Release Notes Archive

Plant Ontology Release #17 April 2012

Plant Ontology Database

April 2012 Release Page

Ontology updates

Number of terms:

Total terms (not including obsoletes)	1454
Total children terms in Plant Anatomical Entity (not including obsoletes)	1181
Total children terms in Plant Structure Development Stage (not including obsoletes)	271

Associations / Annotations

Number of associations/annotations:

Total number of associations	2175694
Number of associations NEW	5688
Total number of unique objects (genes, germplasms, QTLs)	110950
Number of unique objects NEW	3722

Number of associations by source database:

Database	Associations Total#
TAIR Arabidopsis (mouse-ear cress)	532113
NASC Arabidopsis (mouse-ear cress)	1897
Gramene Oryza sativa (rice)	29872
Gramene Physcomitrella	20
MaizeGDB Zea mays (maize)	1495156
Jaiswal Lab Fragaria vesca (strawberry)	9561
Cosmoss Physcomitrella	81875
AgBase Gossypium hirsutum (upland cotton)	107
MGCSC	5070
POC Picea (spruce)	3
SGN (individual species listed below)	20020
-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)	18951
-Nicotiana tabacum (tobacco)	42
-Petunia hybrida (hybrid petunia)	56
-Physalis spp	4
-Solanum chmielewskii	3
-Solanum insanum/Solanum melongena (eggplant)	873
-Solanum pennellii	3
-Solanum tuberosum (potato)	15

Total number of individual object types by source database:

Database	Object Type	Object Types Total#
TAIR (Arabidopsis)	protein	24517
TAIR (Arabidopsis)		230
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	216
SGN	germplasm	4503
AgBase	protein	52
MGCSC	stock	3609
POC	gene	2

Total number of associations by evidence code:

Evidence Code	Associations Total#
IC	18101
IDA	20513
IEA	1
IEP	2094675
IGI	1
IMP	37160
ISS	21
NAS	30
TAS	5354

Total number of object types by evidence code:

Object Type	Evidence Code	Object Type Total#
protein	IDA	17358
protein	IEP	512321
protein	IMP	6
protein	NAS	29
protein	TAS	92
	IDA	9
	IEP	2254
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	18393
gene	IC	571
gene	IDA	79
gene	IEA	1
gene	IEP	529
gene	IGI	1
gene	IMP	7387
gene	ISS	21
gene	TAS	5262
QTL	IC	17530
QTL	IMP	6304
mRNA	IEP	91436
gene_model	IEP	1487963
stock	IMP	5070