MiRNA guidelines

From GO Wiki
Jump to navigation Jump to search

back to the agenda page

To the miRNA guidelines summary

miRNA Questionnaire questions

all annotations to PMID:22269326

pdf of presentation File:GOCmiRNA2014.pdf

Consortium minutes [1]

Discussion to include annotation of other non-coding RNAs

Summary of MOD miRNA annotations

MOD/database Brief summary of progress Attending meeting
TAIR Have been creating Arabidopsis miRNAs annotations for years. 199 miRNA genes so far, 228 annotations to 'gene silencing by miRNA' or kids, for the 73 experimental annotations, mostly IDA, IMP, IGI but also a few IEP Tanya/Donghui
Wormbase Mostly focused on miRNA annotations for the greatest hits of C. elegans miRNAs, namely let-7, lin-4, lsy-6, etc. Our BP annotations to the miRNAs have included the cellular level processes they control and also the organismal level processes that they, in turn, regulate, e.g. heterochronic development, neuronal fate specification, etc. We also have some MF annotations for their mRNA binding activities. Users have recently ask us about including these types of annotations in GO. We haven't yet considered making IEP annotations for miRNAs but I'm glad you raised that issue again. Kimberley
GOA/UCL Waiting for human microRNA identifiers, due Spring 2014 Ruth/Rachael
RGD We currently take ISO annotations for rat orthologs from mouse and human miRNA-related genes. Our curation prioritization is disease-centric so as miRNAs come up as related to the disease category we are covering we will curate them. We also may do a focused effort to curate miRNAs and their targets at some point. Jennifer
MGI Have been creating mouse miRNAs annotations for years
Dicty not a priority at the moment
ZFIN currently has 124 microRNA genes annotated with 260 non-ND evidence annotations using 69 distinct GO terms. Doug
PomBase Pombe also has lots of antisense RNAs which do not get cleaved into siRNA but are presumed to regulate the gene they are antisense to Val


Should differential expression of miRNAs in specific cell types/conditions be captured in GO Is Table 1 IEP data or IDA?

    1. use of existing database information

Current stats

No. annotations to "gene silencing by miRNA" or child terms;

UniProtKB(295) TAIR(228) ZFIN(144) RGD(96) MGI(84) FB(76) AspGD(15) CGD(1) dictyBase(1)

Other information

Discussion to include annotation of other non-coding RNAs (siRNAs, lncRNAs (long non-coding RNAs)) with roles in regulation of transcription, translation, stability of mRNA, chromatin silencing, chromatin organisation.

microRNA and siRNA comparison table

lncRNAs (long non-coding RNAs) review

siRNA role in immunity review