Introduction | Load TCGA data | Load datasets based on rules | Cleaning of duplicate samples | Association of CXCL12 expression with overall survival | Batch correction with ComBat | Non-specific probe sets | FULLVcuratedOvarianData | Available Clinical Characteristics | Summarizing the List of ExpressionSets | For non-R users | Session Info | References
Package: curatedOvarianData 1.50.0
Levi Waldron
curatedOvarianData: Clinically Annotated Data for the Ovarian Cancer Transcriptome
The curatedOvarianData package provides data for gene expression analysis in patients with ovarian cancer.
Authors:
curatedOvarianData_1.50.0.tar.gz
curatedOvarianData_1.50.0.tar.gz(r-4.7-any)curatedOvarianData_1.50.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
curatedOvarianData/json (API)
| # Install 'curatedOvarianData' in R: |
| install.packages('curatedOvarianData', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- E.MTAB.386_eset - Angiogenic mRNA and microRNA gene expression signature predicts a novel subtype of serous ovarian cancer.
- GSE12418_eset - Expression analysis of stage III serous ovarian adenocarcinoma distinguishes a sub-group of survivors.
- GSE12470_eset - Gene expression profiling of advanced-stage serous ovarian cancers distinguishes novel subclasses and implicates ZEB2 in tumor progression and prognosis.
- GSE13876_eset - Survival-related profile, pathways, and transcription factors in ovarian cancer.
- GSE14764_eset - A prognostic gene expression index in ovarian cancer - validation across different independent data sets.
- GSE17260_eset - Gene expression profile for predicting survival in advanced-stage serous ovarian cancer across two independent datasets.
- GSE18520_eset - A gene signature predictive for outcome in advanced ovarian cancer identifies a survival factor: microfibril-associated glycoprotein 2.
- GSE19829.GPL570_eset - Gene expression profile of BRCAness that correlates with responsiveness to chemotherapy and with outcome in patients with epithelial ovarian cancer.
- GSE19829.GPL8300_eset - Gene expression profile of BRCAness that correlates with responsiveness to chemotherapy and with outcome in patients with epithelial ovarian cancer.
- GSE20565_eset - A genomic and transcriptomic approach for a differential diagnosis between primary and secondary ovarian carcinomas in patients with a previous history of breast cancer.
- GSE2109_eset - IGC EXpression Project for Oncology
- GSE26193_eset - MiR-141 and miR-200a act on ovarian tumorigenesis by controlling oxidative stress response.
- GSE26712_eset - A gene signature predicting for survival in suboptimally debulked patients with ovarian cancer.
- GSE30009_eset - Multidrug resistance-linked gene signature predicts overall survival of patients with primary ovarian serous carcinoma.
- GSE30161_eset - Multi-gene expression predictors of single drug responses to adjuvant chemotherapy in ovarian carcinoma: predicting platinum resistance.
- GSE32062.GPL6480_eset - High-risk ovarian cancer based on 126-gene expression signature is uniquely characterized by downregulation of antigen presentation pathway.
- GSE32063_eset - High-risk ovarian cancer based on 126-gene expression signature is uniquely characterized by downregulation of antigen presentation pathway.
- GSE44104_eset - COL11A1 promotes tumor progression and predicts poor clinical outcome in ovarian cancer.
- GSE49997_eset - Validating the impact of a molecular subtype in ovarian cancer on outcomes: a study of the OVCAD Consortium.
- GSE51088_eset - POSTN/TGFBI-associated stromal signature predicts poor prognosis in serous epithelial ovarian cancer.
- GSE6008_eset - Lysophosphatidic acid-induced transcriptional profile represents serous epithelial ovarian carcinoma and worsened prognosis.
- GSE6822_eset - Classification of ovarian tumor samples
- GSE8842_eset - Analysis of gene expression in early-stage ovarian cancer.
- GSE9891_eset - Novel molecular subtypes of serous and endometrioid ovarian cancer linked to clinical outcome.
- PMID15897565_eset - Patterns of gene expression that characterize long-term survival in advanced stage serous ovarian cancers.
- PMID17290060_eset - An integrated genomic-based approach to individualized treatment of patients with advanced-stage ovarian cancer.
- PMID19318476_eset - Microarray analysis of early stage serous ovarian cancers shows profiles predictive of favorable outcome.
- TCGA_eset - Integrated genomic analyses of ovarian carcinoma.
- TCGA.mirna.8x15kv2_eset - Integrated genomic analyses of ovarian carcinoma.
- TCGA.RNASeqV2_eset - Integrated genomic analyses of ovarian carcinoma.
On BioConductor:curatedOvarianData-1.51.5(data/experiment 3.24)curatedOvarianData-1.50.0(data/experiment 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
experimentdatarnaseqdatacancerdataovariancancerdatamicroarraydatadatapkg
Last updated from:9e6c447123 (on RELEASE_3_23). Checks:1 ERROR, 3 OK. Indexed: no.
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 | ERROR | 148 | ||
| linux-devel | OK | 280 | ||
| source / vignettes | OK | 738 | ||
| linux-release | OK | 261 |
Exports:
Dependencies:BiobaseBiocGenericsgenerics
