rcellminer: exploring molecular profiles and drug response of the NCI-60 cell lines in R | Zendy

Augustin Luna | Zendy; Vinodh N. Rajapakse | Zendy; Fabrício G. Sousa | Zendy; Jianjiong Gao | Zendy; Nikolaus Schultz | Zendy; Sudhir Varma | Zendy; William C. Reinhold | Zendy; Chris Sander | Zendy; ﻿Yves Pommier | Zendy

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rcellminer: exploring molecular profiles and drug response of the NCI-60 cell lines in R

Author(s) -

Augustin Luna,

Vinodh N. Rajapakse,

Fabrício G. Sousa,

Jianjiong Gao,

Nikolaus Schultz,

Sudhir Varma,

William C. Reinhold,

Chris Sander,

Yves Pommier

Publication year - 2015

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btv701

Subject(s) - bioconductor , r package , computer science , profiling (computer programming) , documentation , computational biology , feature (linguistics) , biology , gene , operating system , programming language , genetics , linguistics , philosophy

The rcellminer R package provides a wide range of functionality to help R users access and explore molecular profiling and drug response data for the NCI-60. The package enables flexible programmatic access to CellMiner's unparalleled breadth of NCI-60 data, including gene and protein expression, copy number, whole exome mutations, as well as activity data for ∼21K compounds, with information on their structure, mechanism of action and repeat screens. Functions are available to easily visualize compound structures, activity patterns and molecular feature profiles. Additionally, embedded R Shiny applications allow interactive data exploration.

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