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Integrated transcriptomic-genomic tool Texomer profiles cancer tissues.

ABSTRACT: Profiling of both the genome and the transcriptome promises a comprehensive, functional readout of a tissue sample, yet analytical approaches are required to translate the increased data dimensionality, heterogeneity and complexity into patient benefits. We developed a statistical approach called Texomer ( https://github.com/KChen-lab/Texomer ) that performs allele-specific, tumor-deconvoluted transcriptome-exome integration of autologous bulk whole-exome and transcriptome sequencing data. Texomer results in substantially improved accuracy in sample categorization and functional variant prioritization.

SUBMITTER: Wang F

PROVIDER: S-EPMC7337246 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature

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Integrated transcriptomic-genomic tool Texomer profiles cancer tissues.

Wang Fang F Zhang Shaojun S Kim Tae-Beom TB Lin Yu-Yu YY Iqbal Ramiz R Wang Zixing Z Mohanty Vakul V Sircar Kanishka K Karam Jose A JA Wendl Michael C MC Meric-Bernstam Funda F Weinstein John N JN Ding Li L Mills Gordon B GB Chen Ken K

Nature methods 20190415 5

Profiling of both the genome and the transcriptome promises a comprehensive, functional readout of a tissue sample, yet analytical approaches are required to translate the increased data dimensionality, heterogeneity and complexity into patient benefits. We developed a statistical approach called Texomer ( https://github.com/KChen-lab/Texomer ) that performs allele-specific, tumor-deconvoluted transcriptome-exome integration of autologous bulk whole-exome and transcriptome sequencing data. Texom ...[more]

PMID: 30988467

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