Data access and caching | Load data sets | Load datasets based on rules | Non-unique gene symbols | Appendix | Available Clinical Characteristics | Summarizing the List of ExpressionSets | For non-R users | Session Info
Package: curatedCRCData 2.45.6
Levi Waldron
curatedCRCData: Colorectal Cancer Gene Expression Analysis
Manually curated human colorectal cancer ExpressionSet objects from 34 studies, with uniformly processed expression data and standardized clinical metadata including survival outcomes. Datasets are hosted on Zenodo and downloaded on first use, then cached locally with BiocFileCache. Includes a configurable script for rule-based creation of filtered dataset lists for meta-analysis.
Authors:
curatedCRCData_2.45.6.tar.gz
curatedCRCData_2.45.6.tar.gz(r-4.7-any)curatedCRCData_2.45.6.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
curatedCRCData/json (API)
| # Install 'curatedCRCData' in R: |
| install.packages('curatedCRCData', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/waldronlab/curatedcrcdata/issues
Datasets:
- GSE11237_eset - Celecoxib pre-treatment in human colorectal adenocarcinoma patients is associated with gene expression alterations suggestive of diminished cellular proliferation.
- GSE12225.GPL3676_eset - Integrating chromosomal aberrations and gene expression profiles to dissect rectal tumorigenesis.
- GSE12945_eset - An expression module of WIPF1-coexpressed genes identifies patients with favorable prognosis in three tumor types.
- GSE13067_eset - DNA copy-number alterations underlie gene expression differences between microsatellite stable and unstable colorectal cancers.
- GSE13294_eset - DNA copy-number alterations underlie gene expression differences between microsatellite stable and unstable colorectal cancers.
- GSE14095_eset - Gene expression signature and response to the use of leucovorin, fluorouracil and oxaliplatin in colorectal cancer patients.
- GSE14333_eset - Metastasis-Associated Gene Expression Changes Predict Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.
- GSE16125.GPL5175_eset - Integrative approach for prioritizing cancer genes in sporadic colon cancer.
- GSE17536_eset - Experimentally derived metastasis gene expression profile predicts recurrence and death in patients with colon cancer.
- GSE17537_eset - Experimentally derived metastasis gene expression profile predicts recurrence and death in patients with colon cancer.
- GSE17538.GPL570_eset - Experimentally derived metastasis gene expression profile predicts recurrence and death in patients with colon cancer.
- GSE18105_eset - MUC12 mRNA expression is an independent marker of prognosis in stage II and stage III colorectal cancer.
- GSE2109_eset - Expression Project for Oncology
- GSE21510_eset - Clinical significance of osteoprotegerin expression in human colorectal cancer.
- GSE21815_eset - Long noncoding RNA HOTAIR regulates polycomb-dependent chromatin modification and is associated with poor prognosis in colorectal cancers.
- GSE24549.GPL5175_eset - Transcriptome instability in colorectal cancer identified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.
- GSE24550.GPL5175_eset - Transcriptome instability in colorectal cancer identified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.
- GSE2630_eset - A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes' B colon cancer patients.
- GSE26682.GPL570_eset - MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase inhibition in microsatellite unstable colorectal cancers.
- GSE26682.GPL96_eset - MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase inhibition in microsatellite unstable colorectal cancers.
- GSE26906_eset - Expression Profiles in Stage II Colon Cancer According to APC Gene Status.
- GSE27544_eset - Genome-wide profiling characterizes CRCs with genetic instability and specific routes to HLA class I loss and immunoescape
- GSE28702_eset - Potential responders to FOLFOX therapy for colorectal cancer by Random Forests analysis.
- GSE3294_eset - Comparative study of gene expression by cDNA microarray in human colorectal cancer tissues and normal mucosa.
- GSE33113_eset - Mutations in the Ras-Raf Axis underlie the prognostic value of CD133 in colorectal cancer.
- GSE39582_eset - Gene expression classification of colon cancer into molecular subtypes: characterization, validation, and prognostic value.
- GSE3964_eset - Deciphering cellular states of innate tumor drug responses.
- GSE4045_eset - Serrated carcinomas form a subclass of colorectal cancer with distinct molecular basis.
- GSE4526_eset - Gene expression signature for recurrence in stage III colorectal cancers.
- GSE45270_eset - AMC tubular and serrated adenomas
- TCGA.COAD_eset - Comprehensive molecular characterization of human colon and rectal cancer.
- TCGA.READ_eset - Comprehensive molecular characterization of human colon and rectal cancer.
- TCGA.RNASeqV2_eset - Comprehensive molecular characterization of human colon and rectal cancer.
- TCGA.RNASeqV2.READ_eset - Comprehensive molecular characterization of human colon and rectal cancer.
On BioConductor:curatedCRCData-2.45.6(data/experiment 3.24)curatedCRCData-2.44.0(data/experiment 3.23)
experimentdataexpressiondatacancerdatacoloncancerdatamicroarraydatarnaseqdatageobioconductor-packageu24ca289073datapkg
Last updated from:b01815bb50. Checks:3 NOTE, 1 OK. Indexed: yes.
This is a data package. Data packages may be large and do not get checked across all platforms.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | -3461 | ||
| linux-devel | NOTE | -3370 | ||
| source / vignettes | OK | 423 | ||
| linux-release | NOTE | -3374 |
Exports:curatedCRCData
Dependencies:askpassBiobaseBiocFileCacheBiocGenericsbitbit64blobcachemclicpp11curlDBIdbplyrdigestdplyrfastmapfilelockgenericsgluehttr2lifecyclemagrittrmemoiseopensslpillarpkgconfigpurrrR6rlangRSQLitestringistringrsystibbletidyrtidyselectutf8vctrswithr
