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We are analyzing https://www.nature.com/articles/s41467-018-06302-1.

Title:
Large-scale transcriptome-wide association study identifies new prostate cancer risk regions | Nature Communications
Description:
Although genome-wide association studies (GWAS) for prostate cancer (PrCa) have identified more than 100 risk regions, most of the risk genes at these regions remain largely unknown. Here we integrate the largest PrCa GWAS (N = 142,392) with gene expression measured in 45 tissues (N = 4458), including normal and tumor prostate, to perform a multi-tissue transcriptome-wide association study (TWAS) for PrCa. We identify 217 genes at 84 independent 1 Mb regions associated with PrCa risk, 9 of which are regions with no genome-wide significant SNP within 2 Mb. 23 genes are significant in TWAS only for alternative splicing models in prostate tumor thus supporting the hypothesis of splicing driving risk for continued oncogenesis. Finally, we use a Bayesian probabilistic approach to estimate credible sets of genes containing the causal gene at a pre-defined level; this reduced the list of 217 associations to 109 genes in the 90% credible set. Overall, our findings highlight the power of integrating expression with PrCa GWAS to identify novel risk loci and prioritize putative causal genes at known risk loci. Genome-wide association studies (GWAS) have identified hundreds of genomic risk regions for prostate cancer. Here, the authors perform a transcriptome wide association study (TWAS) by incorporating prostate cancer GWAS with gene expression data to identify potential novel prostate cancer risk loci and possible risk mechanisms.
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Keywords {🔍}

expression, gene, cancer, genes, risk, prostate, article, prca, association, gwas, google, scholar, twas, models, data, supplementary, university, research, department, cas, snps, regions, usa, significant, institute, tumor, levels, genet, snp, loci, health, medicine, epidemiology, normal, center, nature, study, statistics, nat, total, found, predicted, transcriptomewide, tissues, causal, region, medical, associations, susceptibility, reference,

Topics {✒️}

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      headline:Large-scale transcriptome-wide association study identifies new prostate cancer risk regions
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               name:Division of Genetics and Epidemiology, The Institute of Cancer Research, London, UK
               type:PostalAddress
            type:Organization
            name:Royal Marsden NHS Foundation Trust
            address:
               name:Royal Marsden NHS Foundation Trust, London, UK
               type:PostalAddress
            type:Organization
      name:Rosalind Eeles
      url:http://orcid.org/0000-0002-3698-6241
      affiliation:
            name:Division of Genetics and Epidemiology, The Institute of Cancer Research
            address:
               name:Division of Genetics and Epidemiology, The Institute of Cancer Research, London, UK
               type:PostalAddress
            type:Organization
            name:Royal Marsden NHS Foundation Trust
            address:
               name:Royal Marsden NHS Foundation Trust, London, UK
               type:PostalAddress
            type:Organization
      name:Matthew Freedman
      affiliation:
            name:Department of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical School
            address:
               name:Department of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical School, Boston, USA
               type:PostalAddress
            type:Organization
      name:Christopher Haiman
      affiliation:
            name:University of Southern California
            address:
               name:Department of Preventive Medicine, Norris Comprehensive Cancer Center, Keck School of Medicine, University of Southern California, Los Angeles, USA
               type:PostalAddress
            type:Organization
      name:Bogdan Pasaniuc
      affiliation:
            name:University of California, Los Angeles
            address:
               name:Department of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, USA
               type:PostalAddress
            type:Organization
            name:University of California, Los Angeles
            address:
               name:Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, USA
               type:PostalAddress
            type:Organization
            name:University of California, Los Angeles
            address:
               name:Bioinformatics Interdepartmental Program, University of California, Los Angeles, Los Angeles, USA
               type:PostalAddress
            type:Organization
PostalAddress:
      name:Department of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, USA
      name:The Center for Bioinformatics and Functional Genomics, Cedars-Sinai Medical Center, Los Angeles, USA
      name:Dana Farber Cancer Institute, Boston, USA
      name:Division of Epidemiology, Department of Medicine, Vanderbilt Epidemiology Center, Vanderbilt-Ingram Cancer Center, Vanderbilt University School of Medicine, Nashville, USA
      name:Department of Epidemiology, Harvard T.H. Chan School of Public Health, Boston, USA
      name:Channing Division of Network Medicine, Department of Medicine, Brigham and Women’s Hospital/Harvard Medical School, Boston, USA
      name:Division of Genetics and Epidemiology, The Institute of Cancer Research, London, UK
      name:Royal Marsden NHS Foundation Trust, London, UK
      name:Division of Genetics and Epidemiology, The Institute of Cancer Research, London, UK
      name:Royal Marsden NHS Foundation Trust, London, UK
      name:Department of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical School, Boston, USA
      name:Department of Preventive Medicine, Norris Comprehensive Cancer Center, Keck School of Medicine, University of Southern California, Los Angeles, USA
      name:Department of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, USA
      name:Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, USA
      name:Bioinformatics Interdepartmental Program, University of California, Los Angeles, Los Angeles, USA

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