Integration of tools and resources for display and analysis of genomic data for protozoan parasites

被引:7
作者
Aslett, M [1 ]
Mooney, P [1 ]
Adlem, E [1 ]
Berriman, M [1 ]
Berry, A [1 ]
Hertz-Fowler, C [1 ]
Ivens, AC [1 ]
Kerhornou, A [1 ]
Parkhill, J [1 ]
Peacock, CS [1 ]
Wood, V [1 ]
Rajandream, MA [1 ]
Bartell, B [1 ]
Tivey, A [1 ]
机构
[1] Wellcome Trust Sanger Inst, Cambridge CB10 1SA, England
基金
英国惠康基金;
关键词
database; protozoa; curation; annotation; analysis;
D O I
10.1016/j.ijpara.2005.01.011
中图分类号
R38 [医学寄生虫学]; Q [生物科学];
学科分类号
07 ; 0710 ; 09 ; 100103 ;
摘要
Centralisation of tools for analysis of genomic data is paramount in ensuring that research is always carried out on the latest currently available data. As such, World Wide Web sites providing a range of online analyses and displays of data can play a crucial role in guaranteeing consistency of in silico work. In this respect, the protozoan parasite research community is served by several resources, either focussing on data and tools for one species or taking a broader view and providing tools for analysis of data from many species, thereby facilitating comparative studies. In this paper, we give a broad overview of the online resources available. We then focus on the GeneDB project, detailing the features and tools currently available through it. Finally, we discuss data curation and its importance in keeping genomic data 'relevant' to the research community. (c) 2005 Australian Society for Parasitology Inc. Published by Elsevier Ltd. All rights reserved.
引用
收藏
页码:481 / 493
页数:13
相关论文
共 30 条
[1]  
Altschul SF, 1996, METHOD ENZYMOL, V266, P460
[2]   BASIC LOCAL ALIGNMENT SEARCH TOOL [J].
ALTSCHUL, SF ;
GISH, W ;
MILLER, W ;
MYERS, EW ;
LIPMAN, DJ .
JOURNAL OF MOLECULAR BIOLOGY, 1990, 215 (03) :403-410
[3]  
Apweiler R, 2004, NUCLEIC ACIDS RES, V32, pD115, DOI [10.1093/nar/gkw1099, 10.1093/nar/gkh131]
[4]   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
[5]   PRINTS and its automatic supplement, prePRINTS [J].
Attwood, TK ;
Bradley, P ;
Flower, DR ;
Gaulton, A ;
Maudling, N ;
Mitchell, AL ;
Moulton, G ;
Nordle, A ;
Paine, K ;
Taylor, P ;
Uddin, A ;
Zygouri, C .
NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :400-402
[6]   PlasmoDB:: the Plasmodium genome resource.: A database integrating experimental and computational data [J].
Bahl, A ;
Brunk, B ;
Crabtree, J ;
Fraunholz, MJ ;
Gajria, B ;
Grant, GR ;
Ginsburg, H ;
Gupta, D ;
Kissinger, JC ;
Labo, P ;
Li, L ;
Mailman, MD ;
Milgram, AJ ;
Pearson, DS ;
Roos, DS ;
Schug, J ;
Stoeckert, CJ ;
Whetzel, P .
NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :212-215
[7]  
Bateman A, 2004, NUCLEIC ACIDS RES, V32, pD138, DOI [10.1093/nar/gkp985, 10.1093/nar/gkr1065, 10.1093/nar/gkh121]
[8]   Parasites are GO [J].
Berriman, M ;
Aslett, M ;
Hall, N ;
Ivens, A .
TRENDS IN PARASITOLOGY, 2001, 17 (10) :463-464
[9]   Internet resources for the parasite genome projects [J].
Blaxter, M ;
Aslett, M .
TRENDS IN GENETICS, 1997, 13 (01) :40-41
[10]   TcruziDB, an integrated database, and the WWW information server for the Trypanosoma cruzi genome project [J].
Degrave, W ;
deMiranda, AB ;
Amorim, A ;
Brandao, A ;
Aslett, M ;
Vandeyar, M .
MEMORIAS DO INSTITUTO OSWALDO CRUZ, 1997, 92 (06) :805-809