TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data
نویسندگان
چکیده
منابع مشابه
TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data
The Cancer Genome Atlas (TCGA) research network has made public a large collection of clinical and molecular phenotypes of more than 10 000 tumor patients across 33 different tumor types. Using this cohort, TCGA has published over 20 marker papers detailing the genomic and epigenomic alterations associated with these tumor types. Although many important discoveries have been made by TCGA's rese...
متن کاملNetWeAvers: an R package for integrative biological network analysis with mass spectrometry data
SUMMARY The discovery of functionally related groups in a set of significantly abundant proteins from a mass spectrometry experiment is an important step in a proteomics analysis pipeline. Here we describe NetWeAvers (Network Weighted Averages) for analyzing groups of regulated proteins in a network context, e.g. as defined by clusters of protein-protein interactions. NetWeAvers is an R package...
متن کاملSpidermiR: An R/Bioconductor Package for Integrative Analysis with miRNA Data
Gene Regulatory Networks (GRNs) control many biological systems, but how such network coordination is shaped is still unknown. GRNs can be subdivided into basic connections that describe how the network members interact e.g., co-expression, physical interaction, co-localization, genetic influence, pathways, and shared protein domains. The important regulatory mechanisms of these networks involv...
متن کاملAn integrative software package for gastrointestinal biomagnetic data acquisition and analysis using SQUID magnetometers
The study of bioelectric and biomagnetic activity in the human gastrointestinal (GI) tract is of great interest in clinical research due to the proven possibility to detect pathological conditions thereof from electric and magnetic field recordings. The magnetogastrogram (MGG) and magnetoenterogram (MENG) can be recorded using superconducting quantum interference device (SQUID) magnetometers, w...
متن کاملIntegrative Pathway Analysis Using Graph-Based Learning with Applications to TCGA Colon and Ovarian Data
Recent method development has included multi-dimensional genomic data algorithms because such methods have more accurately predicted clinical phenotypes related to disease. This study is the first to conduct an integrative genomic pathway-based analysis with a graph-based learning algorithm. The methodology of this analysis, graph-based semi-supervised learning, detects pathways that improve pr...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2015
ISSN: 1362-4962,0305-1048
DOI: 10.1093/nar/gkv1507