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Transcriptomic meta-analysis reveals up-regulation of gene expression functional in osteoclast differentiation in human septic shock

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Listed:
  • Samanwoy Mukhopadhyay
  • Pravat K Thatoi
  • Abhay D Pandey
  • Bidyut K Das
  • Balachandran Ravindran
  • Samsiddhi Bhattacharjee
  • Saroj K Mohapatra

Abstract

Septic shock is a major medical problem with high morbidity and mortality and incompletely understood biology. Integration of multiple data sets into a single analysis framework empowers discovery of new knowledge about the condition that may have been missed by individual analysis of each of these datasets. Electronic search was performed on medical literature and gene expression databases for selection of transcriptomic studies done in circulating leukocytes from human subjects suffering from septic shock. Gene-level meta-analysis was conducted on the six selected studies to identify the genes consistently differentially expressed in septic shock. This was followed by pathway-level analysis using three different algorithms (ORA, GSEA, SPIA). The identified up-regulated pathway, Osteoclast differentiation pathway (hsa04380) was validated in two independent cohorts. Of the pathway, 25 key genes were selected that serve as an expression signature of Septic Shock.

Suggested Citation

  • Samanwoy Mukhopadhyay & Pravat K Thatoi & Abhay D Pandey & Bidyut K Das & Balachandran Ravindran & Samsiddhi Bhattacharjee & Saroj K Mohapatra, 2017. "Transcriptomic meta-analysis reveals up-regulation of gene expression functional in osteoclast differentiation in human septic shock," PLOS ONE, Public Library of Science, vol. 12(2), pages 1-17, February.
    • Handle: RePEc:plo:pone00:0171689
    DOI: 10.1371/journal.pone.0171689
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    1. Tim C. Hesterberg, 2015. "What Teachers Should Know About the Bootstrap: Resampling in the Undergraduate Statistics Curriculum," The American Statistician, Taylor & Francis Journals, vol. 69(4), pages 371-386, November.
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