Annotating eukaryote genomes

被引：66

作者：

Lewis, S ^{[1
]}

Ashburner, M

Reese, MG

机构：

[1] Univ Calif Berkeley, Dept Mol & Cell Biol, Berkeley Drosophila Genome Project, Berkeley, CA 94720 USA

[2] Univ Cambridge, Dept Genet, Cambridge CB2 3EH, England

[3] EMBL European Bioinformat Inst, Cambridge CB10 1SD, England

[4] Neomorph Inc, Berkeley, CA 94710 USA

来源：

CURRENT OPINION IN STRUCTURAL BIOLOGY | 2000年 / 10卷 / 03期

关键词：

D O I：

10.1016/S0959-440X(00)00095-6

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：

The Genome Annotation Assessment Project tested current methods of gene identification, including a critical assessment of the accuracy of different methods. Two new databases have provided new resources for gene annotation: these are the InterPro database of protein domains and motifs, and the Gene Ontology database for terms that describe the molecular functions and biological roles of gene products. Efforts in genome annotation are most often based upon advances in computer systems that are specifically designed to deal with the tremendous amounts of data being generated by current sequencing projects. These efforts in analysis are being linked to new ways of visualizing computationally annotated genomes.

引用

页码：349 / 354

页数：6

共 48 条

[1] The genome sequence of Drosophila melanogaster [J].

Adams, MD ;

Celniker, SE ;

Holt, RA ;

Evans, CA ;

Gocayne, JD ;

Amanatides, PG ;

Scherer, SE ;

Li, PW ;

Hoskins, RA ;

Galle, RF ;

George, RA ;

Lewis, SE ;

Richards, S ;

Ashburner, M ;

Henderson, SN ;

Sutton, GG ;

Wortman, JR ;

Yandell, MD ;

Zhang, Q ;

Chen, LX ;

Brandon, RC ;

Rogers, YHC ;

Blazej, RG ;

Champe, M ;

Pfeiffer, BD ;

Wan, KH ;

Doyle, C ;

Baxter, EG ;

Helt, G ;

Nelson, CR ;

Miklos, GLG ;

Abril, JF ;

Agbayani, A ;

An, HJ ;

Andrews-Pfannkoch, C ;

Baldwin, D ;

Ballew, RM ;

Basu, A ;

Baxendale, J ;

Bayraktaroglu, L ;

Beasley, EM ;

Beeson, KY ;

Benos, PV ;

Berman, BP ;

Bhandari, D ;

Bolshakov, S ;

Borkova, D ;

Botchan, MR ;

Bouck, J ;

Brokstein, P .

SCIENCE, 2000, 287 (5461) :2185-2195

[2] Automated genome sequence analysis and annotation [J].

Andrade, MA ;

Brown, NP ;

Leroy, C ;

Hoersch, S ;

de Daruvar, A ;

Reich, C ;

Franchini, A ;

Tamames, J ;

Valencia, A ;

Ouzounis, C ;

Sander, C .

BIOINFORMATICS, 1999, 15 (05) :391-412

[3]

Ashburner M, 1999, GENETICS, V153, P179

[4] PRINTS-S: the database formerly known as PRINTS [J].

Attwood, TK ;

Croning, MDR ;

Flower, DR ;

Lewis, AP ;

Mabey, JE ;

Scordis, P ;

Selley, JN ;

Wright, W .

NUCLEIC ACIDS RESEARCH, 2000, 28 (01) :225-227

[5]

Bateman A, 2004, NUCLEIC ACIDS RES, V32, pD138, DOI [10.1093/nar/gkp985, 10.1093/nar/gkh121, 10.1093/nar/gkr1065]

[6] Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins [J].

Bateman, A ;

Birney, E ;

Durbin, R ;

Eddy, SR ;

Finn, RD ;

Sonnhammer, ELL .

NUCLEIC ACIDS RESEARCH, 1999, 27 (01) :260-262

[7] Tandem repeats finder: a program to analyze DNA sequences [J].

Benson, G .

NUCLEIC ACIDS RESEARCH, 1999, 27 (02) :573-580

[8] Heuristic approach to deriving models for gene finding [J].

Besemer, J ;

Borodovsky, M .

NUCLEIC ACIDS RESEARCH, 1999, 27 (19) :3911-3920

[9]

BIRNEY E, 1997, ISMB, V5, P56

[10] Prediction of complete gene structures in human genomic DNA [J].

Burge, C ;

Karlin, S .

JOURNAL OF MOLECULAR BIOLOGY, 1997, 268 (01) :78-94

← 1 2 3 4 5 →