Consensus table for all supported data types in EasyGO

Data Type #Total 1st BLAST database 2nd BLAST database #annotated (total)
DEL-MAR 14K cDNA microarray probe 15134 Chicken gene product (Ensembl, UniProt, GenBank) Vertebrate gene product (UniProt) 7137
Beijing Genomics Institute rice genome oligo set V1.0 (Operon) 60727 Rice full-length cDNA (KOME) Plant gene product (UniProt) 29693
Meyerowitz Lab Arabidopsis Operon Array Version 3 29329 - - 27563
FHCRC chicken 13K microarray probe 13798 Chicken gene product (Ensembl, UniProt, GenBank) Vertebrate gene product (UniProt) 7453
Agilent-012600 Arabidopsis 3 Oligo Microarray 26236 - - 25741
Maize oligonucleotide array (GPL6438, TIGR, UA) 35172 Rice full-length cDNA (KOME) Plant gene product (UniProt) 35172
Agilent-012106 Rice Oligo Microarray 21495 Rice full-length cDNA (KOME) Plant gene product (UniProt) 19087
Arabidopsis OAR27K array created from a set of 27K Operon 70 mer oligos (Yale University) 19152 - - 18186
Arabidopsis gene locus (TAIR) 103998 - - 27734
Arabidopsis Affymetrix ATH1 probeset 22746 Arabidopsis gene product (TAIR) - 21443
Arabidopsis Affymetrix Genome Array (8K) probeset 8247 Arabidopsis gene product (TAIR) - 7865
Barley Affymetrix Genome Array probeset 22795 Rice full-length cDNA (KOME) Plant gene product (UniProt) 12892
Bovine Affymetrix Genome Array probeset 24016 Bovine gene product (Ensembl, UniProt, GenBank) Mammalian gene product (UniProt) 7972
Bovine Ensembl gene product 7664 - - 7664
Bovine RefSeq gene product 5574 - - 5574
Bovine UniProt gene product 9648 - - 9648
Chicken Affymetrix Genome Array probeset 38439 Chicken gene product (Ensembl, UniProt, GenBank) Vertebrate gene product (UniProt) 20788
Chicken Ensembl gene product 5960 - - 5960
Chicken RefSeq gene product 5465 - - 5465
chicken UniProt gene product 5155 - - 5155
Tomato Affymetrix Genome Array probeset 30279 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 17111
Cotton Affymetrix Genome Array probeset 24029 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 16713
Maize Affymetrix Genome Array (GeneChip) probeset 17621 Rice full-length cDNA (KOME) Plant gene product (UniProt) 11669
Medicago Affymetrix Genome Array probeset (complete) 61164 Arabidopsis gene product (TAIR), bacterial gene product(UniProt) Plant gene product (UniProt) 33491
Medicago truncatula gene model 21315 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 21315
Medicago Affymetrix Genome Array probeset (bacterial probesets excluded) 61164 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 27592
Poplar Affymetrix Genome Array probeset 61313 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 36616
Populus trichocarpa gene model 32236 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 32236
Porcine Affymetrix Genome Array probeset 23999 Mammalian gene product (UniProt) Vertebrate gene product (UniProt) 6751
Rice Affymetrix Genome Array probeset 57258 Rice full-length cDNA (KOME) Plant gene product (UniProt) 38347
Rice (Japonica) gene product (Gramene/UniProt) 64103 - - 52082
Rice (Japonica) full-length cDNA (KOME) 27150 - - 27150
Rice (Japonica) gene name (eg: Os11g0702400) 22715 Rice full-length cDNA (KOME) Plant gene product (UniProt) 22715
Rice (Japonica) gene locus (TIGR, v5.0) 24874 - - 24874
Soybean Affymetrix Genome Array probeset (complete) 61035 Arabidopsis gene product (TAIR), fungi gene product (UniProt) Plant gene product (UniProt) 22268
Soybean Affymetrix Genome Array probeset (exclude fungi probeset) 61035 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 19835
Sugar cane Affymetrix Genome Array probeset 8289 Rice full-length cDNA (KOME) Plant gene product (UniProt) 4823
Tomato Affymetrix Genome Array probeset 10101 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 5301
Tomato TOM1 cDNA microarray (Cornell) 7387 Arabidopsis gene product (TAIR) Plant gene product (UniProt) 7387
Wheat Affymetrix Genome Array probeset 61179 Rice full-length cDNA (KOME) Plant gene product (UniProt) 23964

  • #Total: total number of items in each data type (genes, probes, probesets, ...)
  • 1st BLAST database: sequence database used in first-round BLAST search for GO annotation
  • 2nd BLAST database: sequence database used in second-round BLAST search for GO annotation
  • #Annotated: number of items got GO annotation in this data type

This page last modified: 2008-08-29