Literature DB >> 27706596

Detecting the potential cancer association or metastasis by multi-omics data analysis.

L Hua1,2, W Y Zheng3,4, H Xia3,4, P Zhou3,4.   

Abstract

Comprehensive multi-omics data analyses have become an important means for understanding cancer incidence and progression largely driven by the availability of high-throughput sequencing technologies for genomes, proteomes, and transcriptomes. However, how tumor cells from the site of origin of the cancer begin to grow in other sites of the body is very poorly understood. In order to examine potential connections between different cancers and to gain an insight into the metastatic process, we conducted a multi-omics data analysis using data deposited in The Cancer Genome Atlas database. By combining somatic mutation data along with DNA methylation level and gene expression level data, we applied a Bayesian network analysis to detect the potential association among four distinct cancer types namely, Head and neck squamous cell carcinoma (Hnsc), Lung adenocarcinoma (Luad), Lung squamous cell carcinoma (Lusc), and Skin cutaneous melanoma (Skcm). Further validation based on the 'identification of somatic signatures' and the 'association rules analysis' confirmed these associations. Previous investigations have suggested that common risk factors and molecular abnormalities in cell-cycle regulation and signal transduction predominate among these cancers. This evidence indicates that our study provides a rational analysis and hopefully will help shed light on the links between different cancers and metastasis as a whole.

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Year:  2016        PMID: 27706596     DOI: 10.4238/gmr.15038987

Source DB:  PubMed          Journal:  Genet Mol Res        ISSN: 1676-5680


  4 in total

1.  Improved survival prognostication of node-positive malignant melanoma patients utilizing shotgun proteomics guided by histopathological characterization and genomic data.

Authors:  Lazaro Hiram Betancourt; Krzysztof Pawłowski; Jonatan Eriksson; A Marcell Szasz; Shamik Mitra; Indira Pla; Charlotte Welinder; Henrik Ekedahl; Per Broberg; Roger Appelqvist; Maria Yakovleva; Yutaka Sugihara; Kenichi Miharada; Christian Ingvar; Lotta Lundgren; Bo Baldetorp; Håkan Olsson; Melinda Rezeli; Elisabet Wieslander; Peter Horvatovich; Johan Malm; Göran Jönsson; György Marko-Varga
Journal:  Sci Rep       Date:  2019-03-26       Impact factor: 4.379

Review 2.  Integrated Multi-Omics Analyses in Oncology: A Review of Machine Learning Methods and Tools.

Authors:  Giovanna Nicora; Francesca Vitali; Arianna Dagliati; Nophar Geifman; Riccardo Bellazzi
Journal:  Front Oncol       Date:  2020-06-30       Impact factor: 6.244

3.  A Bayesian network approach incorporating imputation of missing data enables exploratory analysis of complex causal biological relationships.

Authors:  Richard Howey; Alexander D Clark; Najib Naamane; Louise N Reynard; Arthur G Pratt; Heather J Cordell
Journal:  PLoS Genet       Date:  2021-09-29       Impact factor: 5.917

4.  Bayesian network analysis incorporating genetic anchors complements conventional Mendelian randomization approaches for exploratory analysis of causal relationships in complex data.

Authors:  Richard Howey; So-Youn Shin; Caroline Relton; George Davey Smith; Heather J Cordell
Journal:  PLoS Genet       Date:  2020-03-02       Impact factor: 5.917

  4 in total

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