Literature DB >> 32976776

Next-Generation Analytics for Omics Data.

Jun Li1, Hu Chen2, Yumeng Wang2, Mei-Ju May Chen1, Han Liang3.   

Abstract

The increasing omics data present a daunting informatics challenge. DrBioRight, a natural language-oriented and artificial intelligence-driven analytics platform, enables the broad research community to perform analysis in an intuitive, efficient, transparent, and collaborative way. The emerging next-generation analytics will maximize the utility of omics data and lead to a new paradigm for biomedical research.
Copyright © 2020 Elsevier Inc. All rights reserved.

Mesh：

Year:  2020        PMID： 32976776      PMCID： PMC8336660          DOI： 10.1016/j.ccell.2020.09.002

Source DB:  PubMed          Journal:  Cancer Cell        ISSN： 1535-6108            Impact factor:   31.743


  11 in total

1.  The Bioperl toolkit: Perl modules for the life sciences.

Authors:  Jason E Stajich; David Block; Kris Boulez; Steven E Brenner; Stephen A Chervitz; Chris Dagdigian; Georg Fuellen; James G R Gilbert; Ian Korf; Hilmar Lapp; Heikki Lehväslaiho; Chad Matsalla; Chris J Mungall; Brian I Osborne; Matthew R Pocock; Peter Schattner; Martin Senger; Lincoln D Stein; Elia Stupka; Mark D Wilkinson; Ewan Birney
Journal:  Genome Res       Date:  2002-10       Impact factor: 9.043

2.  Galaxy: a platform for interactive large-scale genome analysis.

Authors:  Belinda Giardine; Cathy Riemer; Ross C Hardison; Richard Burhans; Laura Elnitski; Prachi Shah; Yi Zhang; Daniel Blankenberg; Istvan Albert; James Taylor; Webb Miller; W James Kent; Anton Nekrutenko
Journal:  Genome Res       Date:  2005-09-16       Impact factor: 9.043

3.  GenePattern 2.0.

Authors:  Michael Reich; Ted Liefeld; Joshua Gould; Jim Lerner; Pablo Tamayo; Jill P Mesirov
Journal:  Nat Genet       Date:  2006-05       Impact factor: 38.330

4.  The Cancer Genome Atlas: Creating Lasting Value beyond Its Data.

Authors:  Carolyn Hutter; Jean Claude Zenklusen
Journal:  Cell       Date:  2018-04-05       Impact factor: 41.582

5.  Next-generation characterization of the Cancer Cell Line Encyclopedia.

Authors:  Mahmoud Ghandi; Franklin W Huang; Judit Jané-Valbuena; Gregory V Kryukov; Christopher C Lo; E Robert McDonald; Jordi Barretina; Ellen T Gelfand; Craig M Bielski; Haoxin Li; Kevin Hu; Alexander Y Andreev-Drakhlin; Jaegil Kim; Julian M Hess; Brian J Haas; François Aguet; Barbara A Weir; Michael V Rothberg; Brenton R Paolella; Michael S Lawrence; Rehan Akbani; Yiling Lu; Hong L Tiv; Prafulla C Gokhale; Antoine de Weck; Ali Amin Mansour; Coyin Oh; Juliann Shih; Kevin Hadi; Yanay Rosen; Jonathan Bistline; Kavitha Venkatesan; Anupama Reddy; Dmitriy Sonkin; Manway Liu; Joseph Lehar; Joshua M Korn; Dale A Porter; Michael D Jones; Javad Golji; Giordano Caponigro; Jordan E Taylor; Caitlin M Dunning; Amanda L Creech; Allison C Warren; James M McFarland; Mahdi Zamanighomi; Audrey Kauffmann; Nicolas Stransky; Marcin Imielinski; Yosef E Maruvka; Andrew D Cherniack; Aviad Tsherniak; Francisca Vazquez; Jacob D Jaffe; Andrew A Lane; David M Weinstock; Cory M Johannessen; Michael P Morrissey; Frank Stegmeier; Robert Schlegel; William C Hahn; Gad Getz; Gordon B Mills; Jesse S Boehm; Todd R Golub; Levi A Garraway; William R Sellers
Journal:  Nature       Date:  2019-05-08       Impact factor: 49.962

6.  The Genotype-Tissue Expression (GTEx) project.

Authors: 
Journal:  Nat Genet       Date:  2013-06       Impact factor: 38.330

7.  Bioconductor: open software development for computational biology and bioinformatics.

Authors:  Robert C Gentleman; Vincent J Carey; Douglas M Bates; Ben Bolstad; Marcel Dettling; Sandrine Dudoit; Byron Ellis; Laurent Gautier; Yongchao Ge; Jeff Gentry; Kurt Hornik; Torsten Hothorn; Wolfgang Huber; Stefano Iacus; Rafael Irizarry; Friedrich Leisch; Cheng Li; Martin Maechler; Anthony J Rossini; Gunther Sawitzki; Colin Smith; Gordon Smyth; Luke Tierney; Jean Y H Yang; Jianhua Zhang
Journal:  Genome Biol       Date:  2004-09-15       Impact factor: 13.583

8.  Pan-cancer analysis of whole genomes.

Authors: 
Journal:  Nature       Date:  2020-02-05       Impact factor: 49.962

9.  An integrated encyclopedia of DNA elements in the human genome.

Authors: 
Journal:  Nature       Date:  2012-09-06       Impact factor: 49.962

10.  Landscape of somatic mutations in 560 breast cancer whole-genome sequences.

Authors:  Serena Nik-Zainal; Helen Davies; Johan Staaf; Manasa Ramakrishna; Dominik Glodzik; Xueqing Zou; Inigo Martincorena; Ludmil B Alexandrov; Sancha Martin; David C Wedge; Peter Van Loo; Young Seok Ju; Marcel Smid; Arie B Brinkman; Sandro Morganella; Miriam R Aure; Ole Christian Lingjærde; Anita Langerød; Markus Ringnér; Sung-Min Ahn; Sandrine Boyault; Jane E Brock; Annegien Broeks; Adam Butler; Christine Desmedt; Luc Dirix; Serge Dronov; Aquila Fatima; John A Foekens; Moritz Gerstung; Gerrit K J Hooijer; Se Jin Jang; David R Jones; Hyung-Yong Kim; Tari A King; Savitri Krishnamurthy; Hee Jin Lee; Jeong-Yeon Lee; Yilong Li; Stuart McLaren; Andrew Menzies; Ville Mustonen; Sarah O'Meara; Iris Pauporté; Xavier Pivot; Colin A Purdie; Keiran Raine; Kamna Ramakrishnan; F Germán Rodríguez-González; Gilles Romieu; Anieta M Sieuwerts; Peter T Simpson; Rebecca Shepherd; Lucy Stebbings; Olafur A Stefansson; Jon Teague; Stefania Tommasi; Isabelle Treilleux; Gert G Van den Eynden; Peter Vermeulen; Anne Vincent-Salomon; Lucy Yates; Carlos Caldas; Laura van't Veer; Andrew Tutt; Stian Knappskog; Benita Kiat Tee Tan; Jos Jonkers; Åke Borg; Naoto T Ueno; Christos Sotiriou; Alain Viari; P Andrew Futreal; Peter J Campbell; Paul N Span; Steven Van Laere; Sunil R Lakhani; Jorunn E Eyfjord; Alastair M Thompson; Ewan Birney; Hendrik G Stunnenberg; Marc J van de Vijver; John W M Martens; Anne-Lise Børresen-Dale; Andrea L Richardson; Gu Kong; Gilles Thomas; Michael R Stratton
Journal:  Nature       Date:  2016-05-02       Impact factor: 49.962
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  2 in total

1.  No-boundary thinking: a viable solution to ethical data-driven AI in precision medicine.

Authors:  Tayo Obafemi-Ajayi; Andy Perkins; Bindu Nanduri; Donald C Wunsch Ii; James A Foster; Joan Peckham
Journal:  AI Ethics       Date:  2021-11-29

2.  Identification of FEZ2 as a potential oncogene in pancreatic ductal adenocarcinoma.

Authors:  Chaozhi Yang; Xuebing Wang; Chenjie Qiu; Ziruo Zheng; Kai Lin; Min Tu; Kai Zhang; Kuirong Jiang; Wentao Gao
Journal:  PeerJ       Date:  2022-01-05       Impact factor: 2.984
  2 in total

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