Multiomic Integration of Public Oncology Databases in Bioconductor - Concepedia

Concepedia

Publication | Open Access

Multiomic Integration of Public Oncology Databases in Bioconductor

DOI Full Paper Access

95

Citations

18

References

2020

Year

Marcel Ramos, Ludwig Geistlinger, Sehyun Oh, Lucas Schiffer, Rimsha Azhar, Hanish Kodali, Ino de Bruijn, Jianjiong Gao, Vincent J. Carey, Martin Morgan,

JCO Clinical Cancer Informatics

Abstract

These integrated representations enable analysts and tool developers to apply general statistical and plotting methods to extensive multiomic data through user-friendly commands and documented examples.

References

	Year	Citations
limma powers differential expression analyses for RNA-sequencing and microarray studies Matthew E. Ritchie, Belinda Phipson, Di Wu, Nucleic Acids Research GeneticsMolecular BiologyTranscriptomics TechnologyLimma PackageGenomics	2015	40.9K
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome Bo Li, Colin N. Dewey BMC Bioinformatics	2011	22.5K
The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data Ethan Cerami, Jianjiong Gao, Uğur Doğrusöz, Cancer Discovery	2012	17.9K
Integrative Analysis of Complex Cancer Genomics and Clinical Profiles Using the cBioPortal Jianjiong Gao, Bülent Arman Aksoy, Uğur Doğrusöz, Science Signaling EngineeringPathologyIntegrative AnalysisCancer BiologyBioinformatics Database	2013	15.5K
R: A Language for Data Analysis and Graphics Ross Ihaka, Robert Gentleman Journal of Computational and Graphical Statistics EngineeringData ExplorationComputer ArchitectureInteractive VisualizationData Analysis	1996	10.3K
The Cancer Genome Atlas Pan-Cancer analysis project John N. Weinstein, Gordon B. Mills, Kenna Shaw, Nature Genetics	2013	9.1K
TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data Antonio Colaprico, Tiago C. Silva, Catharina Olsen, Nucleic Acids Research EngineeringDna MethylationPathologyBioinformatics DatabaseTumor Biology	2015	4.3K
Comprehensive Characterization of Cancer Driver Genes and Mutations Matthew H. Bailey, Collin Tokheim, Eduard Porta‐Pardo, Cell	2018	2.4K
Toward a Shared Vision for Cancer Genomic Data Robert L. Grossman, Allison P. Heath, Vincent Ferretti, New England Journal of Medicine	2016	1.7K
Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics Li Ding, Matthew H. Bailey, Eduard Porta‐Pardo, Cell	2018	425

Page 1