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Interaction network analysis of YBX1 for identification of therapeutic targets in adenocarcinomas

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Abstract

Human Y-box binding protein-1 (YBX1) is a member of highly conserved cold-shock domain protein family, which is involved in transcriptional as well as translational regulation of many genes. Nuclear localization of YBX1 has been observed in various cancer types and it’s overexpression has been linked to adverse clinical outcome and poor therapy response, but no diagnostic or therapeutic correlation has been established so far. This study aimed to identify differentially expressed novel genes among the interactors of YBX1 in different cancer types. Analysis of RNA-Seq data for colorectal, lung, prostate and stomach adenocarcinoma identified 39 unique genes, which are differentially expressed in the four adenocarcinoma types. Gene-enrichment analysis for the differentially expressed genes from individual adenocarcinoma with focus on unique genes resulted in a total of 57 gene sets specific to each adenocarcinoma. Gene ontology for commonly expressed genes suggested the pathways and possible mechanisms through which they affect each adenocarcinoma type considered in the study. Gene regulatory network constructed for the common genes and network topology was analyzed for the central nodes. Here 12 genes were found to play important roles in the network formation; among them, two genes FOXM1 and TOP2A were found to be in central network formation, which makes them a common target for therapeutics. Furthermore, five common differentially expressed genes in all adenocarcinomas were also identified.

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Acknowledgements

AM acknowledges SERB, New Delhi for a project grant under the young scientist scheme.

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Authors and Affiliations

  1. Department of Biotechnology, Motilal Nehru National Institute of Technology, Allahabad, 211 004, India

    Suriya Narayanan Murugesan, Birendra Singh Yadav, Pramod Kumar Maurya, Amit Chaudhary & Ashutosh Mani

  2. Center of Bioinformatics, University of Allahabad, Allahabad, 211 002, India

    Swati Singh

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  1. Suriya Narayanan Murugesan
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  2. Birendra Singh Yadav
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  3. Pramod Kumar Maurya
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  4. Amit Chaudhary
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  6. Ashutosh Mani
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Correspondence to Ashutosh Mani.

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Communicated by Rita Mulherkar.

Corresponding editor: Rita Mulherkar

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Murugesan, S.N., Yadav, B.S., Maurya, P.K. et al. Interaction network analysis of YBX1 for identification of therapeutic targets in adenocarcinomas. J Biosci 44, 27 (2019). https://doi.org/10.1007/s12038-019-9848-8

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