBI.0030217},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/XieWB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/GramadaB06,
author = {Apostol Gramada and
Philip E. Bourne},
title = {Multipolar representation of protein structure},
journal = {{BMC} Bioinform.},
volume = {7},
pages = {242},
year = {2006},
url = {https://doi.org/10.1186/1471-2105-7-242},
doi = {10.1186/1471-2105-7-242},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/GramadaB06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/VitaVZSFGSMBBPCCSWSWPS06,
author = {Randi Vita and
Kerrie Vaughan and
Laura Zarebski and
Nima Salimi and
Ward Fleri and
Howard Grey and
Muthu Sathiamurthy and
John Mokili and
Huynh{-}Hoa Bui and
Philip E. Bourne and
Julia V. Ponomarenko and
Romulo de Castro Jr. and
Russell K. Chan and
John Sidney and
Stephen S. Wilson and
Scott Stewart and
Scott Way and
Bj{\"{o}}rn Peters and
Alessandro Sette},
title = {Curation of complex, context-dependent immunological data},
journal = {{BMC} Bioinform.},
volume = {7},
pages = {341},
year = {2006},
url = {https://doi.org/10.1186/1471-2105-7-341},
doi = {10.1186/1471-2105-7-341},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/VitaVZSFGSMBBPCCSWSWPS06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ScheeffB06,
author = {Eric D. Scheeff and
Philip E. Bourne},
title = {Application of protein structure alignments to iterated hidden Markov
model protocols for structure prediction},
journal = {{BMC} Bioinform.},
volume = {7},
pages = {410},
year = {2006},
url = {https://doi.org/10.1186/1471-2105-7-410},
doi = {10.1186/1471-2105-7-410},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ScheeffB06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/KouranovXCCWBB06,
author = {Andrei Kouranov and
Lei Xie and
Joanna de la Cruz and
Li Chen and
John D. Westbrook and
Philip E. Bourne and
Helen M. Berman},
title = {The {RCSB} {PDB} information portal for structural genomics},
journal = {Nucleic Acids Res.},
volume = {34},
number = {Database-Issue},
pages = {302--305},
year = {2006},
url = {https://doi.org/10.1093/nar/gkj120},
doi = {10.1093/NAR/GKJ120},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/KouranovXCCWBB06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneC06,
author = {Philip E. Bourne and
Leo M. Chalupa},
title = {Ten Simple Rules for Getting Grants},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {2},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020012},
doi = {10.1371/JOURNAL.PCBI.0020012},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneC06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/NeshichBB06,
author = {Goran Neshich and
Philip E. Bourne and
S{\o}ren Brunak},
title = {{ISMB} 2006},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {2},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020011},
doi = {10.1371/JOURNAL.PCBI.0020011},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/NeshichBB06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/GuGB06,
author = {Jenny Gu and
Michael Gribskov and
Philip E. Bourne},
title = {Wiggle - Predicting Functionally Flexible Regions from Primary Sequence},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {7},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020090},
doi = {10.1371/JOURNAL.PCBI.0020090},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/GuGB06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne06,
author = {Philip E. Bourne},
title = {One Year of \emph{PLoS Computational Biology}},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {8},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020111},
doi = {10.1371/JOURNAL.PCBI.0020111},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneK06,
author = {Philip E. Bourne and
Alon Korngreen},
title = {Ten Simple Rules for Reviewers},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {9},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020110},
doi = {10.1371/JOURNAL.PCBI.0020110},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneK06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneM06,
author = {Philip E. Bourne and
Johanna R. McEntyre},
title = {Biocurators: Contributors to the World of Science},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {10},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020142},
doi = {10.1371/JOURNAL.PCBI.0020142},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneM06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneF06,
author = {Philip E. Bourne and
Iddo Friedberg},
title = {Ten Simple Rules for Selecting a Postdoctoral Position},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {11},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020121},
doi = {10.1371/JOURNAL.PCBI.0020121},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneF06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneF06a,
author = {Philip E. Bourne and
Iddo Friedberg},
title = {Correction: Ten Simple Rules for Selecting a Postdoctoral Position},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {12},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020181},
doi = {10.1371/JOURNAL.PCBI.0020181},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneF06a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/BourneB06,
author = {Philip E. Bourne and
S{\o}ren Brunak},
title = {{ISMB} 2006},
booktitle = {Proceedings 14th International Conference on Intelligent Systems for
Molecular Biology 2006, Fortaleza, Brazil, August 6-10, 2006},
pages = {1--2},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btl373},
doi = {10.1093/BIOINFORMATICS/BTL373},
timestamp = {Wed, 14 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ismb/BourneB06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/prib/SetteBSBBFKLNPSSWWP06,
author = {Alessandro Sette and
Huynh{-}Hoa Bui and
John Sidney and
Philip E. Bourne and
S{\o}ren Buus and
Ward Fleri and
R. Kubo and
Ole Lund and
D. Nemazee and
Julia V. Ponomarenko and
Muthu Sathiamurthy and
Scott Stewart and
Scott Way and
Stephen S. Wilson and
Bj{\"{o}}rn Peters},
editor = {Jagath C. Rajapakse and
Limsoon Wong and
Raj Acharya},
title = {The Immune Epitope Database and Analysis Resource},
booktitle = {Pattern Recognition in Bioinformatics, International Workshop, {PRIB}
2006, Hong Kong, China, August 20, 2006, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {4146},
pages = {126--132},
publisher = {Springer},
year = {2006},
url = {https://doi.org/10.1007/11818564\_14},
doi = {10.1007/11818564\_14},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/prib/SetteBSBBFKLNPSSWWP06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/MorelandGBZB05,
author = {John L. Moreland and
Apostol Gramada and
Oleksandr V. Buzko and
Qing Zhang and
Philip E. Bourne},
title = {The Molecular Biology Toolkit {(MBT):} a modular platform for developing
molecular visualization applications},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {21},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-21},
doi = {10.1186/1471-2105-6-21},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/MorelandGBZB05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/DeshpandeABMTZKXCFGFWBB05,
author = {Nita Deshpande and
Kenneth J. Addess and
Wolfgang Bluhm and
Jeffrey C. Merino{-}Ott and
Wayne Townsend{-}Merino and
Qing Zhang and
Charlie Knezevich and
Lie Xie and
Li Chen and
Zukang Feng and
Rachel Kramer Green and
Judith L. Flippen{-}Anderson and
John D. Westbrook and
Helen M. Berman and
Philip E. Bourne},
title = {The {RCSB} Protein Data Bank: a redesigned query system and relational
database based on the mmCIF schema},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Database-Issue},
pages = {233--237},
year = {2005},
url = {https://doi.org/10.1093/nar/gki057},
doi = {10.1093/NAR/GKI057},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/DeshpandeABMTZKXCFGFWBB05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BourneBE05,
author = {Philip E. Bourne and
Steven E. Brenner and
Michael B. Eisen},
title = {\emph{PLoS Computational Biology: } {A} New Community Journal},
journal = {PLoS Comput. Biol.},
volume = {1},
number = {1},
year = {2005},
url = {https://doi.org/10.1371/journal.pcbi.0010004},
doi = {10.1371/JOURNAL.PCBI.0010004},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BourneBE05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne05,
author = {Philip E. Bourne},
title = {Will a Biological Database Be Different from a Biological Journal?},
journal = {PLoS Comput. Biol.},
volume = {1},
number = {3},
year = {2005},
url = {https://doi.org/10.1371/journal.pcbi.0010034},
doi = {10.1371/JOURNAL.PCBI.0010034},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/XieB05,
author = {Lei Xie and
Philip E. Bourne},
title = {Functional Coverage of the Human Genome by Existing Structures, Structural
Genomics Targets, and Homology Models},
journal = {PLoS Comput. Biol.},
volume = {1},
number = {3},
year = {2005},
url = {https://doi.org/10.1371/journal.pcbi.0010031},
doi = {10.1371/JOURNAL.PCBI.0010031},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/XieB05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Bourne05a,
author = {Philip E. Bourne},
title = {Ten Simple Rules for Getting Published},
journal = {PLoS Comput. Biol.},
volume = {1},
number = {5},
year = {2005},
url = {https://doi.org/10.1371/journal.pcbi.0010057},
doi = {10.1371/JOURNAL.PCBI.0010057},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Bourne05a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ScheeffB05,
author = {Eric D. Scheeff and
Philip E. Bourne},
title = {Structural Evolution of the Protein Kinase-Like Superfamily},
journal = {PLoS Comput. Biol.},
volume = {1},
number = {5},
year = {2005},
url = {https://doi.org/10.1371/journal.pcbi.0010049},
doi = {10.1371/JOURNAL.PCBI.0010049},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ScheeffB05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/BabbittBM05,
author = {Patricia C. Babbitt and
Philip E. Bourne and
Sean D. Mooney},
editor = {Russ B. Altman and
Tiffany A. Jung and
Teri E. Klein and
A. Keith Dunker and
Lawrence Hunter},
title = {Introduction to Informatics Approaches in Structural Genomics: Modeling
and Representation of Function from Macromolecular STructure},
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/intro-sg.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/BabbittBM05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/BourneWB04,
author = {Philip E. Bourne and
John D. Westbrook and
Helen M. Berman},
title = {The Protein Data Bank and lessons in data management},
journal = {Briefings Bioinform.},
volume = {5},
number = {1},
pages = {23--30},
year = {2004},
url = {https://doi.org/10.1093/bib/5.1.23},
doi = {10.1093/BIB/5.1.23},
timestamp = {Thu, 04 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/BourneWB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/KrebsB04,
author = {Werner G. Krebs and
Philip E. Bourne},
title = {Statistically rigorous automated protein annotation},
journal = {Bioinform.},
volume = {20},
number = {7},
pages = {1066--1073},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/bth039},
doi = {10.1093/BIOINFORMATICS/BTH039},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/KrebsB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PekurovskySB04,
author = {Dmitry Pekurovsky and
Ilya N. Shindyalov and
Philip E. Bourne},
title = {A case study of high-throughput biological data processing on parallel
platforms},
journal = {Bioinform.},
volume = {20},
number = {12},
pages = {1940--1947},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/bth184},
doi = {10.1093/BIOINFORMATICS/BTH184},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/PekurovskySB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/KrebsB04,
author = {Werner G. Krebs and
Philip E. Bourne},
title = {Statistical and Visual Morph Movie Analysis of Crystallographic Mutant
Selection Bias in Protein Mutation Resource Data},
journal = {J. Bioinform. Comput. Biol.},
volume = {2},
number = {1},
pages = {61--76},
year = {2004},
url = {https://doi.org/10.1142/S0219720004000478},
doi = {10.1142/S0219720004000478},
timestamp = {Thu, 04 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbcb/KrebsB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/JiaDSB04,
author = {Yuting Jia and
T. Gregory Dewey and
Ilya N. Shindyalov and
Philip E. Bourne},
title = {A New Scoring Function and Associated Statistical Significance for
Structure Alignment by {CE}},
journal = {J. Comput. Biol.},
volume = {11},
number = {5},
pages = {787--799},
year = {2004},
url = {https://doi.org/10.1089/cmb.2004.11.787},
doi = {10.1089/CMB.2004.11.787},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcb/JiaDSB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BourneABCDFFGMTWWB04,
author = {Philip E. Bourne and
Kenneth J. Addess and
Wolfgang Bluhm and
Li Chen and
Nita Deshpande and
Zukang Feng and
Ward Fleri and
Rachel Kramer Green and
Jeffrey C. Merino{-}Ott and
Wayne Townsend{-}Merino and
Helge Weissig and
John D. Westbrook and
Helen M. Berman},
title = {The distribution and query systems of the {RCSB} Protein Data Bank},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Database-Issue},
pages = {223--225},
year = {2004},
url = {https://doi.org/10.1093/nar/gkh096},
doi = {10.1093/NAR/GKH096},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BourneABCDFFGMTWWB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GudaLSBS04,
author = {Chittibabu Guda and
Sifang Lu and
Eric D. Scheeff and
Philip E. Bourne and
Ilya N. Shindyalov},
title = {{CE-MC:} a multiple protein structure alignment server},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Web-Server-Issue},
pages = {100--103},
year = {2004},
url = {https://doi.org/10.1093/nar/gkh464},
doi = {10.1093/NAR/GKH464},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GudaLSBS04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ngc/LiBHBRSMPQSCABAMB04,
author = {Wilfred W. Li and
Robert W. Byrnes and
Jim Hayes and
Adam Birnbaum and
Vicente M. Reyes and
Atif Shahab and
Coleman Mosley and
Dmitry Pekurovsky and
Greg B. Quinn and
Ilya N. Shindyalov and
Henri Casanova and
Larry Ang and
Fran Berman and
Peter W. Arzberger and
Mark A. Miller and
Philip E. Bourne},
title = {The Encyclopedia of Life Project: Grid Software and Deployment},
journal = {New Gener. Comput.},
volume = {22},
number = {2},
pages = {127--136},
year = {2004},
url = {https://doi.org/10.1007/BF03040951},
doi = {10.1007/BF03040951},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ngc/LiBHBRSMPQSCABAMB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/apbc/Bourne04,
author = {Philip E. Bourne},
editor = {Yi{-}Ping Phoebe Chen},
title = {The Future of Bioinformatics},
booktitle = {Second Asia-Pacific Bioinformatics Conference {(APBC} 2004), January
18-22, 2004, Dunedin, New Zealand},
series = {{CRPIT}},
volume = {29},
pages = {3},
publisher = {Australian Computer Society},
year = {2004},
url = {http://crpit.scem.westernsydney.edu.au/abstracts/CRPITV29Bourne.html},
timestamp = {Thu, 25 Jul 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/apbc/Bourne04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/lsgrid/ShahabCSLBTAMBMA04,
author = {Atif Shahab and
Danny Chuon and
Toyotaro Suzumura and
Wilfred W. Li and
Robert W. Byrnes and
Kouji Tanaka and
Larry Ang and
Satoshi Matsuoka and
Philip E. Bourne and
Mark A. Miller and
Peter W. Arzberger},
editor = {Akihiko Konagaya and
Kenji Satou},
title = {Grid Portal Interface for Interactive Use and Monitoring of High-Throughput
Proteome Annotation},
booktitle = {Grid Computing in Life Science, First International Workshop on Life
Science Grid, {LSGRID} 2004, Kanazawa, Japan, May 31 - June 1, 2004,
Revised Selected andInvited Papers},
series = {Lecture Notes in Computer Science},
volume = {3370},
pages = {53--67},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-32251-1\_6},
doi = {10.1007/978-3-540-32251-1\_6},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/lsgrid/ShahabCSLBTAMBMA04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/lsgrid/BirnbaumHLMABC04,
author = {Adam Birnbaum and
James Hayes and
Wilfred W. Li and
Mark A. Miller and
Peter W. Arzberger and
Philip E. Bourne and
Henri Casanova},
editor = {Akihiko Konagaya and
Kenji Satou},
title = {Grid Workflow Software for a High-Throughput Proteome Annotation Pipeline},
booktitle = {Grid Computing in Life Science, First International Workshop on Life
Science Grid, {LSGRID} 2004, Kanazawa, Japan, May 31 - June 1, 2004,
Revised Selected andInvited Papers},
series = {Lecture Notes in Computer Science},
volume = {3370},
pages = {68--81},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-32251-1\_7},
doi = {10.1007/978-3-540-32251-1\_7},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/lsgrid/BirnbaumHLMABC04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/MooneyBB04,
author = {Sean D. Mooney and
Philip E. Bourne and
Patricia C. Babbitt},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany A. Jung and
Teri E. Klein},
title = {Session Introduction},
booktitle = {Biocomputing 2004, Proceedings of the Pacific Symposium, Hawaii, USA,
6-10 January 2004},
pages = {372--374},
publisher = {World Scientific},
year = {2004},
url = {http://psb.stanford.edu/psb-online/proceedings/psb04/intro-strgen.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/MooneyBB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/BourneAKLSGFLWHGCW04,
author = {Philip E. Bourne and
C. K. J. Allerston and
Werner G. Krebs and
Wilfred W. Li and
Ilya N. Shindyalov and
Adam Godzik and
Iddo Friedberg and
Tong Liu and
David L. Wild and
Seungwoo Hwang and
Zoubin Ghahramani and
Li Chen and
John D. Westbrook},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany A. Jung and
Teri E. Klein},
title = {The Status of Structural Genomics Defined Through the Analysis of
Current Targets and Structures},
booktitle = {Biocomputing 2004, Proceedings of the Pacific Symposium, Hawaii, USA,
6-10 January 2004},
pages = {375--386},
publisher = {World Scientific},
year = {2004},
url = {http://psb.stanford.edu/psb-online/proceedings/psb04/bourne.pdf},
timestamp = {Mon, 11 Jul 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/psb/BourneAKLSGFLWHGCW04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:conf/recomb/2004,
editor = {Philip E. Bourne and
Dan Gusfield},
title = {Proceedings of the Eighth Annual International Conference on Computational
Molecular Biology, 2004, San Diego, California, USA, March 27-31,
2004},
publisher = {{ACM}},
year = {2004},
url = {https://doi.org/10.1145/974614},
doi = {10.1145/974614},
isbn = {1-58113-755-9},
timestamp = {Mon, 13 May 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/recomb/2004.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangCGB03,
author = {Peng Yang and
Paul A. Craig and
David S. Goodsell and
Philip E. Bourne},
title = {BioEditor - Simplifying Macromolecular Structure Annotation},
journal = {Bioinform.},
volume = {19},
number = {7},
pages = {897--898},
year = {2003},
url = {https://doi.org/10.1093/bioinformatics/btg103},
doi = {10.1093/BIOINFORMATICS/BTG103},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangCGB03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csb/Bourne03,
author = {Philip E. Bourne},
title = {High Performance Computational Biology - Past Progress and Future
Promise},
booktitle = {2nd {IEEE} Computer Society Bioinformatics Conference, {CSB} 2003,
Stanford, CA, USA, August 11-14, 2003},
pages = {13},
publisher = {{IEEE} Computer Society},
year = {2003},
url = {https://doi.org/10.1109/CSB.2003.1227289},
doi = {10.1109/CSB.2003.1227289},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/csb/Bourne03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csb/KrebsB03,
author = {Werner G. Krebs and
Philip E. Bourne},
title = {Statistical and Visual Morph Movie Analysis of Crystallographic Mutant
Selection Bias in Protein Mutation Resource Data},
booktitle = {2nd {IEEE} Computer Society Bioinformatics Conference, {CSB} 2003,
Stanford, CA, USA, August 11-14, 2003},
pages = {180--189},
publisher = {{IEEE} Computer Society},
year = {2003},
url = {https://doi.org/10.1109/CSB.2003.1227317},
doi = {10.1109/CSB.2003.1227317},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/csb/KrebsB03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/parco/PekurovskySB03,
author = {Dmitry Pekurovsky and
Ilya N. Shindyalov and
Philip E. Bourne},
editor = {Gerhard R. Joubert and
Wolfgang E. Nagel and
Frans J. Peters and
Wolfgang V. Walter},
title = {Parallel Processing on Large Redudant Biological Data Sets: Protein
Structures Classification with {CEPAR}},
booktitle = {Parallel Computing: Software Technology, Algorithms, Architectures
and Applications, {PARCO} 2003, Dresden, Germany},
series = {Advances in Parallel Computing},
volume = {13},
pages = {661--668},
publisher = {Elsevier},
year = {2003},
timestamp = {Mon, 03 Jun 2013 17:22:02 +0200},
biburl = {https://dblp.org/rec/conf/parco/PekurovskySB03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GreerWB02,
author = {Douglas S. Greer and
John D. Westbrook and
Philip E. Bourne},
title = {An ontology driven architecture for derived representations of macromolecular
structure},
journal = {Bioinform.},
volume = {18},
number = {9},
pages = {1280--1281},
year = {2002},
url = {https://doi.org/10.1093/bioinformatics/18.9.1280},
doi = {10.1093/BIOINFORMATICS/18.9.1280},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/GreerWB02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/WestbrookFJBTRGBWGBB03,
author = {John D. Westbrook and
Zukang Feng and
Shri Jain and
T. N. Bhat and
Narmada Thanki and
Veerasamy Ravichandran and
Gary Gilliland and
Wolfgang Bluhm and
Helge Weissig and
Douglas S. Greer and
Philip E. Bourne and
Helen M. Berman},
title = {The Protein Data Bank: unifying the archive},
journal = {Nucleic Acids Res.},
volume = {30},
number = {1},
pages = {245--248},
year = {2002},
url = {https://doi.org/10.1093/nar/30.1.245},
doi = {10.1093/NAR/30.1.245},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/WestbrookFJBTRGBWGBB03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/LiRTSB03,
author = {Wilfred W. Li and
Boojala V. B. Reddy and
John G. Tate and
Ilya N. Shindyalov and
Philip E. Bourne},
title = {CKAAPs {DB:} a Conserved Key Amino Acid Positions DataBase},
journal = {Nucleic Acids Res.},
volume = {30},
number = {1},
pages = {409--411},
year = {2002},
url = {https://doi.org/10.1093/nar/30.1.409},
doi = {10.1093/NAR/30.1.409},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/LiRTSB03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/eccb/PonomarenkoBS02,
author = {Julia V. Ponomarenko and
Philip E. Bourne and
Ilya N. Shindyalov},
title = {Building an automated classification of DNA-binding protein domains},
booktitle = {Proceedings of the European Conference on Computational Biology {(ECCB}
2002), October 6-9, 2002, Saarbr{\"{u}}cken, Germany},
pages = {192--201},
year = {2002},
timestamp = {Thu, 23 Jun 2016 15:53:27 +0200},
biburl = {https://dblp.org/rec/conf/eccb/PonomarenkoBS02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BhatBFGJRSSTWWB01,
author = {T. N. Bhat and
Philip E. Bourne and
Zukang Feng and
Gary Gilliland and
Shri Jain and
Veerasamy Ravichandran and
Bohdan Schneider and
Kata Schneider and
Narmada Thanki and
Helge Weissig and
John D. Westbrook and
Helen M. Berman},
title = {The {PDB} data uniformity project},
journal = {Nucleic Acids Res.},
volume = {29},
number = {1},
pages = {214--218},
year = {2001},
url = {https://doi.org/10.1093/nar/29.1.214},
doi = {10.1093/NAR/29.1.214},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BhatBFGJRSSTWWB01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ShindyalovB01,
author = {Ilya N. Shindyalov and
Philip E. Bourne},
title = {A database and tools for 3-D protein structure comparison and alignment
using the Combinatorial Extension {(CE)} algorithm},
journal = {Nucleic Acids Res.},
volume = {29},
number = {1},
pages = {228--229},
year = {2001},
url = {https://doi.org/10.1093/nar/29.1.228},
doi = {10.1093/NAR/29.1.228},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ShindyalovB01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/LiRSB01,
author = {Wilfred W. Li and
Boojala V. B. Reddy and
Ilya N. Shindyalov and
Philip E. Bourne},
title = {CKAAPs {DB:} a conserved key amino acid positions database},
journal = {Nucleic Acids Res.},
volume = {29},
number = {1},
pages = {329--331},
year = {2001},
url = {https://doi.org/10.1093/nar/29.1.329},
doi = {10.1093/NAR/29.1.329},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/LiRSB01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/GudaSBS01,
author = {Chittibabu Guda and
Eric D. Scheeff and
Philip E. Bourne and
Ilya N. Shindyalov},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Teri E. Klein},
title = {A New Algorithm for the Alignment of Multiple Protein Structures Using
Monte Carlo Optimization},
booktitle = {Proceedings of the 6th Pacific Symposium on Biocomputing, {PSB} 2001,
Hawaii, USA, January 3-7, 2001},
pages = {275--286},
year = {2001},
url = {http://psb.stanford.edu/psb-online/proceedings/psb01/guda.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/GudaSBS01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WestbrookB00,
author = {John D. Westbrook and
Philip E. Bourne},
title = {STAR/mmCIF: An ontology for macromolecular structure},
journal = {Bioinform.},
volume = {16},
number = {2},
pages = {159--168},
year = {2000},
url = {https://doi.org/10.1093/bioinformatics/16.2.159},
doi = {10.1093/BIOINFORMATICS/16.2.159},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/WestbrookB00.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BourneG00,
author = {Philip E. Bourne and
Michael Gribskov},
title = {{ISMB-2000:} Bioinformatics enters a new millennium},
journal = {Bioinform.},
volume = {16},
number = {9},
pages = {749},
year = {2000},
url = {https://doi.org/10.1093/bioinformatics/16.9.749},
doi = {10.1093/BIOINFORMATICS/16.9.749},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BourneG00.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BermanWFGBWSB00,
author = {Helen M. Berman and
John D. Westbrook and
Zukang Feng and
Gary Gilliland and
T. N. Bhat and
Helge Weissig and
Ilya N. Shindyalov and
Philip E. Bourne},
title = {The Protein Data Bank},
journal = {Nucleic Acids Res.},
volume = {28},
number = {1},
pages = {235--242},
year = {2000},
url = {https://doi.org/10.1093/nar/28.1.235},
doi = {10.1093/NAR/28.1.235},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BermanWFGBWSB00.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:conf/ismb/2000,
editor = {Philip E. Bourne and
Michael Gribskov and
Russ B. Altman and
Nancy Jensen and
Debra A. Hope and
Thomas Lengauer and
Julie C. Mitchell and
Eric D. Scheeff and
Chris Smith and
Shawn Strande and
Helge Weissig},
title = {Proceedings of the Eighth International Conference on Intelligent
Systems for Molecular Biology, August 19-23, 2000, La Jolla / San
Diego, CA, {USA}},
publisher = {{AAAI}},
year = {2000},
isbn = {1-57735-115-0},
timestamp = {Fri, 04 May 2007 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ismb/2000.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WeissigB99,
author = {Helge Weissig and
Philip E. Bourne},
title = {An analysis of the Protein Data Bank in search of temporal and global
trends},
journal = {Bioinform.},
volume = {15},
number = {10},
pages = {807--831},
year = {1999},
url = {https://doi.org/10.1093/bioinformatics/15.10.807},
doi = {10.1093/BIOINFORMATICS/15.10.807},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/WeissigB99.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/QuinnWMB99,
author = {Greg B. Quinn and
H.{-}P. Wang and
David Mart{\'{\i}}nez and
Philip E. Bourne},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Teri E. Klein},
title = {Developing Protein Documentaries and Other Multimedia Presentations
for Molecular Biology},
booktitle = {Proceedings of the 4th Pacific Symposium on Biocomputing, {PSB} 1999,
The Orchid at Mauna Lani, Big Island of Hawaii, USA, January 4-9,
1999},
pages = {380--391},
year = {1999},
url = {http://psb.stanford.edu/psb-online/proceedings/psb99/Quinn.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/QuinnWMB99.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ShindyalovB97,
author = {Ilya N. Shindyalov and
Philip E. Bourne},
title = {Protein data representation and query using optimized data decomposition},
journal = {Comput. Appl. Biosci.},
volume = {13},
number = {5},
pages = {487--496},
year = {1997},
url = {https://doi.org/10.1093/bioinformatics/13.5.487},
doi = {10.1093/BIOINFORMATICS/13.5.487},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/ShindyalovB97.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/BiggsPB97,
author = {John Biggs and
Calton Pu and
Philip E. Bourne},
editor = {Terry Gaasterland and
Peter D. Karp and
Kevin Karplus and
Christos A. Ouzounis and
Chris Sander and
Alfonso Valencia},
title = {Code Generation through Annotation of Macromolecular Structure Data},
booktitle = {Proceedings of the 5th International Conference on Intelligent Systems
for Molecular Biology, Halkidiki, Greece, June 21-26, 1997},
pages = {52--55},
publisher = {{AAAI}},
year = {1997},
url = {http://www.aaai.org/Library/ISMB/1997/ismb97-007.php},
timestamp = {Thu, 13 Dec 2012 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ismb/BiggsPB97.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/hicss/ShindyalovCCB95,
author = {Ilya N. Shindyalov and
Weider Chang and
J. A. Cooper and
Philip E. Bourne},
title = {Design and use of a software framework to obtain information derived
from macromolecular structure data},
booktitle = {28th Annual Hawaii International Conference on System Sciences (HICSS-28),
January 3-6, 1995, Kihei, Maui, Hawaii, {USA}},
pages = {207--216},
publisher = {{IEEE} Computer Society},
year = {1995},
url = {https://doi.org/10.1109/HICSS.1995.375336},
doi = {10.1109/HICSS.1995.375336},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/hicss/ShindyalovCCB95.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhangSFCWKB94,
author = {Peisen Zhang and
Eric A. Schon and
Stuart G. Fischer and
Eftihia Cayanis and
Janie Weiss and
Susan Kistler and
Philip E. Bourne},
title = {An algorithm based on graph theory for the assembly of contigs in
physical mapping of {DNA}},
journal = {Comput. Appl. Biosci.},
volume = {10},
number = {3},
pages = {309--317},
year = {1994},
url = {https://doi.org/10.1093/bioinformatics/10.3.309},
doi = {10.1093/BIOINFORMATICS/10.3.309},
timestamp = {Fri, 15 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhangSFCWKB94.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ChangSPB94,
author = {Weider Chang and
Ilya N. Shindyalov and
Calton Pu and
Philip E. Bourne},
title = {Design and application of PDBlib, a {C++} macromolecular class library},
journal = {Comput. Appl. Biosci.},
volume = {10},
number = {6},
pages = {575--586},
year = {1994},
url = {https://doi.org/10.1093/bioinformatics/10.6.575},
doi = {10.1093/BIOINFORMATICS/10.6.575},
timestamp = {Fri, 15 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/ChangSPB94.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/ChangSPB94,
author = {Weider Chang and
Ilya N. Shindyalov and
Calton Pu and
Philip E. Bourne},
editor = {Russ B. Altman and
Douglas L. Brutlag and
Peter D. Karp and
Richard H. Lathrop and
David B. Searls},
title = {Design and Application of a {C++} Macromolecular Class Library},
booktitle = {Proceedings of the Second International Conference on Intelligent
Systems for Molecular Biology, August 14-17, 1994, Stanford University,
Stanford, California, {USA}},
pages = {70--77},
publisher = {{AAAI}},
year = {1994},
url = {http://www.aaai.org/Library/ISMB/1994/ismb94-009.php},
timestamp = {Thu, 13 Dec 2012 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ismb/ChangSPB94.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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