WebNov 8, 2024 · Results. Significantly elevated transcriptional and proteomic AQP9 expressions were found in ccRCC samples. Increased AQP9 mRNA expression was significantly associated with advanced clinicopathological parameters and correlated with shorter PFS and OS in TCGA and FUSCC cohorts (p < 0.001).ROC curves suggested … WebUCSCXenaTools . UCSCXenaTools is an R package for accessing genomics data from UCSC Xena platform, from cancer multi-omics to single-cell RNA-seq. Public omics data from UCSC Xena are supported through multiple turn-key Xena Hubs, which are a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and …

Download TCGA data with readable options - GitHub Pages

WebAug 25, 2024 · Download data. First we get information on all datasets in the TCGA LUAD cohort and store as luad_cohort object.. suppressMessages(library(UCSCXenaTools)) … Webxe = XenaGenerate (subset = XenaHostNames == "tcgaHub"); cohorts (xe) Get datasets of XenaHub object Description. Get datasets of XenaHub object Usage datasets (x) Arguments. x: a XenaHub object. Value. a character vector contains datasets Examples the htl group

Unveiling DNA damage repair-based molecular subtypes, tumor ...

WebHi, Indexed (Vital_status_indexed) should be the same is the the latest follow up information, in case there is no follow up the initial vital status is used (Vital_status_patient)The only concern there is the 3rd row (dead, alive, alive) with 4 samples. A patient can have multiple follow ups visits, is the alive matching the latest one ? Otherwise, we would need to … WebJun 20, 2024 · availTCGA: Get or Check TCGA Available ProjectID, DataType and FileType cohorts: Get cohorts of XenaHub object datasets: Get datasets of XenaHub object downloadTCGA: Easily Download TCGA Data by Several Options fetch: Fetch Data from UCSC Xena Hosts getTCGAdata: Get TCGA Common Data Sets by Project ID and … WebValue. a XenaHub object . Author(s) Shixiang Wang [email protected]. Examples ## Not run: #1 query all hosts, cohorts and datasets xe = XenaHub() xe #2 query only TCGA hosts xe = XenaHub(hostName = "tcgaHub") xe hosts(xe) # get hosts cohorts(xe) # get cohorts datasets(xe) # get datasets samples(xe) # get samples ## End(Not run) the htirteenth warrior budget