Literature DB >> 28600341

The NCI Genomic Data Commons as an engine for precision medicine.

Mark A Jensen1, Vincent Ferretti2, Robert L Grossman3, Louis M Staudt4.   

Abstract

The National Cancer Institute Genomic Data Commons (GDC) is an information system for storing, analyzing, and sharing genomic and clinical data from patients with cancer. The recent high-throughput sequencing of cancer genomes and transcriptomes has produced a big data problem that precludes many cancer biologists and oncologists from gleaning knowledge from these data regarding the nature of malignant processes and the relationship between tumor genomic profiles and treatment response. The GDC aims to democratize access to cancer genomic data and to foster the sharing of these data to promote precision medicine approaches to the diagnosis and treatment of cancer.

Entities:  

Mesh:

Year:  2017        PMID: 28600341      PMCID: PMC5533202          DOI: 10.1182/blood-2017-03-735654

Source DB:  PubMed          Journal:  Blood        ISSN: 0006-4971            Impact factor:   22.113


  21 in total

1.  VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing.

Authors:  Daniel C Koboldt; Qunyuan Zhang; David E Larson; Dong Shen; Michael D McLellan; Ling Lin; Christopher A Miller; Elaine R Mardis; Li Ding; Richard K Wilson
Journal:  Genome Res       Date:  2012-02-02       Impact factor: 9.043

Review 2.  Lessons from the cancer genome.

Authors:  Levi A Garraway; Eric S Lander
Journal:  Cell       Date:  2013-03-28       Impact factor: 41.582

3.  Targeting B cell receptor signaling with ibrutinib in diffuse large B cell lymphoma.

Authors:  Wyndham H Wilson; Ryan M Young; Roland Schmitz; Yandan Yang; Stefania Pittaluga; George Wright; Chih-Jian Lih; P Mickey Williams; Arthur L Shaffer; John Gerecitano; Sven de Vos; Andre Goy; Vaishalee P Kenkre; Paul M Barr; Kristie A Blum; Andrei Shustov; Ranjana Advani; Nathan H Fowler; Julie M Vose; Rebecca L Elstrom; Thomas M Habermann; Jacqueline C Barrientos; Jesse McGreivy; Maria Fardis; Betty Y Chang; Fong Clow; Brian Munneke; Davina Moussa; Darrin M Beaupre; Louis M Staudt
Journal:  Nat Med       Date:  2015-07-20       Impact factor: 53.440

Review 4.  Childhood Acute Lymphoblastic Leukemia: Progress Through Collaboration.

Authors:  Ching-Hon Pui; Jun J Yang; Stephen P Hunger; Rob Pieters; Martin Schrappe; Andrea Biondi; Ajay Vora; André Baruchel; Lewis B Silverman; Kjeld Schmiegelow; Gabriele Escherich; Keizo Horibe; Yves C M Benoit; Shai Izraeli; Allen Eng Juh Yeoh; Der-Cherng Liang; James R Downing; William E Evans; Mary V Relling; Charles G Mullighan
Journal:  J Clin Oncol       Date:  2015-08-24       Impact factor: 44.544

5.  Genomic Profiling of Pediatric Acute Myeloid Leukemia Reveals a Changing Mutational Landscape from Disease Diagnosis to Relapse.

Authors:  Jason E Farrar; Heather L Schuback; Rhonda E Ries; Daniel Wai; Oliver A Hampton; Lisa R Trevino; Todd A Alonzo; Jaime M Guidry Auvil; Tanja M Davidsen; Patee Gesuwan; Leandro Hermida; Donna M Muzny; Ninad Dewal; Navin Rustagi; Lora R Lewis; Alan S Gamis; David A Wheeler; Malcolm A Smith; Daniela S Gerhard; Soheil Meshinchi
Journal:  Cancer Res       Date:  2016-03-03       Impact factor: 12.701

6.  Discovery and saturation analysis of cancer genes across 21 tumour types.

Authors:  Michael S Lawrence; Petar Stojanov; Craig H Mermel; James T Robinson; Levi A Garraway; Todd R Golub; Matthew Meyerson; Stacey B Gabriel; Eric S Lander; Gad Getz
Journal:  Nature       Date:  2014-01-05       Impact factor: 49.962

7.  Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection.

Authors:  Adam D Ewing; Kathleen E Houlahan; Yin Hu; Kyle Ellrott; Cristian Caloian; Takafumi N Yamaguchi; J Christopher Bare; Christine P'ng; Daryl Waggott; Veronica Y Sabelnykova; Michael R Kellen; Thea C Norman; David Haussler; Stephen H Friend; Gustavo Stolovitzky; Adam A Margolin; Joshua M Stuart; Paul C Boutros
Journal:  Nat Methods       Date:  2015-05-18       Impact factor: 28.547

8.  Mutations driving CLL and their evolution in progression and relapse.

Authors:  Dan A Landau; Eugen Tausch; Amaro N Taylor-Weiner; Chip Stewart; Johannes G Reiter; Jasmin Bahlo; Sandra Kluth; Ivana Bozic; Mike Lawrence; Sebastian Böttcher; Scott L Carter; Kristian Cibulskis; Daniel Mertens; Carrie L Sougnez; Mara Rosenberg; Julian M Hess; Jennifer Edelmann; Sabrina Kless; Michael Kneba; Matthias Ritgen; Anna Fink; Kirsten Fischer; Stacey Gabriel; Eric S Lander; Martin A Nowak; Hartmut Döhner; Michael Hallek; Donna Neuberg; Gad Getz; Stephan Stilgenbauer; Catherine J Wu
Journal:  Nature       Date:  2015-10-14       Impact factor: 49.962

9.  MuSE: accounting for tumor heterogeneity using a sample-specific error model improves sensitivity and specificity in mutation calling from sequencing data.

Authors:  Yu Fan; Liu Xi; Daniel S T Hughes; Jianjun Zhang; Jianhua Zhang; P Andrew Futreal; David A Wheeler; Wenyi Wang
Journal:  Genome Biol       Date:  2016-08-24       Impact factor: 13.583

10.  COSMIC: somatic cancer genetics at high-resolution.

Authors:  Simon A Forbes; David Beare; Harry Boutselakis; Sally Bamford; Nidhi Bindal; John Tate; Charlotte G Cole; Sari Ward; Elisabeth Dawson; Laura Ponting; Raymund Stefancsik; Bhavana Harsha; Chai Yin Kok; Mingming Jia; Harry Jubb; Zbyslaw Sondka; Sam Thompson; Tisham De; Peter J Campbell
Journal:  Nucleic Acids Res       Date:  2016-11-28       Impact factor: 16.971

View more
  87 in total

Review 1.  Online informatics resources to facilitate cancer target and chemical probe discovery.

Authors:  Xuan Yang; Haian Fu; Andrey A Ivanov
Journal:  RSC Med Chem       Date:  2020-04-09

2.  Whole slide images reflect DNA methylation patterns of human tumors.

Authors:  Hong Zheng; Alexandre Momeni; Pierre-Louis Cedoz; Hannes Vogel; Olivier Gevaert
Journal:  NPJ Genom Med       Date:  2020-03-10       Impact factor: 8.617

Review 3.  Surviving With Smog and Smoke: Precision Interventions?

Authors:  Hua Cai; Chen Wang
Journal:  Chest       Date:  2017-07-08       Impact factor: 9.410

4.  Making the right calls in precision oncology.

Authors:  Kathryn D Bungartz; Kristen Lalowski; Sheryl K Elkin
Journal:  Nat Biotechnol       Date:  2018-08-06       Impact factor: 54.908

5.  MiRNA-mRNA crosstalk in laryngeal squamous cell carcinoma based on the TCGA database.

Authors:  Guan-Jiang Huang; Meng-Si Luo; Guo-Ping Chen; Min-Yi Fu
Journal:  Eur Arch Otorhinolaryngol       Date:  2018-01-13       Impact factor: 2.503

6.  Cardioinformatics: the nexus of bioinformatics and precision cardiology.

Authors:  Bohdan B Khomtchouk; Diem-Trang Tran; Kasra A Vand; Matthew Might; Or Gozani; Themistocles L Assimes
Journal:  Brief Bioinform       Date:  2020-12-01       Impact factor: 11.622

7.  Feasibility of lung cancer RNA acquisition from a single transbronchial or transthoracic needle pass (FASTT trial).

Authors:  Travis Dotson; Christina Bellinger; Jing Su; Kris Hansen; Graham E Parks; James O Cappellari; Lou Craddock; Hollins Clark; Clifford Howard; W Jeffrey Petty; Bharat Prakash; Kounosuke Watabe; Michael Chan; Jonathan Hovda; Lance D Miller; Jimmy Ruiz
Journal:  Lung Cancer       Date:  2018-11-20       Impact factor: 5.705

8.  Genome-wide alterations of uracil distribution patterns in human DNA upon chemotherapeutic treatments.

Authors:  Hajnalka L Pálinkás; Angéla Békési; Gergely Róna; Lőrinc Pongor; Gábor Papp; Gergely Tihanyi; Eszter Holub; Ádám Póti; Carolina Gemma; Simak Ali; Michael J Morten; Eli Rothenberg; Michele Pagano; Dávid Szűts; Balázs Győrffy; Beáta G Vértessy
Journal:  Elife       Date:  2020-09-21       Impact factor: 8.140

9.  CellMiner Cross-Database (CellMinerCDB) version 1.2: Exploration of patient-derived cancer cell line pharmacogenomics.

Authors:  Augustin Luna; Fathi Elloumi; Sudhir Varma; Yanghsin Wang; Vinodh N Rajapakse; Mirit I Aladjem; Jacques Robert; Chris Sander; Yves Pommier; William C Reinhold
Journal:  Nucleic Acids Res       Date:  2021-01-08       Impact factor: 16.971

10.  An immune-related gene signature for predicting survival and immunotherapy efficacy in hepatocellular carcinoma.

Authors:  Yifei Dai; Weijie Qiang; Kequan Lin; Yu Gui; Xun Lan; Dong Wang
Journal:  Cancer Immunol Immunother       Date:  2020-10-21       Impact factor: 6.968

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.