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Published, Version of Record (VoR)CC BY V4.0, Open
Journal article
Finding Our Way through Phenotypes
PLoS biology, v 13(1), pp e1002033-e1002033
01 Jan 2015
PMID: 25562316
Featured in Collection : UN Sustainable Development Goals @ Drexel
Abstract
Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human-and machine-interpretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bottleneck to integration across many key fields in biology, including genomics, systems biology, development, medicine, evolution, ecology, and systematics. Here we survey the current phenomics landscape, including data resources and handling, and the progress that has been made to accurately capture relevant data descriptions for phenotypes. We present an example of the kind of integration across domains that computable phenotypes would enable, and we call upon the broader biology community, publishers, and relevant funding agencies to support efforts to surmount today's data barriers and facilitate analytical reproducibility.
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Details
- Title
- Finding Our Way through Phenotypes
- Creators
- Andrew R. Deans - Pennsylvania State UniversitySuzanna E. Lewis - Lawrence Berkeley National LaboratoryEva Huala - Carnegie Institution for ScienceSalvatore S. Anzaldo - Arizona State UniversityMichael Ashburner - University of CambridgeJames P. Balhoff - National Evolutionary Synthesis CenterDavid C. Blackburn - California Academy of SciencesJudith A. Blake - Jackson Lab, Bar Harbor, ME 04609 USAJ. Gordon Burleigh - University of FloridaBruno Chanet - Museum Natl Hist Nat, Dept Systemat & Evolut, F-75231 Paris, FranceLaurel D. Cooper - Oregon State UniversityMelanie Courtot - Simon Fraser UniversitySandor Csoesz - Ecol Res Grp, MTA ELTE MTM, Budapest, HungaryHong Cui - University of ArizonaWasila Dahdul - University of South DakotaSandip Das - University of DelhiT. Alexander Dececchi - University of South DakotaAgnes Dettai - Museum Natl Hist Nat, Dept Systemat & Evolut, F-75231 Paris, FranceRui Diogo - Howard UniversityRobert E. Druzinsky - University of Illinois at ChicagoMichel Dumontier - Stanford UniversityNico M. Franz - Arizona State UniversityFrank Friedrich - Universität HamburgGeorge V. Gkouto - Aberystwyth Univ, Dept Comp Sci, Aberystwyth, Ceredigion, WalesMelissa Haendel - Oregon Health & Science UniversityLuke J. Harmon - University of IdahoTerry F. Hayamizu - Jackson Lab, Bar Harbor, ME 04609 USAYongqun He - University of Michigan–Ann ArborHeather M. Hines - Pennsylvania State UniversityNizar Ibrahim - University of ChicagoLaura M. Jackson - University of South DakotaPankaj Jaiswal - Oregon State UniversityChristina James-Zorn - Cincinnati Children's Hospital Medical CenterSebastian Koehler - Charite, Inst Med Genet & Human Genet, D-13353 Berlin, GermanyGuillaume Lecointre - Museum Natl Hist Nat, Dept Systemat & Evolut, F-75231 Paris, FranceHilmar Lapp - National Evolutionary Synthesis CenterCarolyn J. Lawrence - Iowa State UniversityNicolas Le Novere - Babraham InstituteJohn G. Lundberg - Academy of Natural Sciences of Drexel UniversityJames Macklin - Eastern Cereal & Oilseed Res Ctr, Ottawa, ON, CanadaAustin R. Mast - Florida State UniversityPeter E. MidfordIstvan Miko - Pennsylvania State UniversityChristopher J. Mungall - Lawrence Berkeley National LaboratoryAnika Oellrich - European Mol Biol Lab, European Bioinformat Inst, Hinxton, Cambs, EnglandDavid Osumi-Sutherland - European Mol Biol Lab, European Bioinformat Inst, Hinxton, Cambs, EnglandHelen Parkinson - European Mol Biol Lab, European Bioinformat Inst, Hinxton, Cambs, EnglandMartin J. Ramirez - Consejo Nacl Invest Cient & Tecn, Museo Argentino Ciencias Nat, Div Arachnol, RA-1033 Buenos Aires, DF, ArgentinaStefan Richter - University of RostockPeter N. Robinson - Charité - University Medicine BerlinAlan Ruttenberg - University at Buffalo, State University of New YorkKatja S. Schulz - Smithsonian InstitutionErik Segerdell - Oregon Health & Science UniversityKatja C. Seltmann - American Museum of Natural HistoryMichael J. Sharkey - University of KentuckyAaron D. Smith - Northern Arizona UniversityBarry Smith - University at Buffalo, State University of New YorkChelsea D. Specht - University of California, BerkeleyR. Burke Squires - National Institutes of HealthRobert W. Thacker - University of Alabama at BirminghamAnne Thessen - Data Detektiv, Waltham, MA USAJose Fernandez-Triana - Canadian Natl Collect Insects, Ottawa, ON, CanadaMauno Vihinen - Lund UniversityPeter D. Vize - University of CalgaryLars Vogt - University of BonnChristine E. Wall - Duke UniversityRamona L. Walls - University of ArizonaMonte Westerfeld - University of OregonRobert A. Wharton - Texas A&M UniversityChristian S. Wirkner - University of RostockJames B. Woolley - Texas A&M UniversityMatthew J. Yoder - University of Illinois Urbana-ChampaignAaron M. Zorn - Cincinnati Children's Hospital Medical CenterPaula M. Mabee - University of South DakotaLawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)Sanjay Das - Microbiology and Immunology
- Publication Details
- PLoS biology, v 13(1), pp e1002033-e1002033
- Publisher
- Public Library Science
- Number of pages
- 9
- Grant note
- P41HD064556 / EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH & HUMAN DEVELOPMENT; United States Department of Health & Human Services; National Institutes of Health (NIH) - USA; NIH Eunice Kennedy Shriver National Institute of Child Health & Human Development (NICHD) DEB-0956049 / US National Science Foundation; National Science Foundation (NSF) BBS/E/B/000C0419 / BBSRC; UK Research & Innovation (UKRI); Biotechnology and Biological Sciences Research Council (BBSRC) 1115210 / Div Of Biological Infrastructure; National Science Foundation (NSF); NSF - Directorate for Biological Sciences (BIO) BBS/E/W/10961A01 / Biotechnology and Biological Sciences Research Council; UK Research & Innovation (UKRI); Biotechnology and Biological Sciences Research Council (BBSRC) 1340112 / Division Of Integrative Organismal Systems; National Science Foundation (NSF); NSF - Directorate for Biological Sciences (BIO) P30CA034196 / NATIONAL CANCER INSTITUTE; United States Department of Health & Human Services; National Institutes of Health (NIH) - USA; NIH National Cancer Institute (NCI) 1523605 / Division Of Environmental Biology; National Science Foundation (NSF); NSF - Directorate for Biological Sciences (BIO) 1208666 / Direct For Biological Sciences; National Science Foundation (NSF); NSF - Directorate for Biological Sciences (BIO)
- Resource Type
- Journal article
- Language
- English
- Academic Unit
- Biodiversity, Earth, and Environmental Science (BEES); Microbiology and Immunology
- Web of Science ID
- WOS:000349169900001
- Scopus ID
- 2-s2.0-84922211548
- Other Identifier
- 991019173562104721
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- Collaboration types
- Domestic collaboration
- International collaboration
- Web of Science research areas
- Biochemistry & Molecular Biology
- Biology