WormBase: a comprehensive resource for nematode research

被引：277

作者：

Harris, Todd W. ^{[1
]}

Antoshechkin, Igor ^{[2
]}

Bieri, Tamberlyn ^{[3
]}

Blasiar, Darin ^{[3
]}

Chan, Juancarlos ^{[2
]}

Chen, Wen J. ^{[2
]}

De La Cruz, Norie ^{[1
]}

Davis, Paul

Duesbury, Margaret

Fang, Ruihua ^{[2
]}

Fernandes, Jolene ^{[2
]}

Han, Michael

Kishore, Ranjana ^{[2
]}

Lee, Raymond ^{[2
]}

Mueller, Hans-Michael ^{[2
]}

Nakamura, Cecilia ^{[2
]}

Ozersky, Philip ^{[3
]}

Petcherski, Andrei ^{[2
]}

Rangarajan, Arun ^{[2
]}

Rogers, Anthony

Schindelman, Gary ^{[2
]}

Schwarz, Erich M. ^{[2
]}

Tuli, Mary Ann ^{[2
]}

Van Auken, Kimberly ^{[2
]}

Wang, Daniel ^{[2
]}

Wang, Xiaodong ^{[2
]}

Williams, Gary

Yook, Karen ^{[2
]}

Durbin, Richard

Stein, Lincoln D. ^{[1
]}

Spieth, John ^{[3
]}

Sternberg, Paul W. ^{[2
,4
]}

机构：

[1] Ontario Inst Canc Res, Toronto, ON M5G 0A3, Canada

[2] CALTECH, Div Biol, Pasadena, CA 91125 USA

[3] Washington Univ, Sch Med, Genome Sequencing Ctr, St Louis, MO 63108 USA

[4] CALTECH, Howard Hughes Med Inst, Pasadena, CA 91125 USA

来源：

NUCLEIC ACIDS RESEARCH | 2010年 / 38卷

基金：

美国国家卫生研究院; 英国医学研究理事会;

关键词：

GENOME; PARASITISM; PATHWAYS; SEQUENCE; DATABASE; ELEGANS;

D O I：

10.1093/nar/gkp952

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

WormBase (http://www.wormbase.org) is a central data repository for nematode biology. Initially created as a service to the Caenorhabditis elegans research field, WormBase has evolved into a powerful research tool in its own right. In the past 2 years, we expanded WormBase to include the complete genomic sequence, gene predictions and orthology assignments from a range of related nematodes. This comparative data enrich the C. elegans data with improved gene predictions and a better understanding of gene function. In turn, they bring the wealth of experimental knowledge of C. elegans to other systems of medical and agricultural importance. Here, we describe new species and data types now available at WormBase. In addition, we detail enhancements to our curatorial pipeline and website infrastructure to accommodate new genomes and an extensive user base.

引用

页码：D463 / D467

页数：5

共 23 条

[1] Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita [J].

Abad, Pierre ;

Gouzy, Jerome ;

Aury, Jean-Marc ;

Castagnone-Sereno, Philippe ;

Danchin, Etienne G. J. ;

Deleury, Emeline ;

Perfus-Barbeoch, Laetitia ;

Anthouard, Veronique ;

Artiguenave, Francois ;

Blok, Vivian C. ;

Caillaud, Marie-Cecile ;

Coutinho, Pedro M. ;

Dasilva, Corinne ;

De Luca, Francesca ;

Deau, Florence ;

Esquibet, Magali ;

Flutre, Timothe ;

Goldstone, Jared V. ;

Hamamouch, Noureddine ;

Hewezi, Tarek ;

Jaillon, Olivier ;

Jubin, Claire ;

Leonetti, Paola ;

Magliano, Marc ;

Maier, Tom R. ;

Markov, Gabriel V. ;

McVeigh, Paul ;

Pesole, Graziano ;

Poulain, Julie ;

Robinson-Rechavi, Marc ;

Sallet, Erika ;

Segurens, Beatrice ;

Steinbach, Delphine ;

Tytgat, Tom ;

Ugarte, Edgardo ;

van Ghelder, Cyril ;

Veronico, Pasqua ;

Baum, Thomas J. ;

Blaxter, Mark ;

Bleve-Zacheo, Teresa ;

Davis, Eric L. ;

Ewbank, Jonathan J. ;

Favery, Bruno ;

Grenier, Eric ;

Henrissat, Bernard ;

Jones, John T. ;

Laudet, Vincent ;

Maule, Aaron G. ;

Quesneville, Hadi ;

Rosso, Marie-Noelle .

NATURE BIOTECHNOLOGY, 2008, 26 (08) :909-915

[2]

[Anonymous], CURR PROTOC BIOINF

[3] InParanoid 6:: eukaryotic ortholog clusters with inparalogs [J].

Berglund, Ann-Charlotte ;

Sjolund, Erik ;

Ostlund, Gabriel ;

Sonnhammer, Erik L. L. .

NUCLEIC ACIDS RESEARCH, 2008, 36 :D263-D266

[4] Genome sequence of the nematode C-elegans:: A platform for investigating biology [J].

不详 .

SCIENCE, 1998, 282 (5396) :2012-2018

[5]

Caspi R, 2008, NUCLEIC ACIDS RES, V36, pD623, DOI [10.1093/nar/gkm900, 10.1093/nar/gkt1103]

[6] Automatic document classification of biological literature [J].

Chen, David ;

Muller, Hans-Michael ;

Sternberg, Paul W. .

BMC BIOINFORMATICS, 2006, 7 (1)

[7] Natural variation in a neuropeptide Y receptor homolog modifies social behavior and food response in C-elegans [J].

de Bono, M ;

Bargmann, CI .

CELL, 1998, 94 (05) :679-689

[8] The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism [J].

Dieterich, Christoph ;

Clifton, Sandra W. ;

Schuster, Lisa N. ;

Chinwalla, Asif ;

Delehaunty, Kimberly ;

Dinkelacker, Iris ;

Fulton, Lucinda ;

Fulton, Robert ;

Godfrey, Jennifer ;

Minx, Pat ;

Mitreva, Makedonka ;

Roeseler, Waltraud ;

Tian, Huiyu ;

Witte, Hanh ;

Yang, Shiaw-Pyng ;

Wilson, Richard K. ;

Sommer, Ralf J. .

NATURE GENETICS, 2008, 40 (10) :1193-1198

[9]

Ghedin E, 2007, SCIENCE, V317, P1756, DOI 10.1126/science.1145406

[10] WormBook:: the online review of Caenorhabditis elegans biology [J].

Girard, Lisa R. ;

Fiedler, Tristan J. ;

Harris, Todd W. ;

Carvalho, Felicia ;

Antoshechkin, Igor ;

Han, Michael ;

Sternberg, Paul W. ;

Stein, Lincoln D. ;

Chalfie, Martin .

NUCLEIC ACIDS RESEARCH, 2007, 35 :D472-D475

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