Plant Ontology Release 16a - January 2012 (Interim data release)

Release Notes Archive

Plant Ontology Release #16a January 2012

Plant Ontology Database

January 2012 Interim Release Page

Ontology updates

Number of terms:

Total terms (not including obsoletes) 1320
Total children terms in Plant Anatomy (not including obsoletes) 1080
Total children terms in Plant Growth and Development Stages (not including obsoletes) 238

Associations / Annotations

Number of associations/annotations:

Total number of associations 2170006
Number of associations NEW 81944
Total number of unique objects (genes, germplasms, QTLs) 107228
Number of unique objects NEW 25604

Number of associations by source database:

Database Associations Total#
TAIR Arabidopsis (mouse-ear cress) 531704
NASC Arabidopsis (mouse-ear cress) 1897
Gramene Oryza sativa (rice) 29872
Gramene Phsycomitrella 10
MaizeGDB Zea mays (maize) 1495156
Jaiswal Lab Fragaria vesca (strawberry) 9561
Cosmoss Physcomitrella 81875
SGN (individual species listed below) 19931
-Anisodus acutangulus 2
-Atropa baetica 4
-Capsicum annuum (pepper) 54
-Coffea arabica (coffee) 8
-Datura strumonium (jimson weed) 3
-Hyoscyamus niger (black henbane) 2
-Lycopersicon esculentum (tomato) 18878
-Nicotiana tabacum (tobacco) 38
-Petunia hybrida (hybrid petunia) 56
-Physalis spp 4
-Solanum insanum/Solanum melongena (eggplant) 868
-Solanum tuberosum (potato) 14

Total number of individual object types by source database:

Database Object Type Object Types Total#
TAIR (Arabidopsis) protein 24501
TAIR (Arabidopsis) miRNA 41
TAIR (Arabidopsis) RNA 2
TAIR (Arabidopsis) gene_product 2
TAIR (Arabidopsis) snoRNA 1
NASC (Arabidopsis) germplasm 1897
Jaiswal Lab (Fragaria) mRNA 3904
Gramene (rice) gene 1715
Gramene (rice) QTL 8558
Gramene (Physcomitrella Patens) gene 5
Cosmoss (Physcomitrella Patens) mRNA 25593
MaizeGDB (maize) gene 780
MaizeGDB (maize) gene_model 35323
SGN gene 174
SGN germplasm 4503

Total number of associations by evidence code:

Evidence Code Associations Total#
IC 18101
IDA 20491
IEA 1
IEP 2094097
IGI 1
IMP 32076
ISS 21
NAS 30
TAS 5350

Total number of object types by evidence code:

Object Type Evidence Code Object Type Total#
protein IDA 17339
protein IEP 511840
protein NAS 29
protein TAS 88
IDA 9
IEP 2248
miRNA IDA 22
miRNA IEP 129
RNA IEP 41
gene_product IEP 1
gene_product NAS 1
snoRNA IEP 1
germplasm IDA 3045
germplasm IMP 18395
gene IC 571
gene IDA 76
gene IEA 1
gene IEP 438
gene IGI 1
gene IMP 7377
gene ISS 21
gene TAS 5262
QTL IC 17530
QTL IMP 6304
mRNA IEP 91436
gene_model IEP 1487963