Game-Theoretic Link Relevance Indexing on Genome-Wide Expression Dataset Identifies Putative Salient Genes with Potential Etiological and Diapeutics role in Colorectal Cancer

Vishwa Jyoti Baruah; Papori Neog Bora; Bhaswati Sarmah; Priyakshi Mahanta; Ankumon Sarmah; Stefano Moretti; Rajnish Kumar; Surajit Borkotokey

doi:10.1038/s41598-022-17266-0

Game-Theoretic Link Relevance Indexing on Genome-Wide Expression Dataset Identifies Putative Salient Genes with Potential Etiological and Diapeutics role in Colorectal Cancer

Vishwa Jyoti Baruah
, Papori Neog Bora
, Bhaswati Sarmah
, Priyakshi Mahanta
, Ankumon Sarmah
, Stefano Moretti
, Rajnish Kumar
, Surajit Borkotokey

Queen's Business School (QBS)

Research output: Contribution to journal › Article › peer-review

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Abstract

Diapeutics gene markers in colorectal cancer (CRC) can help manage mortality caused by the disease. We applied a game-theoretic link relevance Index (LRI) scoring on the high-throughput whole-genome transcriptome dataset to identify salient genes in CRC and obtained 126 salient genes with LRI score greater than zero. The biomarkers database lacks preliminary information on the salient genes as biomarkers for all the available cancer cell types. The salient genes revealed eleven, one and six overrepresentations for major Biological Processes, Molecular Function, and Cellular components. However, no enrichment with respect to chromosome location was found for the salient genes. Significantly high enrichments were observed for several KEGG, Reactome and PPI terms. The survival analysis of top protein-coding salient genes exhibited superior prognostic characteristics for CRC. MIR143HG, AMOTL1, ACTG2 and other salient genes lack sufficient information regarding their etiological role in CRC. Further investigation in LRI methodology and salient genes to augment the existing knowledge base may create new milestones in CRC diapeutics.

Original language	English
Article number	13409
Journal	Nature Scientific Reports
Volume	12
DOIs	https://doi.org/10.1038/s41598-022-17266-0
Publication status	Published - 04 Aug 2022

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Game‑theoretic link relevance indexing on genome‑wide expression dataset identifes putative salient genes with potential etiological and diapeutics role in colorectal cancer
Copyright 2022 the authors. This is an open access article published under a Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium, provided the author and source are cited.
Final published version, 5.05 MBLicence: CC BY

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Baruah, V. J., Bora, P. N., Sarmah, B., Mahanta, P., Sarmah, A., Moretti, S., Kumar, R., & Borkotokey, S. (2022). Game-Theoretic Link Relevance Indexing on Genome-Wide Expression Dataset Identifies Putative Salient Genes with Potential Etiological and Diapeutics role in Colorectal Cancer. Nature Scientific Reports, 12, Article 13409. https://doi.org/10.1038/s41598-022-17266-0

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title = "Game-Theoretic Link Relevance Indexing on Genome-Wide Expression Dataset Identifies Putative Salient Genes with Potential Etiological and Diapeutics role in Colorectal Cancer",

abstract = "Diapeutics gene markers in colorectal cancer (CRC) can help manage mortality caused by the disease. We applied a game-theoretic link relevance Index (LRI) scoring on the high-throughput whole-genome transcriptome dataset to identify salient genes in CRC and obtained 126 salient genes with LRI score greater than zero. The biomarkers database lacks preliminary information on the salient genes as biomarkers for all the available cancer cell types. The salient genes revealed eleven, one and six overrepresentations for major Biological Processes, Molecular Function, and Cellular components. However, no enrichment with respect to chromosome location was found for the salient genes. Significantly high enrichments were observed for several KEGG, Reactome and PPI terms. The survival analysis of top protein-coding salient genes exhibited superior prognostic characteristics for CRC. MIR143HG, AMOTL1, ACTG2 and other salient genes lack sufficient information regarding their etiological role in CRC. Further investigation in LRI methodology and salient genes to augment the existing knowledge base may create new milestones in CRC diapeutics.",

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AU - Moretti, Stefano

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N2 - Diapeutics gene markers in colorectal cancer (CRC) can help manage mortality caused by the disease. We applied a game-theoretic link relevance Index (LRI) scoring on the high-throughput whole-genome transcriptome dataset to identify salient genes in CRC and obtained 126 salient genes with LRI score greater than zero. The biomarkers database lacks preliminary information on the salient genes as biomarkers for all the available cancer cell types. The salient genes revealed eleven, one and six overrepresentations for major Biological Processes, Molecular Function, and Cellular components. However, no enrichment with respect to chromosome location was found for the salient genes. Significantly high enrichments were observed for several KEGG, Reactome and PPI terms. The survival analysis of top protein-coding salient genes exhibited superior prognostic characteristics for CRC. MIR143HG, AMOTL1, ACTG2 and other salient genes lack sufficient information regarding their etiological role in CRC. Further investigation in LRI methodology and salient genes to augment the existing knowledge base may create new milestones in CRC diapeutics.

AB - Diapeutics gene markers in colorectal cancer (CRC) can help manage mortality caused by the disease. We applied a game-theoretic link relevance Index (LRI) scoring on the high-throughput whole-genome transcriptome dataset to identify salient genes in CRC and obtained 126 salient genes with LRI score greater than zero. The biomarkers database lacks preliminary information on the salient genes as biomarkers for all the available cancer cell types. The salient genes revealed eleven, one and six overrepresentations for major Biological Processes, Molecular Function, and Cellular components. However, no enrichment with respect to chromosome location was found for the salient genes. Significantly high enrichments were observed for several KEGG, Reactome and PPI terms. The survival analysis of top protein-coding salient genes exhibited superior prognostic characteristics for CRC. MIR143HG, AMOTL1, ACTG2 and other salient genes lack sufficient information regarding their etiological role in CRC. Further investigation in LRI methodology and salient genes to augment the existing knowledge base may create new milestones in CRC diapeutics.

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Game-Theoretic Link Relevance Indexing on Genome-Wide Expression Dataset Identifies Putative Salient Genes with Potential Etiological and Diapeutics role in Colorectal Cancer

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