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Original Research ARTICLE Provisionally accepted The full-text will be published soon. Notify me

Front. Genet. | doi: 10.3389/fgene.2018.00679

Systems Genomics of Thigh Adipose Tissue from Asian Indian Type-2 Diabetics Revealed Distinct Protein Interaction Hubs

Pradeep Tiwari1, 2, 3,  Aditya Saxena4,  Nidhi Gupta5, Krishna M. Medicherla1,  Prashanth Suravajhala1* and Sandeep K. Mathur3*
  • 1Department of Biotechnology and Bioinformatics, Birla Institute of Scientific Research, India
  • 2Department of Chemistry, Manipal University Jaipur, India
  • 3Department of Endocrinology, Sawai ManSingh Medical College, India
  • 4Department of Biotechnology, Institute of Applied Sciences and Humanities, GLA University, India
  • 5Department of Biotechnology, Inspiration Innovation Synergy University, India

We performed a systematic analysis of genes implicated in thigh subcutaneous adipose tissue of Asian Indian Type 2 Diabetes Mellitus (AIT2DM) and created a phenome-interactome network. This analysis was performed on 60 subjects specific to limb thigh fat by integrating phenotypic traits and similarity scores associated with AIT2DM. Using a phenotypic attribute, a contextual neighbour was identified across all the traits, viz. body mass index (BMI) statistics, adipocyte size, lipid parameters, homeostatic model assessment- insulin resistance (HOMA-IR), HOMA-ß. In this work, we have attempted to characterise transcription signatures using the phenome-interactome maps where each of the traits under study including the intermediary phenotypes has a distinct set of genes forming the hubs. Furthermore, we have identified various clinical, biochemical and radiological parameters which show significant correlation with distinct hubs. We observed a number of novel pathways and genes including those that are non-coding RNAs implicated in AIT2DM.We showed that they appear to be associated with pathways, viz. tyrosine kinase JAK2, NOTCH thereby recruiting signaling molecules such as STAT5 and Src family kinases on the cell surface regulated them and our analyses comprising significant hubs suggest that thigh subcutaneous adipose tissue plays a role in pathophysiology of AIT2DM.

Keywords: Systems genomics, type-2 diabetes, adipocyte tissues, phenotypic traits, interaction networks

Received: 03 Jul 2018; Accepted: 07 Dec 2018.

Edited by:

Aristotle A. Chatziioannou, National Hellenic Research Foundation, Greece

Reviewed by:

Nathan Weinstein, Institute of Ecology, National Autonomous University of Mexico, Mexico
Georges Nemer, American University of Beirut, Lebanon  

Copyright: © 2018 Tiwari, Saxena, Gupta, Medicherla, Suravajhala and Mathur. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence:
Dr. Prashanth Suravajhala, Birla Institute of Scientific Research, Department of Biotechnology and Bioinformatics, Jaipur, 302001, Rajasthan, India, prash@bisr.res.in
Dr. Sandeep K. Mathur, Sawai ManSingh Medical College, Department of Endocrinology, Jaipur, 302004, Rajasthan, India, drsandeepmathur@rediffmail.com