OncodriveCLUST statistics

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OncodriveCLUST specifications

Information


Unique identifier OMICS_05152
Name OncodriveCLUST
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
Computer skills Advanced
Version 0.4.1
Stability Stable
Maintained Yes

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Maintainers


  • person_outline David Tamborero <>
  • person_outline Núria López-Bigas <>

Publications for OncodriveCLUST

OncodriveCLUST in publications

 (21)
PMCID: 5885375
PMID: 29618362
DOI: 10.1186/s12920-018-0355-9

[…] had previously been observed as ntd mouse candidate genes producing an abnormal phenotype when inactivated.fig. 1, in order to uncover the driver genes in the wnt/pcp pathway responsible for ntds, oncodriveclust [] was used to examine those genes with significant positional clustering of mutations. it is a useful method to identify driver genes, whose biased mutations are clustered within […]

PMCID: 5823670
PMID: 29507673
DOI: 10.18632/oncotarget.24138

[…] cancer aetiology in the affected patients., an extension of the previous approach is the consideration of spatial clusters instead of individual positions as a proxy for functional hot-spots. oncodriveclust [] is a method to identify grouping of mutations positively selected during clonal evolution of tumours. one main strength of the method is that a homogeneous baseline mutation […]

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

[…] driver genes, such as activedriver [], dendrix [], mdpfinder [], simon [], netbox [], oncodrivefm [], mutsigcv [], memo [], comdp [], dawnrank [], drivernet [], e-driver [], ipac [], msea [], and oncodriveclust []., we applied driverdb [] to obtain results from all these algorithms and the cancer datasets considered by our computation approach., in silico validation analysis using our cancer […]

PMCID: 5640938
PMID: 29046615
DOI: 10.1186/s12935-017-0458-y

[…] of glioma is still not completely known. this study was implemented to characterize driver genes in glioma independently of somatic mutation frequencies., driver genes and pathways were predicted by oncodriveclust, oncodrivefm, icages, drgap and dendrix in glioma using 31,958 somatic mutations from tcga, followed by an integrative characterization of driver genes., overall, 685 driver genes […]

PMCID: 5640613
PMID: 29030609
DOI: 10.1038/s41598-017-12888-1

[…] 2 , to assess the performance of cdriver, we benchmarked against four frequently used driver gene identification methods using precision, recall, and f-score (online methods). cdriver, oncodrivefm, oncodriveclust, music, and mutsigcv were run on three public cancer datasets. these datasets consisted of 762 cases of breast cancer (brca), 385 cases of chronic lymphocytic leukemia (cll), and 3,205 […]


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OncodriveCLUST institution(s)
Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology (BIST), Barcelona, Spain; Research Program on Biomedical Informatics, Universitat Pompeu Fabra, Barcelona, Spain; Institució Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, Spain
OncodriveCLUST funding source(s)
Supported by funding from the Spanish Ministry of Economy and Competitiveness [SAF2015-66084-R, MINECO/FEDER, UE], the European Research Council [Consolidator Grant 68239], the Spanish Ministry of Economy and Competitiveness (MINECO; Government of Spain), the CERCA (Generalitat de Catalunya), a Ramón y Cajal contract from the Spanish Ministry of Economy and Competitiveness [RYC-2013-1455], and “La Caixa” Foundation [B004697].

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