Insights from Chromosome-Centric Mapping of Disease-Associated Genes: Chromosome 12 Perspective

Savita Jayaram; Manoj Kumar Gupta; Bhadravathi Marigowda Shivakumar; Madankumar Ghatge; Ankit Sharma; Rajani Kanth Vangala; Ravi Sirdeshmukh

doi:10.1021/acs.jproteome.5b00488

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Insights from Chromosome-Centric Mapping of Disease-Associated Genes: Chromosome 12 Perspective

Journal article

Peer reviewed

Insights from Chromosome-Centric Mapping of Disease-Associated Genes: Chromosome 12 Perspective

Savita Jayaram, Manoj Kumar Gupta, Bhadravathi Marigowda Shivakumar, Madankumar Ghatge, Ankit Sharma, Rajani Kanth Vangala and Ravi Sirdeshmukh

Journal of proteome research, Vol.14(9), pp.3432-3440

09/04/2015

DOI: 10.1021/acs.jproteome.5b00488

PMID: 26143930

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Abstract

In line with the aims of the Chromosome-based Human Proteome Project and the Biology/Disease-based Human Proteome Project, we have been studying differentially expressed transcripts and proteins in gliomas—the most prevalent primary brain tumors. Here, we present a perspective on important insights from this analysis in terms of their co-expression, co-regulation/de-regulation, and co-localization on chromosome 12 (Chr. 12). We observe the following: (1) Over-expression of genes mapping onto amplicon regions of chromosomes may be considered as a biological validation of mass spectrometry data. (2) Their co-localization further suggests common determinants of co-expression and co-regulation of these clusters. (3) Co-localization of "missing" protein genes of Chr. 12 in close proximity to functionally related genes may help in predicting their functions. (4) Further, integrating differentially expressed gene-protein sets and their ontologies with medical terms associated with clinical phenotypes in a chromosome-centric manner reveals a network of genes, diseases, and pathways—a diseasome network. Thus, chromosomal mapping of disease data sets can help uncover important regulatory and functional links that may offer new insights for biomarker development.

Brain Neoplasms - genetics

Chromosome Mapping

Chromosomes, Human, Pair 12

Genetic Predisposition to Disease

Glioma - genetics

Humans

Neoplasm Proteins - genetics

Details

Title: Subtitle: Insights from Chromosome-Centric Mapping of Disease-Associated Genes: Chromosome 12 Perspective
Creators: Savita Jayaram - Manipal Academy of Higher Education
Manoj Kumar Gupta - Institute of Bioinformatics
Bhadravathi Marigowda Shivakumar - Mazumdar Shaw Medical Foundation
Madankumar Ghatge - Narayana Health
Ankit Sharma - Manipal Academy of Higher Education
Rajani Kanth Vangala - Thrombosis Research Institute
Ravi Sirdeshmukh - Institute of Bioinformatics
Resource Type: Journal article
Publication Details: Journal of proteome research, Vol.14(9), pp.3432-3440
DOI: 10.1021/acs.jproteome.5b00488
PMID: 26143930
NLM abbreviation: J Proteome Res
ISSN: 1535-3893
eISSN: 1535-3907
Language: English
Date published: 09/04/2015
Academic Unit: Internal Medicine
Record Identifier: 9984949452502771

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