Software and Webserver

Find us at GitHub

miR-Hy : A robust shallow-deep learning system for plant microRNA discovery Coming Soon...

DeepPlnc : A tool to detect plant lncRNAs through multimodal deep learning on sequential data Cite:  bioRxiv, 2021  Standalone version of the program:  Github link

RBPSpot : A tool to identify RBP binding spots in RNA Cite:  iScience, 2021  Standalone version of the program:  Github link

miRbiom : A webserver for miRNA profiling and miRNA biogenesis-a resultant of spatio-temporal combinations of several RNA-binding proteins. Cite: PLoS ONE, 2021   Standalone version of the program:  Github link

Picro-DB : A comprehensive information database for Picrorhiza kurroa genome and its various genomic components   Cite: Scientific Reports, 2021

PRP:  The Plant Regulomics Portal: An ultimate resource for integrated information and study of plant regulatory systems including NGS, Epigenomics, miRNA, Transcription factor and network analysis. Enriched with cutting edge browser and visualization tools, selecting downloading and analytical tools. Cite: Database, 2019

IPFIP : Molecular systems based study information portal for Idiopathic Pulmonary Fibrosis (IPFIP)  Cite: IPFIP (Scientific Reports, April 2017)

MauPIR :  Click logo image for redirection of database Cite: MauPIR  (Journal of proteome research; May 10, 2016.)

AssemblyVAlidator : A tool to detect misassembly in de novo assembled contigs   Cite: AssemblyVAlidator  (Journal of Biosciences; September, 2016)

The Mythology of "micro"-RNAs. Click logo image for redirection of database Cite: The Mythology of "micro"-RNAs (Nucleic Acids Research, 2015, doi: 10.1093/nar/gkv871)

pPromotif: A novel and accurate algorithm to identify Transcription Factor Binding Sites on plant genomic sequences. Cite:pPromotif (J Biosci June 2014. PMID 24845501.)

miReader: New version of miReader coming soon   Cite: Click here for the PLoS ONE paper.   Download standalone version of miReader

miR-BAG: An Avant-garde parallely coded tool, based on machine learning for accurate miRNA identification. Works universely on genomic and NGS (Next Generation Sequencing) data.   Cite: Click here for the PLoS ONE paper.   Click logo to access webserver of miR-BAG Download standalone version of miR-BAG

p-TAREF: A concurrent application for fast and accurate plant miRNA target identifications. Cite: Click here fore the paper. BMC Genomics (2011), 12:636. * (Compatible browsers: Firefox, Google Chrome) Click logo to download standalone verion of P-TAREF

filteR: Parallely coded tool for fast Next Generation Sequencing Read filtering and cleaning. (Coded in Qt, C++, Parallel library used:OpenMP). Download here the standalone verion   Cite: Click here for the paper.

Picrorhiza kurrooa Information House

TAREF: A tool to Refine microRNAs target prediction in animal. Citation: Heikham R and Shankar R, 2010, Journal of Biosciences, 35, 105-118. Click here for papers citing this work.