OncoPrinter statistics

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OncoPrinter specifications


Unique identifier OMICS_19508
Name OncoPrinter
Interface Web user interface
Restrictions to use None
Input data Genomic alteration events, Mutation Data file.
Input format TSV
Computer skills Basic
Version 1.0.1
Stability Stable
Maintained No


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Publications for OncoPrinter

OncoPrinter in publications

PMCID: 5788352
PMID: 29377909
DOI: 10.1371/journal.pone.0191701

[…] level and q-value threshold 0.25. focal amplification or deletion for all the 14 genes sequenced was determined only using the gistic copy number value 2 or -2 respectively as the true value. oncoprinter and mutationmapper tools were used for visualization of mutational data [, ]. integrative cluster analysis of mutation and copy number data was performed using the r package iclusterplus […]

PMCID: 5814263
PMID: 29487696
DOI: 10.18632/oncotarget.23541

[…] limit analyses to probable disease associated variants that impact function. variants that occurred in more than 50% of patients were excluded as likely artefacts. the cbioportal for cancer genomics oncoprinter was used to generate oncoprints of key pathway variants [, ]., a neutral evolution model was applied to variant data as detailed previously []. briefly, the total snvs detected within […]

PMCID: 5513919
PMID: 28769798
DOI: 10.3389/fphar.2017.00465

[…] database (dgidb), a web resource that consolidates information describing drug-gene interactions and gene druggability was used to identify potentially actionable variants (). mutation mapper and oncoprinter tools were used to create the lollipop plot and oncoprint diagram, respectively (; )., single nucleotide variations and indels were defined based on the following three conditions: (1) […]

PMCID: 5666318
PMID: 28692054
DOI: 10.1038/onc.2017.215

[…] and small indels in the ep400 and trrap subunits of the tip60 complex and in baf complex subunits. duplicates and samples missing mutation annotation were excluded. data were visualized using oncoprinter version 1.0.1. mutual exclusivity was tested using χ2-test., we thank the group of hiroyuki marusawa, kyoto university, japan, for providing cells from hupki-activation-induced cytidine […]

PMCID: 5739750
PMID: 29290965
DOI: 10.18632/oncotarget.18984

[…] pi3k/akt/mtor pathway in a panel of 52 sclc cell lines. the analysis included mutations and copy number changes, as well as mrna expression levels of key molecules of the pi3k/akt/mtor pathway. the oncoprinter plot indicated that 92% of sclc cell lines (48/52) harbor point mutations, copy number changes and abnormal gene expression in the key genes of pi3k/akt/mtor pathway (figure ). […]

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OncoPrinter institution(s)
Computational Biology Center, Memorial Sloan-Kettering Cancer Center, New York, NY, USA; Tri-Institutional Training Program in Computational Biology and Medicine, New York, NY, USA; Computer Engineering Department, Bilkent University, Ankara, Turkey
OncoPrinter funding source(s)
Supported by the National Cancer Institute (NCI) as part of the TCGA Genome Data Analysis Center grant, NCI-U24CA143840, and NCI-R21CA135870, a Stand Up To Cancer Dream Team Translational Research Grant, a Program of the Entertainment Industry Foundation (SU2C-AACR-DT0209), the National Resource for Network Biology (NIH National Center for Research Resources grant numbers P41 RR031228 and GM103504) and the NIH NCI R01 CA132744.

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