A special issue on data standards

被引:31
作者
Field, Dawn
Sansone, Susanna-Assunta
机构
[1] Oxford Ctr Ecol & Hydrol, Mol Evolut & Bioinformat Sect, Oxford OX1 3SR, England
[2] EBI, EMBL, Cambridge, England
基金
英国自然环境研究理事会;
关键词
D O I
10.1089/omi.2006.10.84
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
This special issue arose as a response to the ongoing proliferation of grass roots, community-driven international data standardization activities. It is our hope that giving a range of participants in such activities the opportunity to contribute up-to-date descriptions of their efforts will help foster dialogue, raise awareness, and make a call for action on behalf of this rapidly growing community. This issue is not an exhaustive review of activities, but provides a snapshot of a range of activities at different stages of maturity and their growing interactions. It is organized into four groups of papers on data standardization activites in the fields of genomics, the post-genomic technologies of transcriptomics, proteomics and metabolomics and integrative activites, and other initiatives. Each invited piece contains details of the current status, future prospects, and successes and challenges of these efforts, making this issue a resource for those wishing to track, participate, or conform to any of these standardization activities, as well as those wishing to initiate new activities. In this foreword, we provide a brief background to the practice and methodology being adopted in the development of OMICS standards, review the content of this special issue, and attempt to highlight the growing interactions and synergies between groups.
引用
收藏
页码:84 / 93
页数:10
相关论文
共 16 条
[1]   Gene Ontology: tool for the unification of biology [J].
Ashburner, M ;
Ball, CA ;
Blake, JA ;
Botstein, D ;
Butler, H ;
Cherry, JM ;
Davis, AP ;
Dolinski, K ;
Dwight, SS ;
Eppig, JT ;
Harris, MA ;
Hill, DP ;
Issel-Tarver, L ;
Kasarskis, A ;
Lewis, S ;
Matese, JC ;
Richardson, JE ;
Ringwald, M ;
Rubin, GM ;
Sherlock, G .
NATURE GENETICS, 2000, 25 (01) :25-29
[2]  
ASHBURNER M, 2006, NUCL ACIDS, V34, pD173
[3]   The external RNA controls consortium: a progress report [J].
Baker, SC ;
Bauer, SR ;
Beyer, RP ;
Brenton, JD ;
Bromley, B ;
Burrill, J ;
Causton, H ;
Conley, MP ;
Elespuru, R ;
Fero, M ;
Foy, C ;
Fuscoe, J ;
Gao, XL ;
Gerhold, DL ;
Gilles, P ;
Goodsaid, F ;
Guo, X ;
Hackett, J ;
Hockett, RD ;
Ikonomi, P ;
Irizarry, RA ;
Kawasaki, ES ;
Kaysser-Kranich, T ;
Kerr, K ;
Kiser, G ;
Koch, WH ;
Lee, KY ;
Liu, CM ;
Liu, ZL ;
Lucas, A ;
Manohar, CF ;
Miyada, G ;
Modrusan, Z ;
Parkes, H ;
Puri, RK ;
Reid, L ;
Ryder, TB ;
Salit, M ;
Samaha, RR ;
Scherf, U ;
Sendera, TJ ;
Setterquist, RA ;
Shi, LM ;
Shippy, R ;
Soriano, JV ;
Wagar, EA ;
Warrington, JA ;
Williams, M ;
Wilmer, F ;
Wilson, M .
NATURE METHODS, 2005, 2 (10) :731-734
[4]   Minimum information about a microarray experiment (MIAME) - toward standards for microarray data [J].
Brazma, A ;
Hingamp, P ;
Quackenbush, J ;
Sherlock, G ;
Spellman, P ;
Stoeckert, C ;
Aach, J ;
Ansorge, W ;
Ball, CA ;
Causton, HC ;
Gaasterland, T ;
Glenisson, P ;
Holstege, FCP ;
Kim, IF ;
Markowitz, V ;
Matese, JC ;
Parkinson, H ;
Robinson, A ;
Sarkans, U ;
Schulze-Kremer, S ;
Stewart, J ;
Taylor, R ;
Vilo, J ;
Vingron, M .
NATURE GENETICS, 2001, 29 (04) :365-371
[5]   The Sequence Ontology: a tool for the unification of genome annotations [J].
Eilbeck, K ;
Lewis, SE ;
Mungall, CJ ;
Yandell, M ;
Stein, L ;
Durbin, R ;
Ashburner, M .
GENOME BIOLOGY, 2005, 6 (05)
[6]   WHOLE-GENOME RANDOM SEQUENCING AND ASSEMBLY OF HAEMOPHILUS-INFLUENZAE RD [J].
FLEISCHMANN, RD ;
ADAMS, MD ;
WHITE, O ;
CLAYTON, RA ;
KIRKNESS, EF ;
KERLAVAGE, AR ;
BULT, CJ ;
TOMB, JF ;
DOUGHERTY, BA ;
MERRICK, JM ;
MCKENNEY, K ;
SUTTON, G ;
FITZHUGH, W ;
FIELDS, C ;
GOCAYNE, JD ;
SCOTT, J ;
SHIRLEY, R ;
LIU, LI ;
GLODEK, A ;
KELLEY, JM ;
WEIDMAN, JF ;
PHILLIPS, CA ;
SPRIGGS, T ;
HEDBLOM, E ;
COTTON, MD ;
UTTERBACK, TR ;
HANNA, MC ;
NGUYEN, DT ;
SAUDEK, DM ;
BRANDON, RC ;
FINE, LD ;
FRITCHMAN, JL ;
FUHRMANN, JL ;
GEOGHAGEN, NSM ;
GNEHM, CL ;
MCDONALD, LA ;
SMALL, KV ;
FRASER, CM ;
SMITH, HO ;
VENTER, JC .
SCIENCE, 1995, 269 (5223) :496-512
[7]   The Gene Ontology (GO) project in 2006 [J].
Harris, Midori A. ;
Clark, Jennifer I. ;
Ireland, Amelia ;
Lomax, Jane ;
Ashburner, Michael ;
Collins, Russell ;
Eilbeck, Karen ;
Lewis, Suzanna ;
Mungall, Chris ;
Richter, John ;
Rubin, Gerald M. ;
Shu, ShengQiang ;
Blake, Judith A. ;
Bult, Carol J. ;
Diehl, Alexander D. ;
Dolan, Mary E. ;
Drabkin, Harold J. ;
Eppig, Janan T. ;
Hill, David P. ;
Ni, Li ;
Ringwald, Martin ;
Balakrishnan, Rama ;
Binkley, Gail ;
Cherry, J. Michael ;
Christie, Karen R. ;
Costanzo, Maria C. ;
Dong, Qing ;
Engel, Stacia R. ;
Fisk, Dianna G. ;
Hirschman, Jodi E. ;
Hitz, Benjamin C. ;
Hong, Eurie L. ;
Lane, Christopher ;
Miyasato, Stuart ;
Nash, Robert ;
Sethuraman, Anand ;
Skrzypek, Marek ;
Theesfeld, Chandra L. ;
Weng, Shuai ;
Botstein, David ;
Dolinski, Kara ;
Oughtred, Rose ;
Berardini, Tanya ;
Mundodi, Suparna ;
Rhee, Seung Y. ;
Apweiler, Rolf ;
Barrell, Daniel ;
Camon, Evelyn ;
Dimmer, Emily ;
Mulder, Nicola .
NUCLEIC ACIDS RESEARCH, 2006, 34 :D322-D326
[8]   Ecological perspectives on the sequenced genome collection [J].
Martiny, JBH ;
Field, D .
ECOLOGY LETTERS, 2005, 8 (12) :1334-1345
[9]  
*NAS, 2003, NAS COMM RESP AUTH B
[10]  
*NIH, 2006, NIH ROADM BIOINF COM