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Table 1 Redundant annotations in biological databases

From: GOChase-II: correcting semantic inconsistencies from Gene Ontology-based annotations for gene products

Databases DB version mm/dd/yy GO versionmm/dd/yy No. of gene products annotated with GO terms No. of GO annotations applied to gene products No. of GO terms used in gene product annotations
    Redundant anntation Redundant annotation (same evidence code) Total gene products Redundant anntation Redundant annotation (same evidence code) Total GO annotations Redundant anntation Redundant annotation (same evidence code) Total GO terms
Ensembla 09/01/09 01/01/10 307,467 299,911 673,180 783,687 707,335 4,395,125 2,978 2,551 12,309
Geneb 12/15/09 01/01/10 88,797 73,001 235,852 223,772 143,537 1,234,220 3,369 2,632 15,363
AspGDc 12/21/09 01/01/10 523 225 3,425 640 259 15,340 239 107 3,259
CGD 11/24/09 01/01/10 474 229 4,040 772 309 20,009 254 104 3,332
dictyBase 12/27/09 01/01/10 2,590 1,619 7,489 4,651 2,377 31,064 368 241 2,403
EcoCyc 12/14/09 01/01/10 173 155 1,869 273 219 4,992 132 111 1,388
FB 10/30/09 01/01/10 3,355 1,823 12,509 7,301 2,740 68,316 1,077 656 4,924
GeneDB_Pfalciparum 10/27/05 01/01/10 21 16 2,206 21 16 4,632 17 15 663
GeneDB_Spombe 09/28/09 01/01/10 2,797 1,330 5,213 4,009 1,662 34,114 495 297 3,394
GeneDB_Tbrucei 07/18/07 01/01/10 234 191 2,977 251 202 10,414 61 52 935
GR_protein 08/26/09 01/01/10 426 369 41,321 552 445 49,721 90 77 646
JCVI_CMR 07/22/09 01/01/10 446 412 21,271 455 417 54,398 90 83 2,350
MGI 12/17/09 01/01/10 14,927 13,466 18,167 50,970 33,966 151,652 1,564 1,214 7,327
NCBI 03/03/08 01/01/10 324 187 11,274 457 319 27,647 66 63 492
PDB 12/17/09 01/01/10 10,234 10,234 21,849 18,263 18,263 83,588 283 283 1,884
PseudoCAP 06/28/06 01/01/10 584 244 1,519 720 275 7,284 54 30 859
RefSeq 12/14/09 01/01/10 1,945 1,945 12,166 2,748 2,748 36,201 125 125 1,440
RGD 10/02/09 01/01/10 9,932 8,008 17,352 29,961 15,120 180,606 1,893 1,341 9,094
SGD 12/25/09 01/01/10 5,273 4,482 6,353 23,815 11,575 76,188 1,118 766 4,222
SGN 10/23/09 01/01/10 12 9 155 12 9 1,253 10 8 653
TAIR 12/23/09 01/01/10 8,102 6,871 51,713 10,615 8,656 149,466 646 473 4,103
TIGR_CMR 11/14/07 01/01/10 757 731 40,653 782 756 101,965 95 92 2,441
UniProt 12/17/09 01/01/10 206 41 1,290 381 67 9,381 11 9 173
UniProtKB/Swiss-Prot 12/17/09 01/01/10 384,061 380,296 419,241 1,303,909 1,279,924 3,416,194 1,709 1,514 11,507
UniProtKB/TrEMBL 12/17/09 01/01/10 3,615,614 3,615,469 5,981,451 9,116,513 9,115,708 28,760,356 1,420 1,402 9,262
WB 11/26/09 01/01/10 5,252 5,041 15,667 9,904 8,926 91,611 497 381 2,738
ZFIN 12/23/09 01/01/10 7,047 6,856 15,074 17,683 16,454 101,152 603 509 3,019
  1. a http://www.ensembl.org/index.html
  2. b http://www.ncbi.nlm.nih.gov/gene
  3. c http://www.geneontology.org/GO.downloads.annotations.shtml