hs_miR: Human microRNA data set
In TimiRGeN: Time sensitive microRNA-mRNA integration, analysis and network generation tool
Description
Usage
Format
Source
References
Examples
Description
Differential expression from Human breast cancer cells (MCF-7).
Normoxic conditions contrasted against 16H, 32H and 48H under hypoxia. Data was put though limma for DE. hs_miR consists DE results from 189 microRNAs.
Column names are in the following format: timepoint(hours).DEresult (logFC or adjPVal).
The miR names are not using in TimiRGeN friendly nomenclature. Gene names must be changed before use in TimiRGeN analysis. This must be changed before using TimiRGeN. miR gene name changing is explained in section 3.1 of the vignette.
Usage
1
data("hs_miR")
Format
A data frame of miRNAs put through differential expression with 189 observations on the following 6 variables.
H16.logFCa numeric vector containing log2FC values of
Hypoxia_16_hours/ Normoxic conditions.
H16.adjPVala numeric vector containing adjusted P values values
of Hypoxia_16_hours/ Normoxic conditions.
H32.logFCa numeric vector containing log2FC values of
Hypoxia_32_hours/ Normoxic conditions.
H32.adjPVala numeric vector containing adjusted P values values
of Hypoxia_32_hours/ Normoxic conditions
H48.logFCa numeric vector containing log2FC values of
Hypoxia_48_hours/ Normoxic conditions.
H48.adjPVala 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
1
2
TimiRGeN documentation built on April 17, 2021, 6:03 p.m.
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.
Description Usage Format Source References Examples
Description
Differential expression from Human breast cancer cells (MCF-7). Normoxic conditions contrasted against 16H, 32H and 48H under hypoxia. Data was put though limma for DE. hs_miR consists DE results from 189 microRNAs.
Column names are in the following format: timepoint(hours).DEresult (logFC or adjPVal).
The miR names are not using in TimiRGeN friendly nomenclature. Gene names must be changed before use in TimiRGeN analysis. This must be changed before using TimiRGeN. miR gene name changing is explained in section 3.1 of the vignette.
Usage
1 | data("hs_miR")
|
Format
A data frame of miRNAs put through differential expression with 189 observations on the following 6 variables.
H16.logFCa numeric vector containing log2FC values of Hypoxia_16_hours/ Normoxic conditions.
H16.adjPVala numeric vector containing adjusted P values values of Hypoxia_16_hours/ Normoxic conditions.
H32.logFCa numeric vector containing log2FC values of Hypoxia_32_hours/ Normoxic conditions.
H32.adjPVala numeric vector containing adjusted P values values of Hypoxia_32_hours/ Normoxic conditions
H48.logFCa numeric vector containing log2FC values of Hypoxia_48_hours/ Normoxic conditions.
H48.adjPVala 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
1 2 |
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.