Genome annotation:: which tools do we have for it?

被引：38

作者：

Rouzé, P

Pavy, N

Rombauts, S

机构：

[1] Univ Ghent, INRA, B-9000 Ghent, Belgium

[2] State Univ Ghent VIB, Dept Genet, B-9000 Ghent, Belgium

来源：

CURRENT OPINION IN PLANT BIOLOGY | 1999年 / 2卷 / 02期

关键词：

D O I：

10.1016/S1369-5266(99)80019-3

中图分类号：

Q94 [植物学];

学科分类号：

071001 ;

摘要：

Genome data have to be converted into knowledge to be useful to biologists. Many valuable computational tools have already been developed to help annotation of plant genome sequences, and these may be improved further, for example by identification of more gene regulatory elements. The lack of a standard computer-assisted annotation platform for eukaryotic genomes remains a major bottle-neck.

引用

页码：90 / 95

页数：6

共 60 条

[1] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].

Altschul, SF ;

Madden, TL ;

Schaffer, AA ;

Zhang, JH ;

Zhang, Z ;

Miller, W ;

Lipman, DJ .

NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402

[2] Automatic extraction of keywords from scientific text: application to the knowledge domain of protein families [J].

Andrade, MA ;

Valencia, A .

BIOINFORMATICS, 1998, 14 (07) :600-607

[3] GAIA: Framework annotation of genomic sequence [J].

Bailey, LC ;

Fischer, S ;

Schug, J ;

Crabtree, J ;

Gibson, M ;

Overton, GC .

GENOME RESEARCH, 1998, 8 (03) :234-250

[4] The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999 [J].

Bairoch, A ;

Apweiler, R .

NUCLEIC ACIDS RESEARCH, 1999, 27 (01) :49-54

[5] Recent developments in biological sequence databases [J].

Baker, PG ;

Brass, A .

CURRENT OPINION IN BIOTECHNOLOGY, 1998, 9 (01) :54-58

[6] Analysis of 1.9 Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana [J].

Bevan, M ;

Bancroft, I ;

Bent, E ;

Love, K ;

Goodman, H ;

Dean, C ;

Bergkamp, R ;

Dirkse, W ;

Van Staveren, M ;

Stiekema, W ;

Drost, L ;

Ridley, P ;

Hudson, SA ;

Patel, K ;

Murphy, G ;

Piffanelli, P ;

Wedler, H ;

Wedler, E ;

Wambutt, R ;

Weitzenegger, T ;

Pohl, TM ;

Terryn, N ;

Gielen, J ;

Villarroel, R ;

De Clerck, R ;

Van Montagu, M ;

Lecharny, A ;

Auborg, S ;

Gy, I ;

Kreis, M ;

Lao, N ;

Kavanagh, T ;

Hempel, S ;

Kotter, P ;

Entian, KD ;

Rieger, M ;

Schaeffer, M ;

Funk, B ;

Mueller-Auer, S ;

Silvey, M ;

James, R ;

Montfort, A ;

Pons, A ;

Puigdomenech, P ;

Douka, A ;

Voukelatou, E ;

Milioni, D ;

Hatzopoulos, P ;

Piravandi, E ;

Obermaier, B .

NATURE, 1998, 391 (6666) :485-488

[7] Predicting function: From genes to genomes and back [J].

Bork, P ;

Dandekar, T ;

Diaz-Lazcoz, Y ;

Eisenhaber, F ;

Huynen, M ;

Yuan, YP .

JOURNAL OF MOLECULAR BIOLOGY, 1998, 283 (04) :707-725

[8] Predicting functions from protein sequences - where are the bottlenecks? [J].

Bork, P ;

Koonin, EV .

NATURE GENETICS, 1998, 18 (04) :313-318

[9] GENMARK - PARALLEL GENE RECOGNITION FOR BOTH DNA STRANDS [J].

BORODOVSKY, M ;

MCININCH, J .

COMPUTERS & CHEMISTRY, 1993, 17 (02) :123-133

[10] Functional genomics in plants [J].

Bouchez, D ;

Höfte, H .

PLANT PHYSIOLOGY, 1998, 118 (03) :725-732

← 1 2 3 4 5 6 →