Promoting coherent minimum reporting guidelines for biological and biomedical investigations:: the MIBBI project

被引:347
作者
Taylor, Chris F. [1 ,2 ]
Field, Dawn [2 ,3 ]
Sansone, Susanna-Assunta [1 ,2 ]
Aerts, Jan [4 ]
Apweiler, Rolf [1 ]
Ashburner, Michael [5 ]
Ball, Catherine A. [6 ]
Binz, Pierre-Alain [7 ,8 ]
Bogue, Molly [9 ]
Booth, Tim [2 ]
Brazma, Alvis [1 ]
Brinkman, Ryan R. [10 ]
Clark, Adam Michael [11 ]
Deutsch, Eric W. [12 ]
Fiehn, Oliver [13 ]
Fostel, Jennifer [14 ,15 ]
Ghazal, Peter [16 ]
Gibson, Frank [17 ]
Gray, Tanya [2 ,3 ]
Grimes, Graeme [16 ]
Hancock, John M. [18 ]
Hardy, Nigel W. [19 ]
Hermjakob, Henning [1 ]
Julian, Randall K., Jr. [20 ]
Kane, Matthew [21 ]
Kettner, Carsten [22 ]
Kinsinger, Christopher [23 ]
Kolker, Eugene [24 ,25 ]
Kuiper, Martin [26 ,27 ,28 ]
Le Novere, Nicolas [1 ]
Leebens-Mack, Jim [29 ]
Lewis, Suzanna E. [30 ]
Lord, Phillip [17 ]
Mallon, Ann-Marie [18 ]
Marthandan, Nishanth [31 ]
Masuya, Hiroshi [32 ]
McNally, Ruth [33 ]
Mehrle, Alexander [34 ]
Morrison, Norman [2 ,35 ]
Orchard, Sandra [1 ]
Quackenbush, John [36 ,37 ]
Reecy, James M. [38 ]
Robertson, Donald G. [39 ]
Rocca-Serra, Philippe [1 ]
Rodriguez, Henry [23 ]
Rosenfelder, Heiko [34 ]
Santoyo-Lopez, Javier [16 ]
Scheuermann, Richard H. [31 ]
Schober, Daniel [1 ]
Smith, Barry [40 ,41 ]
机构
[1] European Bioinformat Inst, Hinxton CB10 1SD, Cambs, England
[2] NERC, Environm Bioinformat Ctr, Oxford OX1 3SR, England
[3] Oxford Ctr Ecol & Hydrol, Mol Evolut & Bioinformat Grp, Oxford OX1 3SR, England
[4] Wellcome Trust Sanger Inst, Hinxton CB10 1SA, Cambs, England
[5] Univ Cambridge, Dept Genet, Cambridge CB2 3EH, England
[6] Stanford Univ, Dept Biochem, Stanford Microarray Database, Stanford, CA 94305 USA
[7] Swiss Inst Bioinformat, CH-1211 Geneva, Switzerland
[8] Geneva Bioinformat GeneBio SA, CH-1206 Geneva, Switzerland
[9] Jackson Lab, Jax Mouse Phenome Project, Bar Harbor, ME 04609 USA
[10] British Columbia Canc Agcy, Terry Fox Lab, Vancouver, BC V5Z 1L3, Canada
[11] Lance Armstrong Fdn, Austin, TX 78716 USA
[12] Inst Syst Biol, Seattle, WA 98103 USA
[13] Univ Calif Davis, Genome Ctr, Davis, CA 95616 USA
[14] NIEHS, Res Triangle Pk, NC 27709 USA
[15] Lockheed Martin Informat Technol, Res Triangle Pk, NC 27709 USA
[16] Univ Edinburgh, Sch Med, Div Pathway Med, Edinburgh EH16 4SB, Midlothian, Scotland
[17] Newcastle Univ, Sch Comp Sci, Newcastle Upon Tyne NE1 7RU, Tyne & Wear, England
[18] MRC, Bioinformat Grp, Mammalian Genet Unit, Harwell OX11 0RD, Oxon, England
[19] Aberystwyth Univ, Dept Comp Sci, Aberystwyth SY23 3DB, Dyfed, Wales
[20] Indigo BioSyst Inc, Carmel, IN 46032 USA
[21] Natl Sci Fdn, Div Mol & Cellular Biosci, Arlington, VA 22230 USA
[22] Beilstein Inst Forderung Chem Wissensch, D-60487 Frankfurt, Germany
[23] NCI, Off Technol & Ind Relat, Off Director, Bethesda, MD 20892 USA
[24] Seattle Childrens Hosp Res Inst, Seattle, WA 98101 USA
[25] Seattle Childrens Hosp & Reg Med Ctr, Seattle, WA 98105 USA
[26] Univ Ghent VIB, Dept Plant Syst Biol, B-9052 Ghent, Belgium
[27] Univ Ghent, B-9052 Ghent, Belgium
[28] Norwegian Univ Sci & Technol, Dept Biol, N-7491 Trondheim, Norway
[29] Univ Georgia, Dept Plant Biol, Athens, GA 30602 USA
[30] Univ Calif Berkeley, Dept Mol & Cellular Biol, Berkeley, CA 94729 USA
[31] Univ Texas SW Med Ctr Dallas, Dept Pathol, Dallas, TX 75390 USA
[32] RIKEN, Genom Sci Ctr, Tsukuba, Ibaraki 3050074, Japan
[33] Univ Lancaster, Inst Adv Studies, ESRC CESAGen, Lancaster LA1 4YD, England
[34] German Canc Res Ctr, Div Mol Genome Anal, D-69120 Heidelberg, Germany
[35] Univ Manchester, Sch Comp Sci, Manchester M13 9PL, Lancs, England
[36] Harvard Univ, Sch Publ Hlth, Dept Biostat, Dana Farber Canc Inst,Dept Canc Biol, Boston, MA 02115 USA
[37] Harvard Univ, Sch Publ Hlth, Dana Farber Canc Inst, Dept Biostat,Dept Biostat & Computat Biol, Boston, MA 02115 USA
[38] Iowa State Univ, Dept Anim Sci, Ctr Integrated Anim Genom, Ames, IA 50011 USA
[39] Bristol Myers Squibb Co, Princeton, NJ 08543 USA
[40] SUNY Buffalo, Dept Philosophy, Buffalo, NY 14260 USA
[41] SUNY Buffalo, Ctr Excellence Bioinformat & Life Sci, Buffalo, NY 14260 USA
[42] AstraZeneca UK Ltd, Brixham TQ5 8BA, Devon, England
[43] Ctr Bioinformat, Dept Genet, Philadelphia, PA 19104 USA
[44] Univ Dublin Trinity Coll, Sch Biochem & Immunol, Dublin 2, Ireland
[45] Wageningen Univ, Dept Plant Sci, Mol Biol Lab, Wageningen, Netherlands
[46] Ghent Univ Hosp, Ctr Med Genet, B-9000 Ghent, Belgium
基金
英国自然环境研究理事会; 英国生物技术与生命科学研究理事会; 英国医学研究理事会; 美国国家科学基金会;
关键词
D O I
10.1038/nbt.1411
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
The Minimum Information for Biological and Biomedical Investigations (MIBBI) project aims to foster the coordinated development of minimum-information checklists and provide a resource for those exploring the range of extant checklists.
引用
收藏
页码:889 / 896
页数:8
相关论文
共 21 条
[11]   A special issue on data standards [J].
Field, Dawn ;
Sansone, Susanna-Assunta .
OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, 2006, 10 (02) :84-93
[12]   The Functional Genomics Experiment model (FuGE): an extensible framework for standards in functional genomics [J].
Jones, Andrew R. ;
Miller, Michael ;
Aebersold, Ruedi ;
Apweiler, Rolf ;
Ball, Catherine A. ;
Brazma, Alvis ;
DeGreef, James ;
Hardy, Nigel ;
Hermjakob, Henning ;
Hubbard, Simon J. ;
Hussey, Peter ;
Igra, Mark ;
Jenkins, Helen ;
Julian, Randall K., Jr. ;
Laursen, Kent ;
Oliver, Stephen G. ;
Paton, Norman W. ;
Sansone, Susanna-Assunta ;
Sarkans, Ugis ;
Stoeckert, Christian J., Jr. ;
Taylor, Chris F. ;
Whetzel, Patricia L. ;
White, Joseph A. ;
Spellman, Paul ;
Pizarro, Angel .
NATURE BIOTECHNOLOGY, 2007, 25 (10) :1127-1133
[13]   Minimum information requested in the annotation of biochemical models (MIRIAM) [J].
Le Novère, N ;
Finney, A ;
Hucka, M ;
Bhalla, US ;
Campagne, F ;
Collado-Vides, J ;
Crampin, EJ ;
Halstead, M ;
Klipp, E ;
Mendes, P ;
Nielsen, P ;
Sauro, H ;
Shapiro, B ;
Snoep, JL ;
Spence, HD ;
Wanner, BL .
NATURE BIOTECHNOLOGY, 2005, 23 (12) :1509-1515
[14]   Annotation of environmental OMICS data: Application to the transcriptomics domain [J].
Morrison, Norman ;
Wood, A. Joseph ;
Hancock, David ;
Shah, Sonia ;
Hakes, Luke ;
Gray, Tanya ;
Tiwari, Bela ;
Kille, Peter ;
Cossins, Andrew ;
Hegarty, Matthew ;
Allen, Michael J. ;
Wilson, William H. ;
Olive, Peter ;
Last, Kim ;
Kramer, Cas ;
Bailhache, Thierry ;
Reeves, Jonathan ;
Pallett, Denise ;
Warne, Justin ;
Nashar, Karim ;
Parkinson, Helen ;
Sansone, Susanna-Assunta ;
Rocca-Serra, Philippe ;
Stevens, Robert ;
Snape, Jason ;
Brass, Andy ;
Field, Dawn .
OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, 2006, 10 (02) :172-178
[15]   Concept of sample in OMICS technology [J].
Morrison, Norman ;
Cochrane, Guy ;
Faruque, Nadeem ;
Tatusova, Tatiana ;
Tateno, Yoshio ;
Hancock, David ;
Field, Dawn .
OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, 2006, 10 (02) :127-137
[16]   Standardizing the standards [J].
Quackenbush, John .
MOLECULAR SYSTEMS BIOLOGY, 2006, 2 (1)
[17]   The first RSBI (ISA-TAB) workshop: "Can a Simple Format Work for Complex Studies?" [J].
Sansone, Susanna-Assunta ;
Rocca-Serra, Philippe ;
Brandizi, Marco ;
Brazma, Alvis ;
Field, Dawn ;
Fostel, Jennifer ;
Garrow, Andrew G. ;
Gilbert, Jack ;
Goodsaid, Federico ;
Hardy, Nigel ;
Jones, Phil ;
Lister, Allyson ;
Miller, Michael ;
Morrison, Norman ;
Rayner, Tim ;
Sklyar, Nataliya ;
Taylor, Chris ;
Tong, Weida ;
Warner, Guy ;
Wiemann, Stefan .
OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, 2008, 12 (02) :143-149
[18]   A strategy capitalizing on synergies: The Reporting Structure for Biological Investigation (RSBI) working group [J].
Sansone, Susanna-Assunta ;
Rocca-Serra, Philippe ;
Tong, Weida ;
Fostel, Jennifer ;
Morrison, Norman ;
Jones, Andrew R. .
OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, 2006, 10 (02) :164-171
[19]   The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration [J].
Smith, Barry ;
Ashburner, Michael ;
Rosse, Cornelius ;
Bard, Jonathan ;
Bug, William ;
Ceusters, Werner ;
Goldberg, Louis J. ;
Eilbeck, Karen ;
Ireland, Amelia ;
Mungall, Christopher J. ;
Leontis, Neocles ;
Rocca-Serra, Philippe ;
Ruttenberg, Alan ;
Sansone, Susanna-Assunta ;
Scheuermann, Richard H. ;
Shah, Nigam ;
Whetzel, Patricia L. ;
Lewis, Suzanna .
NATURE BIOTECHNOLOGY, 2007, 25 (11) :1251-1255
[20]   The minimum information about a proteomics experiment (MIAPE) [J].
Taylor, Chris F. ;
Paton, Norman W. ;
Lilley, Kathryn S. ;
Binz, Pierre-Alain ;
Julian, Randall K., Jr. ;
Jones, Andrew R. ;
Zhu, Weimin ;
Apweiler, Rolf ;
Aebersold, Ruedi ;
Deutsch, Eric W. ;
Dunn, Michael J. ;
Heck, Albert J. R. ;
Leitner, Alexander ;
Macht, Marcus ;
Mann, Matthias ;
Martens, Lennart ;
Neubert, Thomas A. ;
Patterson, Scott D. ;
Ping, Peipei ;
Seymour, Sean L. ;
Souda, Puneet ;
Tsugita, Akira ;
Vandekerckhove, Joel ;
Vondriska, Thomas M. ;
Whitelegge, Julian P. ;
Wilkins, Marc R. ;
Xenarios, Ioannnis ;
Yates, John R., III ;
Hermjakob, Henning .
NATURE BIOTECHNOLOGY, 2007, 25 (08) :887-893