Game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer

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...

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Autores principales: Baruah, Vishwa Jyoti, Neog Bora, Papori, Sarmah, Bhaswati, Mahanta, Priyakshi, Sarmah, Ankumon, Moretti, Stefano, Kumar, Rajnish, Borkotokey, Surajit
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
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Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9352798/
https://www.ncbi.nlm.nih.gov/pubmed/35927308
http://dx.doi.org/10.1038/s41598-022-17266-0
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author Baruah, Vishwa Jyoti
Neog Bora, Papori
Sarmah, Bhaswati
Mahanta, Priyakshi
Sarmah, Ankumon
Moretti, Stefano
Kumar, Rajnish
Borkotokey, Surajit
author_facet Baruah, Vishwa Jyoti
Neog Bora, Papori
Sarmah, Bhaswati
Mahanta, Priyakshi
Sarmah, Ankumon
Moretti, Stefano
Kumar, Rajnish
Borkotokey, Surajit
author_sort Baruah, Vishwa Jyoti
collection PubMed
description 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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spelling pubmed-93527982022-08-06 Game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer Baruah, Vishwa Jyoti Neog Bora, Papori Sarmah, Bhaswati Mahanta, Priyakshi Sarmah, Ankumon Moretti, Stefano Kumar, Rajnish Borkotokey, Surajit Sci Rep Article 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. Nature Publishing Group UK 2022-08-04 /pmc/articles/PMC9352798/ /pubmed/35927308 http://dx.doi.org/10.1038/s41598-022-17266-0 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Baruah, Vishwa Jyoti
Neog Bora, Papori
Sarmah, Bhaswati
Mahanta, Priyakshi
Sarmah, Ankumon
Moretti, Stefano
Kumar, Rajnish
Borkotokey, Surajit
Game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer
title Game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer
title_full Game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer
title_fullStr Game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer
title_full_unstemmed Game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer
title_short Game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer
title_sort game-theoretic link relevance indexing on genome-wide expression dataset identifies putative salient genes with potential etiological and diapeutics role in colorectal cancer
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9352798/
https://www.ncbi.nlm.nih.gov/pubmed/35927308
http://dx.doi.org/10.1038/s41598-022-17266-0
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