Computational analysis of miRNA-target community network reveals cross talk among different metabolisms

Deepti Nigam; Puneet K Kadimi; Sanjeev Kumar; Dwijesh Chandra Mishra; Anil Rai

doi:10.1016/j.gdata.2015.04.028

Computational analysis of miRNA-target community network reveals cross talk among different metabolisms

Genom Data. 2015 May 22:5:292-6. doi: 10.1016/j.gdata.2015.04.028. eCollection 2015 Sep.

Authors

Deepti Nigam¹, Puneet K Kadimi¹, Sanjeev Kumar¹, Dwijesh Chandra Mishra¹, Anil Rai¹

Affiliation

¹ Centre for Agricultural Bio-Informatics, ICAR-Indian Agricultural Statistics Research Institute, Library Avenue, PUSA, New Delhi, India.

Abstract

To date, only a few conserved miRNAs have been predicted in hexaploid (AABBDD) bread wheat and till now community behavior among miRNA is still in dark. Analysis of publically available 1287279 ESTs from NCBI resulted 262 putative pre-miRNAs and 39 novel mature miRNAs. A total 22,468 targets were identified on 21 chromosomes. MiRNA target community was identified for genomes with different levels of cross talks. Gene ontology of these community targets suggests their differential involvement in different metabolisms along with common and stringent involvement in nitrogen metabolism.

Keywords: EST; FDR, false discovery rate; GRN, Gene Regulatory Network; MiRNA community; MicroRNAs; Nitrogen metabolism; miRNAs, microRNAs.