Found: 23

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  • Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples.

    Published in:
    Nature Biotechnology, 2013, v. 31, n. 3, p. 213, doi. 10.1038/nbt.2514
    By:
    • Cibulskis, Kristian;
    • Lawrence, Michael S;
    • Carter, Scott L;
    • Sivachenko, Andrey;
    • Jaffe, David;
    • Sougnez, Carrie;
    • Gabriel, Stacey;
    • Meyerson, Matthew;
    • Lander, Eric S;
    • Getz, Gad
    Publication type:
    Article

  • Whole-exome sequencing and clinical interpretation of formalin-fixed, paraffin-embedded tumor samples to guide precision cancer medicine.

    Published in:
    Nature Medicine, 2014, v. 20, n. 6, p. 682, doi. 10.1038/nm.3559
    By:
    • Van Allen, Eliezer M;
    • Wagle, Nikhil;
    • Stojanov, Petar;
    • Perrin, Danielle L;
    • Cibulskis, Kristian;
    • Marlow, Sara;
    • Jane-Valbuena, Judit;
    • Friedrich, Dennis C;
    • Kryukov, Gregory;
    • Carter, Scott L;
    • McKenna, Aaron;
    • Sivachenko, Andrey;
    • Rosenberg, Mara;
    • Kiezun, Adam;
    • Voet, Douglas;
    • Lawrence, Michael;
    • Lichtenstein, Lee T;
    • Gentry, Jeff G;
    • Huang, Franklin W;
    • Fostel, Jennifer
    Publication type:
    Article

  • Exome and whole-genome sequencing of esophageal adenocarcinoma identifies recurrent driver events and mutational complexity.

    Published in:
    Nature Genetics, 2013, v. 45, n. 5, p. 478, doi. 10.1038/ng.2591
    By:
    • Dulak, Austin M;
    • Stojanov, Petar;
    • Peng, Shouyong;
    • Lawrence, Michael S;
    • Fox, Cameron;
    • Stewart, Chip;
    • Bandla, Santhoshi;
    • Imamura, Yu;
    • Schumacher, Steven E;
    • Shefler, Erica;
    • McKenna, Aaron;
    • Carter, Scott L;
    • Cibulskis, Kristian;
    • Sivachenko, Andrey;
    • Saksena, Gordon;
    • Voet, Douglas;
    • Ramos, Alex H;
    • Auclair, Daniel;
    • Thompson, Kristin;
    • Sougnez, Carrie
    Publication type:
    Article

  • The genetic landscape of high-risk neuroblastoma.

    Published in:
    Nature Genetics, 2013, v. 45, n. 3, p. 279, doi. 10.1038/ng.2529
    By:
    • Pugh, Trevor J;
    • Morozova, Olena;
    • Attiyeh, Edward F;
    • Asgharzadeh, Shahab;
    • Wei, Jun S;
    • Auclair, Daniel;
    • Carter, Scott L;
    • Cibulskis, Kristian;
    • Hanna, Megan;
    • Kiezun, Adam;
    • Kim, Jaegil;
    • Lawrence, Michael S;
    • Lichenstein, Lee;
    • McKenna, Aaron;
    • Pedamallu, Chandra Sekhar;
    • Ramos, Alex H;
    • Shefler, Erica;
    • Sivachenko, Andrey;
    • Sougnez, Carrie;
    • Stewart, Chip
    Publication type:
    Article

  • Genomic sequencing of colorectal adenocarcinomas identifies a recurrent VTI1A-TCF7L2 fusion.

    Published in:
    Nature Genetics, 2011, v. 43, n. 10, p. 964, doi. 10.1038/ng.936
    By:
    • Bass, Adam J;
    • Lawrence, Michael S;
    • Brace, Lear E;
    • Ramos, Alex H;
    • Drier, Yotam;
    • Cibulskis, Kristian;
    • Sougnez, Carrie;
    • Voet, Douglas;
    • Saksena, Gordon;
    • Sivachenko, Andrey;
    • Jing, Rui;
    • Parkin, Melissa;
    • Pugh, Trevor;
    • Verhaak, Roel G;
    • Stransky, Nicolas;
    • Boutin, Adam T;
    • Barretina, Jordi;
    • Solit, David B;
    • Vakiani, Evi;
    • Shao, Wenlin
    Publication type:
    Article

  • A framework for variation discovery and genotyping using next-generation DNA sequencing data.

    Published in:
    Nature Genetics, 2011, v. 43, n. 5, p. 491, doi. 10.1038/ng.806
    By:
    • DePristo, Mark A.;
    • Banks, Eric;
    • Poplin, Ryan;
    • Garimella, Kiran V.;
    • Maguire, Jared R.;
    • Hartl, Christopher;
    • Philippakis, Anthony A.;
    • del Angel, Guillermo;
    • Rivas, Manuel A.;
    • Hanna, Matt;
    • McKenna, Aaron;
    • Fennell, Tim J.;
    • Kernytsky, Andrew M.;
    • Sivachenko, Andrey Y.;
    • Cibulskis, Kristian;
    • Gabriel, Stacey B.;
    • Altshuler, David;
    • Daly, Mark J.
    Publication type:
    Article

  • Corrigendum: Comparative analysis of RNA sequencing methods for degraded or low-input samples.

    Published in:
    Nature Methods, 2014, v. 11, n. 2, p. 210, doi. 10.1038/nmeth0214-210e
    By:
    • Adiconis, Xian;
    • Borges-Rivera, Diego;
    • Satija, Rahul;
    • DeLuca, David S;
    • Busby, Michele A;
    • Berlin, Aaron M;
    • Sivachenko, Andrey;
    • Thompson, Dawn Anne;
    • Wysoker, Alec;
    • Fennell, Timothy;
    • Gnirke, Andreas;
    • Pochet, Nathalie;
    • Regev, Aviv;
    • Levin, Joshua Z
    Publication type:
    Article

  • Comparative analysis of RNA sequencing methods for degraded or low-input samples.

    Published in:
    Nature Methods, 2013, v. 10, n. 7, p. 623, doi. 10.1038/nmeth.2483
    By:
    • Adiconis, Xian;
    • Borges-Rivera, Diego;
    • Satija, Rahul;
    • DeLuca, David S;
    • Busby, Michele A;
    • Berlin, Aaron M;
    • Sivachenko, Andrey;
    • Thompson, Dawn Anne;
    • Wysoker, Alec;
    • Fennell, Timothy;
    • Gnirke, Andreas;
    • Pochet, Nathalie;
    • Regev, Aviv;
    • Levin, Joshua Z
    Publication type:
    Article

  • Massively Parallel Sequencing of Human Urinary Exosome/Microvesicle RNA Reveals a Predominance of Non-Coding RNA.

    Published in:
    PLoS ONE, 2014, v. 9, n. 5, p. 1, doi. 10.1371/journal.pone.0096094
    By:
    • Miranda, Kevin C.;
    • Bond, Daniel T.;
    • Levin, Joshua Z.;
    • Adiconis, Xian;
    • Sivachenko, Andrey;
    • Russ, Carsten;
    • Brown, Dennis;
    • Nusbaum, Chad;
    • Russo, Leileata M.
    Publication type:
    Article

  • A Pan-Cancer Analysis of Transcriptome Changes Associated with Somatic Mutations in <i>U2AF1</i> Reveals Commonly Altered Splicing Events.

    Published in:
    PLoS ONE, 2014, v. 9, n. 1, p. 1, doi. 10.1371/journal.pone.0087361
    By:
    • Brooks, Angela N.;
    • Choi, Peter S.;
    • de Waal, Luc;
    • Sharifnia, Tanaz;
    • Imielinski, Marcin;
    • Saksena, Gordon;
    • Pedamallu, Chandra Sekhar;
    • Sivachenko, Andrey;
    • Rosenberg, Mara;
    • Chmielecki, Juliann;
    • Lawrence, Michael S.;
    • DeLuca, David S.;
    • Getz, Gad;
    • Meyerson, Matthew
    Publication type:
    Article

  • ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining.

    Published in:
    2008
    By:
    • Tianxiao Huan;
    • Sivachenko, Andrey Y.;
    • Harrison, Scott H.;
    • Chen, Jake Y.
    Publication type:
    Product Review

  • The genomic complexity of primary human prostate cancer.

    Published in:
    Nature, 2011, v. 470, n. 7333, p. 214, doi. 10.1038/nature09744
    By:
    • Berger, Michael F.;
    • Lawrence, Michael S.;
    • Demichelis, Francesca;
    • Drier, Yotam;
    • Cibulskis, Kristian;
    • Sivachenko, Andrey Y.;
    • Sboner, Andrea;
    • Esgueva, Raquel;
    • Pflueger, Dorothee;
    • Sougnez, Carrie;
    • Onofrio, Robert;
    • Carter, Scott L.;
    • Park, Kyung;
    • Habegger, Lukas;
    • Ambrogio, Lauren;
    • Fennell, Timothy;
    • Parkin, Melissa;
    • Saksena, Gordon;
    • Voet, Douglas;
    • Ramos, Alex H.
    Publication type:
    Article

  • Genome-scale DNA methylation maps of pluripotent and differentiated cells.

    Published in:
    Nature, 2008, v. 454, n. 7205, p. 766, doi. 10.1038/nature07107
    By:
    • Meissner, Alexander;
    • Mikkelsen, Tarjei S.;
    • Hongcang Gu;
    • Wernig, Marius;
    • Hanna, Jacob;
    • Sivachenko, Andrey;
    • Xiaolan Zhang;
    • Bernstein, Bradley E.;
    • Nusbaum, Chad;
    • Jaffe, David B.;
    • Gnirke, Andreas;
    • Jaenisch, Rudolf;
    • Lander, Eric S.
    Publication type:
    Article

  • FREE AND DONOR-BOUND CHARGED MAGNETOEXCITONS IN QUANTUM WELLS.

    Published in:
    International Journal of Modern Physics B: Condensed Matter Physics; Statistical Physics; Applied Physics, 2007, v. 21, n. 8/9, p. 1563, doi. 10.1142/S0217979207043208
    By:
    • DZYUBENKO, ALEXANDER B.;
    • COSMA, DIANA A.;
    • Yu. SIVACHENKO, ANDREY
    Publication type:
    Article

  • Mutational heterogeneity in cancer and the search for new cancer-associated genes.

    Published in:
    Nature, 2013, v. 499, n. 7457, p. 214, doi. 10.1038/nature12213
    By:
    • Lawrence, Michael S.;
    • Stojanov, Petar;
    • Polak, Paz;
    • Kryukov, Gregory V.;
    • Cibulskis, Kristian;
    • Sivachenko, Andrey;
    • Carter, Scott L.;
    • Stewart, Chip;
    • Mermel, Craig H.;
    • Roberts, Steven A.;
    • Kiezun, Adam;
    • Hammerman, Peter S.;
    • McKenna, Aaron;
    • Drier, Yotam;
    • Zou, Lihua;
    • Ramos, Alex H.;
    • Pugh, Trevor J.;
    • Stransky, Nicolas;
    • Helman, Elena;
    • Kim, Jaegil
    Publication type:
    Article

  • Integrated genomic characterization of endometrial carcinoma.

    Published in:
    Nature, 2013, v. 497, n. 7447, p. 67, doi. 10.1038/nature12113
    By:
    • Getz, Gad;
    • Gabriel, Stacey B.;
    • Cibulskis, Kristian;
    • Lander, Eric;
    • Sivachenko, Andrey;
    • Sougnez, Carrie;
    • Lawrence, Mike;
    • Kandoth, Cyriac;
    • Dooling, David;
    • Fulton, Robert;
    • Fulton, Lucinda;
    • Kalicki-Veizer, Joelle;
    • McLellan, Michael D.;
    • O'Laughlin, Michelle;
    • Schmidt, Heather;
    • Wilson, Richard K.;
    • Ye, Kai;
    • Ding, Li;
    • Mardis, Elaine R.;
    • Ally, Adrian
    Publication type:
    Article

  • Comprehensive genomic characterization of squamous cell lung cancers.

    Published in:
    Nature, 2012, v. 489, n. 7417, p. 519, doi. 10.1038/nature11404
    By:
    • Hammerman, Peter S.;
    • Lawrence, Michael S.;
    • Voet, Douglas;
    • Jing, Rui;
    • Cibulskis, Kristian;
    • Sivachenko, Andrey;
    • Stojanov, Petar;
    • McKenna, Aaron;
    • Lander, Eric S.;
    • Gabriel, Stacey;
    • Getz, Gad;
    • Sougnez, Carrie;
    • Imielinski, Marcin;
    • Helman, Elena;
    • Hernandez, Bryan;
    • Pho, Nam H.;
    • Meyerson, Matthew;
    • Chu, Andy;
    • Chun, Hye-Jung E.;
    • Mungall, Andrew J.
    Publication type:
    Article

  • Medulloblastoma exome sequencing uncovers subtype-specific somatic mutations.

    Published in:
    Nature, 2012, v. 488, n. 7409, p. 106, doi. 10.1038/nature11329
    By:
    • Pugh, Trevor J.;
    • Weeraratne, Shyamal Dilhan;
    • Archer, Tenley C.;
    • Pomeranz Krummel, Daniel A.;
    • Auclair, Daniel;
    • Bochicchio, James;
    • Carneiro, Mauricio O.;
    • Carter, Scott L.;
    • Cibulskis, Kristian;
    • Erlich, Rachel L.;
    • Greulich, Heidi;
    • Lawrence, Michael S.;
    • Lennon, Niall J.;
    • McKenna, Aaron;
    • Meldrim, James;
    • Ramos, Alex H.;
    • Ross, Michael G.;
    • Russ, Carsten;
    • Shefler, Erica;
    • Sivachenko, Andrey
    Publication type:
    Article

  • Sequence analysis of mutations and translocations across breast cancer subtypes.

    Published in:
    Nature, 2012, v. 486, n. 7403, p. 405, doi. 10.1038/nature11154
    By:
    • Banerji, Shantanu;
    • Cibulskis, Kristian;
    • Rangel-Escareno, Claudia;
    • Brown, Kristin K.;
    • Carter, Scott L.;
    • Frederick, Abbie M.;
    • Lawrence, Michael S.;
    • Sivachenko, Andrey Y.;
    • Sougnez, Carrie;
    • Zou, Lihua;
    • Cortes, Maria L.;
    • Fernandez-Lopez, Juan C.;
    • Peng, Shouyong;
    • Ardlie, Kristin G.;
    • Auclair, Daniel;
    • Bautista-Piña, Veronica;
    • Duke, Fujiko;
    • Francis, Joshua;
    • Jung, Joonil;
    • Maffuz-Aziz, Antonio
    Publication type:
    Article

  • Melanoma genome sequencing reveals frequent PREX2 mutations.

    Published in:
    Nature, 2012, v. 485, n. 7399, p. 502, doi. 10.1038/nature11071
    By:
    • Berger, Michael F.;
    • Hodis, Eran;
    • Heffernan, Timothy P.;
    • Deribe, Yonathan Lissanu;
    • Lawrence, Michael S.;
    • Protopopov, Alexei;
    • Ivanova, Elena;
    • Watson, Ian R.;
    • Nickerson, Elizabeth;
    • Ghosh, Papia;
    • Zhang, Hailei;
    • Zeid, Rhamy;
    • Ren, Xiaojia;
    • Cibulskis, Kristian;
    • Sivachenko, Andrey Y.;
    • Wagle, Nikhil;
    • Sucker, Antje;
    • Sougnez, Carrie;
    • Onofrio, Robert;
    • Ambrogio, Lauren
    Publication type:
    Article

  • MOLECULAR NETWORKS IN MICROARRAY ANALYSIS.

    Published in:
    Journal of Bioinformatics & Computational Biology, 2007, v. 5, n. 2b, p. 429, doi. 10.1142/S0219720007002795
    By:
    • SIVACHENKO, ANDREY Y.;
    • YURYEV, ANTON;
    • DARASELIA, NIKOLAI;
    • MAZO, ILYA
    Publication type:
    Article

  • PRADA: pipeline for RNA sequencing data analysis.

    Published in:
    Bioinformatics, 2014, v. 30, n. 15, p. 2224, doi. 10.1093/bioinformatics/btu169
    By:
    • Torres-García, Wandaliz;
    • Zheng, Siyuan;
    • Sivachenko, Andrey;
    • Vegesna, Rahulsimham;
    • Wang, Qianghu;
    • Yao, Rong;
    • Berger, Michael F.;
    • Weinstein, John N.;
    • Getz, Gad;
    • Verhaak, Roel G.W.
    Publication type:
    Article

  • RNA-SeQC: RNA-seq metrics for quality control and process optimization.

    Published in:
    Bioinformatics, 2012, v. 28, n. 11, p. 1530, doi. 10.1093/bioinformatics/bts196
    By:
    • DeLuca, David S.;
    • Levin, Joshua Z.;
    • Sivachenko, Andrey;
    • Fennell, Timothy;
    • Nazaire, Marc-Danie;
    • Williams, Chris;
    • Reich, Michael;
    • Winckler, Wendy;
    • Getz, Gad
    Publication type:
    Article