IC4R Information Commons for Rice

API

IC4R-2.0

Function URL Pattern Method Example
Gene search http://ic4r.org/api/json/gene/[LOCUS] GET http://ic4r.org/api/json/gene/IC4R-OSJ01G000600
Function Annotation Search http://ic4r.org/api/json/annotation/[LOCUS] GET http://ic4r.org/api/json/annotation/IC4R-OSJ01G000600
Circular RNA Search http://ic4r.org/api/json/circRNA/[LOCUS] GET http://ic4r.org/api/json/circRNA/IC4R-OSJ01Circ057100
Long non-coding RNA Search http://ic4r.org/api/json/lncRNA/[LOCUS] GET http://ic4r.org/api/json/lncRNA/IC4R-OSJ01Lnc000600.1
ID Conversion http://ic4r.org/api/json/idConversion/[LOCUS] GET http://ic4r.org/api/json/idConversion/IC4R-OSJ01G000600
Get related papers for specific rice gene http://literature.ic4r.org/api/gene/[Accession]/articles GET http://literature.ic4r.org/api/gene/IC4R-OSJ02G065100/articles
http://literature.ic4r.org/api/gene/Os02g0170300/articles

IC4R-1.0

Expression
JSON API
Function URL pattern Method Example
Expression profiles for gene http://expression.ic4r.org/api/fpkm?gene=[GENE_ACCESSION] GET http://expression.ic4r.org/api/fpkm?gene=Os06g0651900
Expression profiles for transcript http://expression.ic4r.org/api/fpkm?transcript=[TRANSCRIPT_ACCESSION] GET http://expression.ic4r.org/api/fpkm?transcript=Os06t0324800-01
Embed 
<iframe src="http://expression.ic4r.org/expression-api?term=[GENE_ACCESSION]" width='100%' height='600px' style='oveflow:hidden;border:none' />
Homolog
JSON API
Function URL pattern Method Example
Gene information http://ic4r.org/genes/[GENE_ACCESSION].json GET http://homolog.ic4r.org/genes/Os01g0100200.json
Group information http://ic4r.org/groups/[GROUP_ACCESSION].json GET http://homolog.ic4r.org/genes/PHG-00015.json
Post-Translational Modification
JSON API
Function URL pattern Method Example
Basic information http://dbppt.biocuckoo.org/getPage.php?seqID=[DBPPT_ID] GET http://dbppt.biocuckoo.org/getJSON.php?seqID=Q9C958
Ubiquitin and ubiquitin-like conjugation http://uucd.biocuckoo.org/getJSON.php?gid=[LOC_ACCESSION] GET http://uucd.biocuckoo.org/getJSON.php?gid=LOC_Os06g30970
Embed 
<iframe src="http://homolog.ic4r.org/genes/[GENE_ACCESSION]/tree_iframe" width='100%' height='600px' style='oveflow:hidden;border:none' />