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Associated diseases

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ActiveDriver specifications

Information


Unique identifier OMICS_00140
Name ActiveDriver
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Jüri Reimand <>

Publications for ActiveDriver

ActiveDriver in publications

 (12)
PMCID: 5866917
PMID: 29572294
DOI: 10.15252/msb.20177974

[…] on protein interfaces and assessed whether cancer mutations occurred at a much higher rate within the interaction interfaces than in the rest of the sequence (see ). for the latter, we adapted the activedriver tool (reimand & bader, ), which was initially developed to assess mutation rates in phosphosites by implementing a logistic regression model., proteins in which the mutation clusters […]

PMCID: 5756345
PMID: 29304754
DOI: 10.1186/s12864-017-4423-x

[…] with (eq. 1) for each cancer type., to verify our method, we compared our results and those obtained by other well-validated computational methods used to identify cancer driver genes, such as activedriver [], dendrix [], mdpfinder [], simon [], netbox [], oncodrivefm [], mutsigcv [], memo [], comdp [], dawnrank [], drivernet [], e-driver [], ipac [], msea [], and oncodriveclust []., […]

PMCID: 5415494
PMID: 28492066
DOI: 10.1016/j.heliyon.2017.e00277

[…] a higher consensus could result in fewer than 20 driver genes for some cancers. driverdb assembles together lists of the top ranked driver genes determined from the use of 15 packages, including activedriver, dendrix, mdpfinder, simon, netbox, oncodrivefm, mutsigcv, memo, comdp, dawnrank, drivernet, e-driver, ipac, msea, and oncodriveclust. lists the cancer types, sample size, […]

PMCID: 5180091
PMID: 28008934
DOI: 10.1038/srep38988

[…] shown to aid in driver gene detection; however, this was typically done using a small set of select features. for example, mutsigcv uses dna replication timing and cell line expression levels, activedriver uses phosphorylation site knowledge, and hotnet2 uses protein network knowledge. one exception, maxdriver, uses a larger set of features, although only to detect copy number-based […]

PMCID: 4947162
PMID: 27417679
DOI: 10.1038/ncomms12096

[…] designed with the goal of identifying cancer genes and were recently used in publications of the cancer genome atlas (see http://www.nature.com/tcga/): mutsig suite, oncodrivefm, oncodriveclust, activedriver and music. each of these approaches has been previously applied to analyse tumour exome data for 12 or more separate tissues and for a pooled ‘pancancer' cohort, which combines […]


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ActiveDriver institution(s)
The Donnelly Centre, University of Toronto, Toronto, Canada

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