MIRNA_TARGETS_README

RGD produces 6 miRNA-target files, three containing data for confirmed miRNA target genes and three containing data for predicted miRNA target genes.  The files are as follows:


File name	File size
MIRNA_TARGETS_CONFIRMED_HUMAN.txt.gz	89 KB
MIRNA_TARGETS_CONFIRMED_MOUSE.txt.gz	36 KB
MIRNA_TARGETS_CONFIRMED_RAT.txt.gz	4 KB
MIRNA_TARGETS_PREDICTED_HUMAN.txt.gz	1277052 KB
MIRNA_TARGETS_PREDICTED_MOUSE.txt.gz	574319 KB
MIRNA_TARGETS_PREDICTED_RAT.txt.gz	121497 KB


miRNA Target Status data is imported from miRGate (http://mirgate.bioinfo.cnio.es/) on a weekly basis and FTP files are correspondingly updated.
For more information about miRGate, see PMID:25858286 (https://www.ncbi.nlm.nih.gov/pubmed/?term=25858286) or access the full paper at http://database.oxfordjournals.org/content/2015/bav035.full.pdf+html.


The column headers are as follows:

Confirmed Targets:
Column #	Column title	Column Description
#1   TARGET_GENE_RGD_ID	      the RGD_ID of the miRNA target gene
#2   TARGET_GENE_SYMBOL         official symbol of miRNA target gene
#3   MIRNA_GENE_RGD_ID	      the RGD_ID of the miRNA gene
#4   MIRNA_GENE_SYMBOL          official symbol of miRNA gene
#5   MATURE_MIRNA               mature miRNA
#6   METHOD_NAME                method name
#7   RESULT_TYPE                result type
#8   DATA_TYPE                 data type
#9   SUPPORT_TYPE              support type
#10  PMID                      Pubmed Id



Predicted Targets:
Column #	Column title	Column Description
#1   TARGET_GENE_RGD_ID	      the RGD_ID of the miRNA target gene
#2   TARGET_GENE_SYMBOL         official symbol of miRNA target gene
#3   MIRNA_GENE_RGD_ID	      the RGD_ID of the miRNA gene
#4   MIRNA_GENE_SYMBOL          official symbol of miRNA gene
#5   MATURE_MIRNA               mature miRNA
#6   METHOD_NAME                method name
#7   RESULT_TYPE                result type
#8   TARGET_TRANSCRIPT_ACC     target transcript accession
#9   TRANSCRIPT_BIOTYPE        transcript biotype
#10  ISOFORM                   isoform
#11  AMPLIFICATION             amplification
#12  UTR_START                 UTR Start
#13  UTR_END                   UTR End
#14  TARGET_SITE               target site
#15  SCORE                     score
#16  NORMALIZED_SCORE          normalized score
#17  ENERGY                    energy


Note that the first 7 columns are the same for confirmed and predicted, and all columns are the same regardless of species.