Integrative database analysis in structural genomics

被引:41
作者
Gerstein, M [1 ]
机构
[1] Yale Univ, Dept Mol Biophys & Biochem, New Haven, CT 06520 USA
关键词
D O I
10.1038/80739
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
An important aspect of structural genomics is connecting coordinate data with whole-genome information related to phylogenetic occurrence, protein function, gene expression, and protein-protein interactions. Integrative database analysis allows one to survey the 'finite parts list' of protein folds from many perspectives, highlighting certain folds and structural features that stand out in particular ways.
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收藏
页码:960 / 963
页数:4
相关论文
共 41 条
[31]   Empirical statistical estimates for sequence similarity searches [J].
Pearson, WR .
JOURNAL OF MOLECULAR BIOLOGY, 1998, 276 (01) :71-84
[32]   Large-scale analysis of the yeast genome by transposon tagging and gene disruption [J].
Ross-Macdonald, P ;
Coelho, PSR ;
Roemer, T ;
Agarwal, S ;
Kumar, A ;
Jansen, R ;
Cheung, KH ;
Sheehan, A ;
Symoniatis, D ;
Umansky, L ;
Heldtman, M ;
Nelson, FK ;
Iwasaki, H ;
Hager, K ;
Gerstein, M ;
Miller, P ;
Roeder, GS ;
Snyder, M .
NATURE, 1999, 402 (6760) :413-418
[33]   Pfam: multiple sequence alignments and HMM-profiles of protein domains [J].
Sonnhammer, ELL ;
Eddy, SR ;
Birney, E ;
Bateman, A ;
Durbin, R .
NUCLEIC ACIDS RESEARCH, 1998, 26 (01) :320-322
[34]   A genomic perspective on protein families [J].
Tatusov, RL ;
Koonin, EV ;
Lipman, DJ .
SCIENCE, 1997, 278 (5338) :631-637
[35]   Proteins folds, functions and evolution [J].
Thornton, JM ;
Orengo, CA ;
Todd, AE ;
Pearl, FMG .
JOURNAL OF MOLECULAR BIOLOGY, 1999, 293 (02) :333-342
[36]   A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae [J].
Uetz, P ;
Giot, L ;
Cagney, G ;
Mansfield, TA ;
Judson, RS ;
Knight, JR ;
Lockshon, D ;
Narayan, V ;
Srinivasan, M ;
Pochart, P ;
Qureshi-Emili, A ;
Li, Y ;
Godwin, B ;
Conover, D ;
Kalbfleisch, T ;
Vijayadamodar, G ;
Yang, MJ ;
Johnston, M ;
Fields, S ;
Rothberg, JM .
NATURE, 2000, 403 (6770) :623-627
[37]   STAR/mmCIF: An ontology for macromolecular structure [J].
Westbrook, JD ;
Bourne, PE .
BIOINFORMATICS, 2000, 16 (02) :159-168
[38]   Assessing annotation transfer for genomics: Quantifying the relations between protein sequence, structure and function through traditional and probabilistic scores [J].
Wilson, CA ;
Kreychman, J ;
Gerstein, M .
JOURNAL OF MOLECULAR BIOLOGY, 2000, 297 (01) :233-249
[39]  
Wolf YI, 1999, GENOME RES, V9, P17
[40]   Estimating the number of protein folds and families from complete genome data [J].
Wolf, YI ;
Grishin, NV ;
Koonin, EV .
JOURNAL OF MOLECULAR BIOLOGY, 2000, 299 (04) :897-905