hs_mRNA: Human mRNA data set

In Krutik6/TimiRGeN: Time sensitive microRNA-mRNA integration, analysis and network generation tool

Human mRNA data set

Description

Differential expression from Human breast cancer cells (MCF-7). Normoxic conditions contrasted against 16H, 32H and 48H under hypoxia mRNA data. Data was put though limma for DE. hs_mRNA only has DE results from 2000 mRNA genes for speed and size optimisation.

Column names are in the following format:timepoint(hours).DEresult (logFC or adjPVal).

Usage

data("hs_mRNA")

Format

A data frame of mRNAs put through differential expression with 2000 observations on the following 6 variables.

H16.logFC

a numeric vector containing log2FC values of Hypoxia_16_hours/ Normoxic conditions.

H16.adjPVal

a numeric vector containing adjusted P values values of Hypoxia_16_hours/ Normoxic conditions.

H32.logFC

a numeric vector containing log2FC values of Hypoxia_32_hours/ Normoxic conditions.

H32.adjPVal

a numeric vector containing adjusted P values values of Hypoxia_32_hours/ Normoxic conditions

H48.logFC

a numeric vector containing log2FC values of Hypoxia_48_hours/ Normoxic conditions.

H48.adjPVal

a numeric vector containing adjusted P values values of Hypoxia_48_hours/ Normoxic conditions

Source

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE47534

References

C. Camps, H. K. Saini, D. R. Mole, H. Choudhry, M. Reczko, J. A. Guerra-Assunção, Y.-M.Tian, F. M. Buffa, A. L. Harris, A. G. Hatzigeorgiou, et al., “Integrated analysis of microrna and mrna expression and association with hif binding reveals the complexity of microrna expression regulation under hypoxia,” Molecular cancer, vol. 13, no. 1, p. 28, 2014.. <https://molecular-cancer.biomedcentral.com/articles/10.1186/1476-4598-13-28>

Examples

data(hs_mRNA)
## maybe str(hs_mRNA) ; plot(hs_mRNA) ...

Krutik6/TimiRGeN documentation built on Jan. 27, 2024, 7:46 p.m.