Literature DB >> 24874569

TCGA-assembler: open-source software for retrieving and processing TCGA data.

Yitan Zhu1, Peng Qiu2, Yuan Ji3.   

Abstract

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Year:  2014        PMID： 24874569      PMCID： PMC4387197          DOI： 10.1038/nmeth.2956

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


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  5 in total

1.  A Bayesian Graphical Model for Integrative Analysis of TCGA Data.

Authors:  Yanxun Xu; Jie Zhang; Yuan Yuan; Riten Mitra; Peter Müller; Yuan Ji
Journal:  IEEE Int Workshop Genomic Signal Process Stat       Date:  2012-12

2.  Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal.

Authors:  Jianjiong Gao; Bülent Arman Aksoy; Ugur Dogrusoz; Gideon Dresdner; Benjamin Gross; S Onur Sumer; Yichao Sun; Anders Jacobsen; Rileen Sinha; Erik Larsson; Ethan Cerami; Chris Sander; Nikolaus Schultz
Journal:  Sci Signal       Date:  2013-04-02       Impact factor: 8.192

3.  Comprehensive genomic characterization defines human glioblastoma genes and core pathways.

Authors: 
Journal:  Nature       Date:  2008-09-04       Impact factor: 49.962

4.  Comprehensive molecular portraits of human breast tumours.

Authors: 
Journal:  Nature       Date:  2012-09-23       Impact factor: 49.962

5.  A self-updating road map of The Cancer Genome Atlas.

Authors:  David E Robbins; Alexander Grüneberg; Helena F Deus; Murat M Tanik; Jonas S Almeida
Journal:  Bioinformatics       Date:  2013-04-17       Impact factor: 6.937
  5 in total
  183 in total

1.  High Expression of miR-532-5p, a Tumor Suppressor, Leads to Better Prognosis in Ovarian Cancer Both In Vivo and In Vitro.

Authors:  Fan Wang; Jeremy T-H Chang; Chester Jingshiu Kao; R Stephanie Huang
Journal:  Mol Cancer Ther       Date:  2016-02-12       Impact factor: 6.261

2.  Omicseq: a web-based search engine for exploring omics datasets.

Authors:  Xiaobo Sun; William S Pittard; Tianlei Xu; Li Chen; Michael E Zwick; Xiaoqian Jiang; Fusheng Wang; Zhaohui S Qin
Journal:  Nucleic Acids Res       Date:  2017-07-03       Impact factor: 16.971

3.  Pathway-Structured Predictive Model for Cancer Survival Prediction: A Two-Stage Approach.

Authors:  Xinyan Zhang; Yan Li; Tomi Akinyemiju; Akinyemi I Ojesina; Phillip Buckhaults; Nianjun Liu; Bo Xu; Nengjun Yi
Journal:  Genetics       Date:  2016-11-09       Impact factor: 4.562

4.  Bayesian Hierarchical Varying-sparsity Regression Models with Application to Cancer Proteogenomics.

Authors:  Yang Ni; Francesco C Stingo; Min Jin Ha; Rehan Akbani; Veerabhadran Baladandayuthapani
Journal:  J Am Stat Assoc       Date:  2018-08-15       Impact factor: 5.033

5.  A Systems Pharmacology Approach Uncovers Wogonoside as an Angiogenesis Inhibitor of Triple-Negative Breast Cancer by Targeting Hedgehog Signaling.

Authors:  Yujie Huang; Jiansong Fang; Weiqiang Lu; Zihao Wang; Qi Wang; Yuan Hou; Xingwu Jiang; Ofer Reizes; Justin Lathia; Ruth Nussinov; Charis Eng; Feixiong Cheng
Journal:  Cell Chem Biol       Date:  2019-06-06       Impact factor: 8.116

6.  Plasminogen Activator Inhibitor-1 Promotes the Recruitment and Polarization of Macrophages in Cancer.

Authors:  Marta Helena Kubala; Vasu Punj; Veronica Rae Placencio-Hickok; Hua Fang; G Esteban Fernandez; Richard Sposto; Yves Albert DeClerck
Journal:  Cell Rep       Date:  2018-11-20       Impact factor: 9.423

7.  Rejoinder to statistical contributions to bioinformatics: Design, modelling, structure learning and Integration.

Authors:  Jeffrey S Morris; Veerabhadran Baladandayuthapani
Journal:  Stat Modelling       Date:  2017-09-12       Impact factor: 2.039

8.  The tumor microenvironment underlies acquired resistance to CSF-1R inhibition in gliomas.

Authors:  Daniela F Quail; Robert L Bowman; Leila Akkari; Marsha L Quick; Alberto J Schuhmacher; Jason T Huse; Eric C Holland; James C Sutton; Johanna A Joyce
Journal:  Science       Date:  2016-05-20       Impact factor: 47.728

9.  Using computer-extracted image phenotypes from tumors on breast magnetic resonance imaging to predict breast cancer pathologic stage.

Authors:  Elizabeth S Burnside; Karen Drukker; Hui Li; Ermelinda Bonaccio; Margarita Zuley; Marie Ganott; Jose M Net; Elizabeth J Sutton; Kathleen R Brandt; Gary J Whitman; Suzanne D Conzen; Li Lan; Yuan Ji; Yitan Zhu; Carl C Jaffe; Erich P Huang; John B Freymann; Justin S Kirby; Elizabeth A Morris; Maryellen L Giger
Journal:  Cancer       Date:  2015-11-30       Impact factor: 6.860

10.  Systematic Prioritization of Druggable Mutations in ∼5000 Genomes Across 16 Cancer Types Using a Structural Genomics-based Approach.

Authors:  Junfei Zhao; Feixiong Cheng; Yuanyuan Wang; Carlos L Arteaga; Zhongming Zhao
Journal:  Mol Cell Proteomics       Date:  2015-12-09       Impact factor: 5.911
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