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Evaluation of somatic copy number variation detection by NGS technologies and bioinformatics tools on a hyper-diploid cancer genome.

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Title: Evaluation of somatic copy number variation detection by NGS technologies and bioinformatics tools on a hyper-diploid cancer genome.
Authors: Masood D; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA., Ren L; State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China., Nguyen C; Computational Genomics and Bioinformatics Branch, Center for Biomedical Informatics and Information Technology (CBIIT), National Cancer Institute, Rockville, MD, USA., Brundu FG; Illumina Inc., San Diego, CA, USA., Zheng L; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA., Zhao Y; Sequencing Facility Bioinformatics Group, Biomedical Informatics and Data Science Directorate, Frederick National Laboratory for Cancer Research, Frederick, MD, USA., Jaeger E; Illumina Inc., San Diego, CA, USA., Li Y; Illumina Inc., San Diego, CA, USA., Cha SW; Illumina Inc., San Diego, CA, USA., Halpern A; Illumina Inc., San Diego, CA, USA., Truong S; Illumina Inc., San Diego, CA, USA., Virata M; Illumina Inc., San Diego, CA, USA., Yan C; Computational Genomics and Bioinformatics Branch, Center for Biomedical Informatics and Information Technology (CBIIT), National Cancer Institute, Rockville, MD, USA., Chen Q; Computational Genomics and Bioinformatics Branch, Center for Biomedical Informatics and Information Technology (CBIIT), National Cancer Institute, Rockville, MD, USA., Pang A; Bionano Genomics, San Diego, CA, 20892, USA., Alberto R; Bionano Genomics, San Diego, CA, 20892, USA., Xiao C; National Center for Biotechnology Information, National Librarssy of Medicine, National Institutes of Health, Bethesda, MD, 20892, USA., Yang Z; Center for Genomics, Loma Linda University School of Medicine, Loma Linda, CA, USA., Chen W; Center for Genomics, Loma Linda University School of Medicine, Loma Linda, CA, USA., Wang C; Center for Genomics, Loma Linda University School of Medicine, Loma Linda, CA, USA., Cross F Jr; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA., Catreux S; Illumina Inc., San Diego, CA, USA., Shi L; State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China., Beaver JA; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA.; Oncology Center of Excellence, Food and Drug Administration, Silver Spring, MD, USA., Xiao W; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA. wenming.xiao@fda.hhs.gov., Meerzaman DM; Computational Genomics and Bioinformatics Branch, Center for Biomedical Informatics and Information Technology (CBIIT), National Cancer Institute, Rockville, MD, USA. meerzamd@mail.nih.gov.
Source: Genome biology [Genome Biol] 2024 Jun 20; Vol. 25 (1), pp. 163. Date of Electronic Publication: 2024 Jun 20.
Publication Type: Journal Article; Evaluation Study; Research Support, N.I.H., Intramural; Research Support, U.S. Gov't, Non-P.H.S.; Research Support, Non-U.S. Gov't; Research Support, N.I.H., Extramural
Journal Info: Publisher: BioMed Central Ltd Country of Publication: England NLM ID: 100960660 Publication Model: Electronic Cited Medium: Internet ISSN: 1474-760X (Electronic) Linking ISSN: 14747596 NLM ISO Abbreviation: Genome Biol Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: Evaluation of somatic copy number variation detection by NGS technologies and bioinformatics tools on a hyper-diploid cancer genome.
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  Data: <searchLink fieldCode="AU" term="%22Masood+D%22">Masood D</searchLink>; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA.<br /><searchLink fieldCode="AU" term="%22Ren+L%22">Ren L</searchLink>; State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China.<br /><searchLink fieldCode="AU" term="%22Nguyen+C%22">Nguyen C</searchLink>; Computational Genomics and Bioinformatics Branch, Center for Biomedical Informatics and Information Technology (CBIIT), National Cancer Institute, Rockville, MD, USA.<br /><searchLink fieldCode="AU" term="%22Brundu+FG%22">Brundu FG</searchLink>; Illumina Inc., San Diego, CA, USA.<br /><searchLink fieldCode="AU" term="%22Zheng+L%22">Zheng L</searchLink>; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA.<br /><searchLink fieldCode="AU" term="%22Zhao+Y%22">Zhao Y</searchLink>; Sequencing Facility Bioinformatics Group, Biomedical Informatics and Data Science Directorate, Frederick National Laboratory for Cancer Research, Frederick, MD, USA.<br /><searchLink fieldCode="AU" term="%22Jaeger+E%22">Jaeger E</searchLink>; Illumina Inc., San Diego, CA, USA.<br /><searchLink fieldCode="AU" term="%22Li+Y%22">Li Y</searchLink>; Illumina Inc., San Diego, CA, USA.<br /><searchLink fieldCode="AU" term="%22Cha+SW%22">Cha SW</searchLink>; Illumina Inc., San Diego, CA, USA.<br /><searchLink fieldCode="AU" term="%22Halpern+A%22">Halpern A</searchLink>; Illumina Inc., San Diego, CA, USA.<br /><searchLink fieldCode="AU" term="%22Truong+S%22">Truong S</searchLink>; Illumina Inc., San Diego, CA, USA.<br /><searchLink fieldCode="AU" term="%22Virata+M%22">Virata M</searchLink>; Illumina Inc., San Diego, CA, USA.<br /><searchLink fieldCode="AU" term="%22Yan+C%22">Yan C</searchLink>; Computational Genomics and Bioinformatics Branch, Center for Biomedical Informatics and Information Technology (CBIIT), National Cancer Institute, Rockville, MD, USA.<br /><searchLink fieldCode="AU" term="%22Chen+Q%22">Chen Q</searchLink>; Computational Genomics and Bioinformatics Branch, Center for Biomedical Informatics and Information Technology (CBIIT), National Cancer Institute, Rockville, MD, USA.<br /><searchLink fieldCode="AU" term="%22Pang+A%22">Pang A</searchLink>; Bionano Genomics, San Diego, CA, 20892, USA.<br /><searchLink fieldCode="AU" term="%22Alberto+R%22">Alberto R</searchLink>; Bionano Genomics, San Diego, CA, 20892, USA.<br /><searchLink fieldCode="AU" term="%22Xiao+C%22">Xiao C</searchLink>; National Center for Biotechnology Information, National Librarssy of Medicine, National Institutes of Health, Bethesda, MD, 20892, USA.<br /><searchLink fieldCode="AU" term="%22Yang+Z%22">Yang Z</searchLink>; Center for Genomics, Loma Linda University School of Medicine, Loma Linda, CA, USA.<br /><searchLink fieldCode="AU" term="%22Chen+W%22">Chen W</searchLink>; Center for Genomics, Loma Linda University School of Medicine, Loma Linda, CA, USA.<br /><searchLink fieldCode="AU" term="%22Wang+C%22">Wang C</searchLink>; Center for Genomics, Loma Linda University School of Medicine, Loma Linda, CA, USA.<br /><searchLink fieldCode="AU" term="%22Cross+F+Jr%22">Cross F Jr</searchLink>; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA.<br /><searchLink fieldCode="AU" term="%22Catreux+S%22">Catreux S</searchLink>; Illumina Inc., San Diego, CA, USA.<br /><searchLink fieldCode="AU" term="%22Shi+L%22">Shi L</searchLink>; State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China.<br /><searchLink fieldCode="AU" term="%22Beaver+JA%22">Beaver JA</searchLink>; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA.; Oncology Center of Excellence, Food and Drug Administration, Silver Spring, MD, USA.<br /><searchLink fieldCode="AU" term="%22Xiao+W%22">Xiao W</searchLink>; Office of Oncologic Diseases, Office of New Drug, Center for Drug Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, 20993, USA. wenming.xiao@fda.hhs.gov.<br /><searchLink fieldCode="AU" term="%22Meerzaman+DM%22">Meerzaman DM</searchLink>; Computational Genomics and Bioinformatics Branch, Center for Biomedical Informatics and Information Technology (CBIIT), National Cancer Institute, Rockville, MD, USA. meerzamd@mail.nih.gov.
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  Data: <searchLink fieldCode="JN" term="%22100960660%22">Genome biology</searchLink> [Genome Biol] 2024 Jun 20; Vol. 25 (1), pp. 163. <i>Date of Electronic Publication: </i>2024 Jun 20.
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  Data: <i>Publisher: </i><searchLink fieldCode="PB" term="%22BioMed+Central+Ltd%22">BioMed Central Ltd </searchLink><i>Country of Publication: </i>England <i>NLM ID: </i>100960660 <i>Publication Model: </i>Electronic <i>Cited Medium: </i>Internet <i>ISSN: </i>1474-760X (Electronic) <i>Linking ISSN: </i><searchLink fieldCode="IS" term="%2214747596%22">14747596 </searchLink><i>NLM ISO Abbreviation: </i>Genome Biol <i>Subsets: </i>MEDLINE
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