miRExp: miRNA expression data
In zhangjunpeng411/miRSM: Inferring miRNA sponge modules in heterogeneous data
miRExp R Documentation
miRNA expression data
Description
miRNA expression data
Format
miRExp: A SummarizedExperiment object with 72 BRCA and 72 normal
samples (rows) and 226 miRNAs (columns).
Details
The matched breast invasive carcinoma (BRCA) miRNA, lncRNA
and mRNA expression data is obtained from TCGA
(http://cancergenome.nih.gov/). The data focuses on
72 individuals for which the complete sets of
tumor and matched normal (i.e., normal tissue taken from the
same patient) profiles are available.
A miRNA which has missing values in more than
10
are imputed using the k-nearest neighbours (KNN) algorithm
from the impute R package. We use the limma R package
to infer differentially expressed miRNAs, ceRNAs and mRNAs
between tumour and normal samples. After the analysis,
we select top 226 miRNAs which are differentially expressed
at a significant level (adjusted p-value < 1E-02,
adjusted by Benjamini & Hochberg method).
zhangjunpeng411/miRSM documentation built on Feb. 9, 2024, 6:14 p.m.
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| miRExp | R Documentation |
miRNA expression data
Description
miRNA expression data
Format
miRExp: A SummarizedExperiment object with 72 BRCA and 72 normal samples (rows) and 226 miRNAs (columns).
Details
The matched breast invasive carcinoma (BRCA) miRNA, lncRNA and mRNA expression data is obtained from TCGA (http://cancergenome.nih.gov/). The data focuses on 72 individuals for which the complete sets of tumor and matched normal (i.e., normal tissue taken from the same patient) profiles are available. A miRNA which has missing values in more than 10 are imputed using the k-nearest neighbours (KNN) algorithm from the impute R package. We use the limma R package to infer differentially expressed miRNAs, ceRNAs and mRNAs between tumour and normal samples. After the analysis, we select top 226 miRNAs which are differentially expressed at a significant level (adjusted p-value < 1E-02, adjusted by Benjamini & Hochberg method).
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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