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Cytoscape; Graphical; multi-omics; network; regulatory interactions; systematic

Pluripotency in stem cells is regulated by a complex network between the transcription factors, signalingmolecules, mRNAs, and epigenetic regulators like non-coding RNAs. Different pluripotent stem cell (PSC)lines were isolated and characterized to study the regulatory network topology to understand the mechanismthat control developmental potential of pluripotent cells. PSCRIdb is a manually curated database of regulatoryinteractions including protein–protein, protein–DNA, gene–gene, and miRNA–mRNA interactions in mouseand human pluripotent stem cells including embryonic stem cells and embryonic carcinoma cells. At present,22 different mouse and human pluripotent stem-cell-line-specific regulatory interactions are compiled in thedatabase. Detailed information of the four types of interaction data are presented in tabular format andgraphical network view in Cytoscape layout. The database is available at http://bicresources.jcbose.ac.in/ssaha4/pscridb. The database contains 3037 entries of experimentally validated molecular interactions that canbe useful for systematic study of pluripotency integrating multi-omics data. In summary, the database can be auseful resource for identification of regulatory networks present in different pluripotent stem cell lines.

KRISHNENDU BANERJEE¹ TANMOY JANA¹ ZHUMUR GHOSH¹ SUDIPTO SAHA¹

1. Division of Bioinformatics, Bose Institute, Kolkata, India

Published

25 March 2020