UUO_data: UUO_data

In TimiRGeN: Time sensitive microRNA-mRNA integration, analysis and network generation tool

Description

An alternative mouse kidney fibrosis dataset which is used in section 6 of the vignette to demonstrate meta-analysis with TimiRGeN. UUO_data contains 240 miRNAs and 1874 mRNAs, all of which can also be found in mm_mRNA and mm_miR data files. This subset was loaded into the package for speed. Log2FC and adjusted P values for each gene is found. Differential expression was conducted on a pair-wise manor (D3/D0, D7/D0 and D14/D0). Unlike the folic acid data (mm_miR and mm_mRNA), the UUO data did not include time points D1 and D2.

Usage

data("UUO_data")

Format

A data frame with 2114 observations on the following 6 variables.

D3.Log2FC

a numeric vector of log2fc values from D3/D0. Contains miRNA and mRNA data.

D3.ajdPVal

a numeric vector of adj p values values from D3/D0. Contains miRNA and mRNA data.

D7.Log2FC

a numeric vector of log2fc values from D7/D0. Contains miRNA and mRNA data.

D7.ajdPVal

a numeric vector of adj p values values from D7/D0. Contains miRNA and mRNA data.

D14.Log2FC

a numeric vector of log2fc values from D14/D0. Contains miRNA and mRNA data.

D14.ajdPVal

a numeric vector of adj p values values from D14/D0. Contains miRNA and mRNA data.

Source

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE118341

References

Pavkovic M, Pantano L, Gerlach CV, Brutus S et al. Multi omics analysis of fibrotic kidneys in two mouse models. Sci Data 2019 Jun 14;6(1):92.

Examples

data(UUO_data)
UUO_miRNA <- UUO_data[c(1:240),]
UUO_mRNA <- UUO_data[-c(1:240),]

TimiRGeN documentation built on April 17, 2021, 6:03 p.m.