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miRGator specifications

Information


Unique identifier OMICS_00363
Name miRGator
Restrictions to use None
Maintained No
Wikipedia https://en.wikipedia.org/wiki/MiRGator

Publication for miRGator

miRGator citations

 (9)
library_books

A promoter proximal transcript targeted by genetic polymorphism controls E cadherin silencing in human cancers

2017
Nat Commun
PMCID: 5459991
PMID: 28555645
DOI: 10.1038/ncomms15622

[…] identity or similarity to the cloned AGO1/S-paRNA associated small RNA using BLASTN and SSEARCH methods, respectively. Small RNA-seq databases were searched for miR-4534 and related isomiR sequences. miRGator and YM500 (ref. ) include deep sequencing data from human samples collected from GEO, SRA and TCGA archives. Using the provided software we retrieved all isomiRs with up to two mismatches rel […]

library_books

Improving biocuration of microRNAs in diseases: a case study in idiopathic pulmonary fibrosis

2017
PMCID: 5467562
PMID: 28605770
DOI: 10.1093/database/bax030

[…] databases that contain curated information from the literature on miRNAs—miRBase (), miRecords (), miRNAmap () and TarBase ()—and some resources that incorporate gene ontology annotations or diseases—miRGator (), mir2Disease () and miRWalk (); however, in general, annotations related to respiratory diseases are poorly documented, or the information is not up to date.In this work, we implemented a […]

library_books

MicroRNA regulatory pathway analysis identifies miR 142 5p as a negative regulator of TGF β pathway via targeting SMAD3

2016
Oncotarget
PMCID: 5342096
PMID: 27683030
DOI: 10.18632/oncotarget.12229

[…] ated that one miRNA may regulate a few hundreds of genes on average []. Currently, several studies predicted the functions of miRNAs based on the functional enrichment analysis of their target genes. miRGator and DIANA-mirPath provided the statistically enriched Gene Ontology functions and KEGG/GenMAPP/BioCarta pathways [, ]. Another comprehensive analysis established a dictionary on miRNAs and th […]

library_books

Bioinformatic tools for microRNA dissection

2015
Nucleic Acids Res
PMCID: 4705652
PMID: 26578605
DOI: 10.1093/nar/gkv1221

[…] or (), KEGG () and GO (). The possibility of uploading and analyzing user-specified data sets makes mESAdb an interactive and expandable analysis tool for miRNA sequence and expression data. Finally, miRGator v3.0 () is an integrated portal collecting deep sequencing miRNA data that has become the principal resource on miRNA diversity and expression. It encompasses miRNA diversity, expression prof […]

library_books

A New Algorithm for Integrated Analysis of miRNA mRNA Interactions Based on Individual Classification Reveals Insights into Bladder Cancer

2013
PLoS One
PMCID: 3663800
PMID: 23717626
DOI: 10.1371/journal.pone.0064543

[…] f the most common tools are TargetScan –, PicTar –, miRanda – and PITA . Several web resources provide validated or predicted miRNA-mRNA interactions, e.g. TarBase , miRecords , miRGen and miRBase , miRGator offers miRNA and mRNA expression profiles , starBase and doRiNA are databases that integrate miRNA and ribonucleoprotein binding sites.There is a need for methods which consider the specifi […]

library_books

Integrative Approaches for microRNA Target Prediction: Combining Sequence Information and the Paired mRNA and miRNA Expression Profiles

2013
PMCID: 3583062
PMID: 23467572
DOI: 10.2174/1574893611308010008

[…] nnX, with the weights learned from experimental validate targets.Beside the above approaches, there are some other web tools that combine miRNA-mRNA expression profiles with their target predictions. miRGator [] integrates miRanda, PicTar and TargetScan target predictions, and displays the expression correlations between miRNA-mRNA pairs. The rank list of target mRNAs sorted by their correlations […]

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miRGator institution(s)
Ewha Research Center for Systems Biology (ERCSB), Ewha Womans University, Seoul, Korea

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