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Classification of non-TCGA cancer samples to TCGA molecular subtypes using compact feature sets.

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Title: Classification of non-TCGA cancer samples to TCGA molecular subtypes using compact feature sets.
Authors: Ellrott K; Oregon Health and Science University, Portland, OR 97239, USA. Electronic address: ellrott@ohsu.edu., Wong CK; Biomolecular Engineering Department, School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA., Yau C; University of California, San Francisco, Department of Surgery, San Francisco, CA 94158, USA; Buck Institute for Research on Aging, Novato, CA 94945, USA., Castro MAA; Bioinformatics and Systems Biology Laboratory, Federal University of Paraná, Curitiba, PR 81520-260, Brazil., Lee JA; Oregon Health and Science University, Portland, OR 97239, USA., Karlberg BJ; Oregon Health and Science University, Portland, OR 97239, USA., Grewal JK; Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, BC, Canada., Lagani V; JADBio Gnosis DA, GR-700 13 Heraklion, Crete, Greece; Institute of Chemical Biology, Ilia State University, Tbilisi 0162, Georgia., Tercan B; Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA 98109, USA., Friedl V; Biomolecular Engineering Department, School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA., Hinoue T; Department of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA., Uzunangelov V; Biomolecular Engineering Department, School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA., Westlake L; The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02215, USA., Loinaz X; The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Felau I; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA., Wang PI; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA., Kemal A; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA., Caesar-Johnson SJ; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA., Shmulevich I; Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA 98109, USA., Lazar AJ; Departments of Pathology & Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA., Tsamardinos I; JADBio Gnosis DA, GR-700 13 Heraklion, Crete, Greece; Department of Computer Science, University of Crete, GR-700 13 Heraklion, Crete, Greece; Institute of Applied and Computational Mathematics, Foundation for Research and Technology Hellas (FORTH), GR-700 13 Heraklion, Crete, Greece., Hoadley KA; Department of Genetics, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27519, USA., Robertson AG; Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, BC, Canada., Knijnenburg TA; Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA 98109, USA., Benz CC; Buck Institute for Research on Aging, Novato, CA 94945, USA., Stuart JM; Biomolecular Engineering Department, School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA., Zenklusen JC; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA., Cherniack AD; The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02215, USA; Harvard Medical School, Boston, MA 02115, USA. Electronic address: achernia@broadinstitute.org., Laird PW; Department of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA. Electronic address: peter.laird@vai.org.
Corporate Authors: Cancer Genome Atlas Analysis Network
Source: Cancer cell [Cancer Cell] 2025 Feb 10; Vol. 43 (2), pp. 195-212.e11. Date of Electronic Publication: 2025 Jan 02.
Publication Type: Journal Article
Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 101130617 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1878-3686 (Electronic) Linking ISSN: 15356108 NLM ISO Abbreviation: Cancer Cell Subsets: MEDLINE
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  Data: <searchLink fieldCode="AU" term="%22Ellrott+K%22">Ellrott K</searchLink>; Oregon Health and Science University, Portland, OR 97239, USA. Electronic address: ellrott@ohsu.edu.<br /><searchLink fieldCode="AU" term="%22Wong+CK%22">Wong CK</searchLink>; Biomolecular Engineering Department, School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA.<br /><searchLink fieldCode="AU" term="%22Yau+C%22">Yau C</searchLink>; University of California, San Francisco, Department of Surgery, San Francisco, CA 94158, USA; Buck Institute for Research on Aging, Novato, CA 94945, USA.<br /><searchLink fieldCode="AU" term="%22Castro+MAA%22">Castro MAA</searchLink>; Bioinformatics and Systems Biology Laboratory, Federal University of Paraná, Curitiba, PR 81520-260, Brazil.<br /><searchLink fieldCode="AU" term="%22Lee+JA%22">Lee JA</searchLink>; Oregon Health and Science University, Portland, OR 97239, USA.<br /><searchLink fieldCode="AU" term="%22Karlberg+BJ%22">Karlberg BJ</searchLink>; Oregon Health and Science University, Portland, OR 97239, USA.<br /><searchLink fieldCode="AU" term="%22Grewal+JK%22">Grewal JK</searchLink>; Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, BC, Canada.<br /><searchLink fieldCode="AU" term="%22Lagani+V%22">Lagani V</searchLink>; JADBio Gnosis DA, GR-700 13 Heraklion, Crete, Greece; Institute of Chemical Biology, Ilia State University, Tbilisi 0162, Georgia.<br /><searchLink fieldCode="AU" term="%22Tercan+B%22">Tercan B</searchLink>; Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA 98109, USA.<br /><searchLink fieldCode="AU" term="%22Friedl+V%22">Friedl V</searchLink>; Biomolecular Engineering Department, School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA.<br /><searchLink fieldCode="AU" term="%22Hinoue+T%22">Hinoue T</searchLink>; Department of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA.<br /><searchLink fieldCode="AU" term="%22Uzunangelov+V%22">Uzunangelov V</searchLink>; Biomolecular Engineering Department, School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA.<br /><searchLink fieldCode="AU" term="%22Westlake+L%22">Westlake L</searchLink>; The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02215, USA.<br /><searchLink fieldCode="AU" term="%22Loinaz+X%22">Loinaz X</searchLink>; The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.<br /><searchLink fieldCode="AU" term="%22Felau+I%22">Felau I</searchLink>; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA.<br /><searchLink fieldCode="AU" term="%22Wang+PI%22">Wang PI</searchLink>; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA.<br /><searchLink fieldCode="AU" term="%22Kemal+A%22">Kemal A</searchLink>; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA.<br /><searchLink fieldCode="AU" term="%22Caesar-Johnson+SJ%22">Caesar-Johnson SJ</searchLink>; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA.<br /><searchLink fieldCode="AU" term="%22Shmulevich+I%22">Shmulevich I</searchLink>; Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA 98109, USA.<br /><searchLink fieldCode="AU" term="%22Lazar+AJ%22">Lazar AJ</searchLink>; Departments of Pathology & Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA.<br /><searchLink fieldCode="AU" term="%22Tsamardinos+I%22">Tsamardinos I</searchLink>; JADBio Gnosis DA, GR-700 13 Heraklion, Crete, Greece; Department of Computer Science, University of Crete, GR-700 13 Heraklion, Crete, Greece; Institute of Applied and Computational Mathematics, Foundation for Research and Technology Hellas (FORTH), GR-700 13 Heraklion, Crete, Greece.<br /><searchLink fieldCode="AU" term="%22Hoadley+KA%22">Hoadley KA</searchLink>; Department of Genetics, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27519, USA.<br /><searchLink fieldCode="AU" term="%22Robertson+AG%22">Robertson AG</searchLink>; Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, BC, Canada.<br /><searchLink fieldCode="AU" term="%22Knijnenburg+TA%22">Knijnenburg TA</searchLink>; Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA 98109, USA.<br /><searchLink fieldCode="AU" term="%22Benz+CC%22">Benz CC</searchLink>; Buck Institute for Research on Aging, Novato, CA 94945, USA.<br /><searchLink fieldCode="AU" term="%22Stuart+JM%22">Stuart JM</searchLink>; Biomolecular Engineering Department, School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA.<br /><searchLink fieldCode="AU" term="%22Zenklusen+JC%22">Zenklusen JC</searchLink>; Center for Cancer Genomics, National Cancer Institute, Bethesda, MD 20892, USA.<br /><searchLink fieldCode="AU" term="%22Cherniack+AD%22">Cherniack AD</searchLink>; The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02215, USA; Harvard Medical School, Boston, MA 02115, USA. Electronic address: achernia@broadinstitute.org.<br /><searchLink fieldCode="AU" term="%22Laird+PW%22">Laird PW</searchLink>; Department of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA. Electronic address: peter.laird@vai.org.
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  Data: <searchLink fieldCode="JN" term="%22101130617%22">Cancer cell</searchLink> [Cancer Cell] 2025 Feb 10; Vol. 43 (2), pp. 195-212.e11. <i>Date of Electronic Publication: </i>2025 Jan 02.
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