TargetScoreData

DOI: 10.18129/B9.bioc.TargetScoreData    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see TargetScoreData.

TargetScoreData

Bioconductor version: 3.10

Precompiled and processed miRNA-overexpression fold-changes from 84 Gene Expression Omnibus (GEO) series corresponding to 6 platforms, 77 human cells or tissues, and 113 distinct miRNAs. Accompanied with the data, we also included in this package the sequence feature scores from TargetScanHuman 6.1 including the context+ score and the probabilities of conserved targeting for each miRNA-mRNA interaction. Thus, the user can use these static sequence-based scores together with user-supplied tissue/cell-specific fold-change due to miRNA overexpression to predict miRNA targets using the package TargetScore (download separately)

Author: Yue Li

Maintainer: Yue Li <yueli at cs.toronto.edu>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("TargetScoreData")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("TargetScoreData")

 

PDF	R Script	Processed human microRNA-overexpression data from GEO, and sequence information from TargetScan, and targetScore from TargetScore
PDF		Reference Manual

Details

biocViews	ExperimentData, RNASeqData, miRNAData
Version	1.22.0
License	GPL-2
Depends
Imports
LinkingTo
Suggests	TargetScore, gplots
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	TargetScore
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	TargetScoreData_1.22.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository	git clone https://git.bioconductor.org/packages/TargetScoreData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TargetScoreData
Package Short Url	https://bioconductor.org/packages/TargetScoreData/
Package Downloads Report	Download Stats