TY - JOUR
T1 - MiRGator v2.0
T2 - An integrated system for functional investigation of microRNAs
AU - Cho, Sooyoung
AU - Jun, Yukyung
AU - Lee, Sanghyun
AU - Choi, Hyung Seok
AU - Jung, Sungchul
AU - Jang, Youngjun
AU - Park, Charny
AU - Kim, Sangok
AU - Lee, Sanghyuk
AU - Kim, Wankyu
N1 - Funding Information:
GIST Systems Biology Infrastructure Establishment Grant (2010) through Ewha Research Center for Systems Biology (ERCSB); Biogreen 21 Program of the Korean Rural Development Administration (20070401034010); National Core Research Center (NCRC) program (R15-2006-020) of the KOSEF funded by the MEST. Funding for open access charge: GIST Systems Biology Infrastructure Establishment Grant (2010) through Ewha Research Center for Systems Biology (ERCSB).
PY - 2011/1
Y1 - 2011/1
N2 - MiRGator is an integrated database of microRNA (miRNA)-associated gene expression, target prediction, disease association and genomic annotation, which aims to facilitate functional investigation of miRNAs. The recent version of miRGator v2.0 contains information about (i) human miRNA expression profiles under various experimental conditions, (ii) paired expression profiles of both mRNAs and miRNAs, (iii) gene expression profiles under miRNA-perturbation (e.g. miRNA knockout and overexpression), (iv) known/predicted miRNA targets and (v) miRNA-disease associations. In total, >8000 miRNA expression profiles, ̃300 miRNA-perturbed gene expression profiles and ̃2000 mRNA expression profiles are compiled with manually curated annotations on disease, tissue type and perturbation. By integrating these data sets, a series of novel associations (miRNA-miRNA, miRNA-disease and miRNA-target) is extracted via shared features. For example, differentially expressed genes (DEGs) after miRNA knockout were systematically compared against miRNA targets. Likewise, differentially expressed miRNAs (DEmiRs) were compared with disease-associated miRNAs. Additionally, miRNA expression and disease-phenotype profiles revealed miRNA pairs whose expression was regulated in parallel in various experimental and disease conditions. Complex associations are readily accessible using an interactive network visualization interface. The miRGator v2.0 serves as a reference database to investigate miRNA expression and function (http://miRGator.kobic.re.kr).
AB - MiRGator is an integrated database of microRNA (miRNA)-associated gene expression, target prediction, disease association and genomic annotation, which aims to facilitate functional investigation of miRNAs. The recent version of miRGator v2.0 contains information about (i) human miRNA expression profiles under various experimental conditions, (ii) paired expression profiles of both mRNAs and miRNAs, (iii) gene expression profiles under miRNA-perturbation (e.g. miRNA knockout and overexpression), (iv) known/predicted miRNA targets and (v) miRNA-disease associations. In total, >8000 miRNA expression profiles, ̃300 miRNA-perturbed gene expression profiles and ̃2000 mRNA expression profiles are compiled with manually curated annotations on disease, tissue type and perturbation. By integrating these data sets, a series of novel associations (miRNA-miRNA, miRNA-disease and miRNA-target) is extracted via shared features. For example, differentially expressed genes (DEGs) after miRNA knockout were systematically compared against miRNA targets. Likewise, differentially expressed miRNAs (DEmiRs) were compared with disease-associated miRNAs. Additionally, miRNA expression and disease-phenotype profiles revealed miRNA pairs whose expression was regulated in parallel in various experimental and disease conditions. Complex associations are readily accessible using an interactive network visualization interface. The miRGator v2.0 serves as a reference database to investigate miRNA expression and function (http://miRGator.kobic.re.kr).
UR - http://www.scopus.com/inward/record.url?scp=78651330434&partnerID=8YFLogxK
U2 - 10.1093/nar/gkq1094
DO - 10.1093/nar/gkq1094
M3 - Article
C2 - 21062822
AN - SCOPUS:78651330434
VL - 39
SP - D158-D162
JO - Nucleic Acids Research
JF - Nucleic Acids Research
SN - 0305-1048
IS - SUPPL. 1
ER -