Download matched miRNA and mRNA expression profiles from TCGA using TCGA Assembler. In order to this function to work, users need to download the
the file "DirectoryTraverseResult_Jul-08-2014.rda" from nugget.unisa.edu.au/Thuc/miRLAB/ and place it in the working directory
Usage
getData(CancerName)
Arguments
CancerName
The name of cancer using abbreviation of cancer name as one of the followings:
Adrenocortical carcinoma: ACC
Bladder urothelial carcinoma: BLCA
Breast invasive carcinoma: BRCA
Cervical squamous cell carcinoma and endocervical adenocarcinoma: CESC
Colon adenocarcinoma: COAD
Lymphoid neoplasm diffuse large B-cell lymphoma: DLBC
Esophageal carcinoma: ESCA
Glioblastoma multiforme: GBM
Head and neck squamous cell carcinoma: HNSC
Kidney chromophobe: KICH
Kidney renal clear cell carcinoma: KIRC
Kidney renal papillary cell carcinoma: KIRP
Acute myeloid leukemia: LAML
Brain lower grade glioma: LGG
Liver hepatocellular carcinoma: LIHC
Lung adenocarcinoma: LUAD
Lung squamous cell carcinoma: LUSC
Ovarian serous cystadenocarcinoma: OV
Pancreatic adenocarcinoma: PAAD
Prostate adenocarcinoma: PRAD
Rectum adenocarcinoma: READ
Sarcoma: SARC
Skin cutaneous melanoma: SKCM
Stomach adenocarcinoma: STAD
Thyroid carcinoma: THCA
Uterine corpus endometrial carcinoma: UCEC
Uterine carcinosarcoma: UCS
Value
Dataset of matched miRNA and mRNA expression profiles
References
Zhu, Y., Qiu, P., and Ji, Y. (2014). TCGA-Assembler: open-source software for retrieving and processing TCGA data. Nat. Methods, 11, 599-600.