Integrating biological databases

被引：203

作者：

Stein, LD ^{[1
]}

机构：

[1] Cold Spring Harbor Lab, Cold Spring Harbor, NY 11724 USA

来源：

NATURE REVIEWS GENETICS | 2003年 / 4卷 / 05期

关键词：

D O I：

10.1038/nrg1065

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Recent years have seen an explosion in the amount of available biological data. More and more genomes are being sequenced and annotated, and protein and gene interaction data are accumulating. Biological databases have been invaluable for managing these data and for making them accessible. Depending on the data that they contain, the databases fulfil different functions. But, although they are architecturally similar, so far their integration has proved problematic.

引用

页码：337 / 345

页数：9

共 17 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] PlasmoDB:: the Plasmodium genome resource.: An integrated database providing tools for accessing, analyzing and mapping expression and sequence data (both finished and unfinished) [J].

Bahl, A ;

Brunk, B ;

Coppel, RL ;

Crabtree, J ;

Diskin, SJ ;

Fraunholz, MJ ;

Grant, GR ;

Gupta, D ;

Huestis, RL ;

Kissinger, JC ;

Labo, P ;

Li, L ;

McWeeney, SK ;

Milgram, AJ ;

Roos, DS ;

Schug, J ;

Stoeckert Jr, CJ .

NUCLEIC ACIDS RESEARCH, 2002, 30 (01) :87-90

[3] K2/Kleisli and GUS: Experiments in integrated access to genomic data sources [J].

Davidson, SB ;

Crabtree, J ;

Brunk, BP ;

Schug, J ;

Tannen, V ;

Overton, GC ;

Stoeckert, CJ .

IBM SYSTEMS JOURNAL, 2001, 40 (02) :512-531

[4] The Distributed Annotation System [J].

Dowell, Robin D. ;

Jokerst, Rodney M. ;

Day, Allen ;

Eddy, Sean R. ;

Stein, Lincoln .

BMC BIOINFORMATICS, 2001, 2 (1)

[5]

Foster I, 1999, GRID BLUEPRINT NEW C

[6]

Gelbart WM, 2002, NUCLEIC ACIDS RES, V30, P106

[7] euGenes: a eukaryote genome information system [J].

Gilbert, DG .

NUCLEIC ACIDS RESEARCH, 2002, 30 (01) :145-148

[8] WormBase: a cross-species database for comparative genomics [J].

Harris, TW ;

Lee, R ;

Schwarz, E ;

Bradnam, K ;

Lawson, D ;

Chen, W ;

Blasier, D ;

Kenny, E ;

Cunningham, F ;

Kishore, R ;

Chan, J ;

Muller, HM ;

Petcherski, A ;

Thorisson, G ;

Day, A ;

Bieri, T ;

Rogers, A ;

Chen, CK ;

Spieth, J ;

Sternberg, P ;

Durbin, R ;

Stein, LD .

NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :133-137

[9] The Ensembl genome database project [J].

Hubbard, T ;

Barker, D ;

Birney, E ;

Cameron, G ;

Chen, Y ;

Clark, L ;

Cox, T ;

Cuff, J ;

Curwen, V ;

Down, T ;

Durbin, R ;

Eyras, E ;

Gilbert, J ;

Hammond, M ;

Huminiecki, L ;

Kasprzyk, A ;

Lehvaslaiho, H ;

Lijnzaad, P ;

Melsopp, C ;

Mongin, E ;

Pettett, R ;

Pocock, M ;

Potter, S ;

Rust, A ;

Schmidt, E ;

Searle, S ;

Slater, G ;

Smith, J ;

Spooner, W ;

Stabenau, A ;

Stalker, J ;

Stupka, E ;

Ureta-Vidal, A ;

Vastrik, I ;

Clamp, M .

NUCLEIC ACIDS RESEARCH, 2002, 30 (01) :38-41

[10] The human genome browser at UCSC [J].

Kent, WJ ;

Sugnet, CW ;

Furey, TS ;

Roskin, KM ;

Pringle, TH ;

Zahler, AM ;

Haussler, D .

GENOME RESEARCH, 2002, 12 (06) :996-1006

← 1 2 →