CopyNumber450kCancer statistics

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CopyNumber450kCancer specifications

Information


Unique identifier OMICS_10535
Name CopyNumber450kCancer
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
Version 1.0.4
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Nour-al-dain Marzouka <>

Publication for CopyNumber450kCancer

CopyNumber450kCancer in publications

 (2)
PMCID: 5829240
PMID: 29487377
DOI: 10.1038/s41598-018-22126-x

[…] from broad institute of mit and harvard. only tumor samples (n = 405 samples) were kept, and 400 samples of the cohort had gex data. an automatic baseline estimation step was performed using copynumber450kcancer r package. briefly, in each sample, the highest peak in the density function of the segments was selected to be the baseline in that sample. then the copy number plots […]

PMCID: 5557398
PMID: 28806978
DOI: 10.1186/s13045-017-0515-y

[…] as the reference. a minimal cut-off value of 0.2 was applied for the mean absolute difference in dna methylation (∆β) to highlight cpg sites with large differences between groups. the r package “copynumber450kcancer” was used to detect copy number alterations with the 450 k data []., data from previously performed mutational analysis was available for 75 of the patients included […]


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CopyNumber450kCancer institution(s)
Department of Medical Sciences, Molecular Medicine and Science for Life Laboratory, Uppsala University, Sweden
CopyNumber450kCancer funding source(s)
The Swedish Cancer Society [CAN2010/592]; the Swedish Research Council for Science and Technology [90559401]; the Swedish Foundation for Strategic Research [RBc08-008]

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