Multi-Dendrix statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Driver pathway detection chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

Multi-Dendrix specifications

Information


Unique identifier OMICS_06146
Name Multi-Dendrix
Alternative name Multiple Pathways De novo Driver Exclusivity
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


Add your version

Documentation


Publication for Multiple Pathways De novo Driver Exclusivity

Multi-Dendrix in publications

 (8)
PMCID: 5469877
PMID: 28659971
DOI: 10.3389/fgene.2017.00083

[…] set and the mutual exclusivity of mutations in the set, and uses a markov chain monte carlo (mcmc) approach for identifying mutually exclusive gene sets altered in a large fraction of the patients. multi-dendrix (leiserson et al., ) employs the same score as dendrix and extends it to multiple sets, and uses an integer linear program (ilp) based algorithm to simultaneously find multiple sets […]

PMCID: 5482642
PMID: 28415609
DOI: 10.18632/oncotarget.16433

[…] mcmc algorithm, the blp method is more efficient. a multi-objective optimization model based on a genetic algorithm (moga) was introduced to adjust the trade-off between coverage and exclusivity []. multi-dendrix [] designed a new metric as the sum of dendrix weights and adopted a new programming model to identify multiple modules simultaneously. comdp proposed an exact mathematical programming […]

PMCID: 5449640
PMID: 28168295
DOI: 10.1093/nar/gkx089

[…] among different biological pathways and functional modules may shed new lights on the understanding of the cellular mechanisms underlying carcinogenesis. leiserson et al. () generalized dendrix (multi-dendrix) to simultaneously identify multiple driver gene sets in cancer. more importantly, the collaboration among different pathways means these gene sets are likely simultaneously mutated […]

PMCID: 4575033
PMID: 26379039
DOI: 10.1371/journal.pcbi.1004350

[…] isoforms, variation in mutation types, different background mutation rates, redundancy of the genetic code and others and used a likelihood ratio test to obtain significance levels. moreover, multi-dendrix, drivernet, music, and memo [, , , –] were also developed to identify driver pathways using network-based approaches. an integrated meta-analysis using multiple methods can be accessed […]

PMCID: 4574474
PMID: 26375816
DOI: 10.1371/journal.pone.0138141

[…] these r s scores were grouped according to the crc subtype to determine the p-values, indicating whether a gene contributed significantly to the formation of a specific crc subtype., data input for multi-dendrix analysis was identical to the data input used for nbs analysis, except for genes that shared the same breakpoints, which were now grouped in “pools” (). multi-dendrix parameters […]


To access a full list of publications, you will need to upgrade to our premium service.

Multi-Dendrix institution(s)
Department of Computer Science and Center for Computational Molecular Biology, Brown University, Providence, RI, USA

Multi-Dendrix reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Multi-Dendrix