integrations: Data on HIV integration sites from several studies

In sherrillmix/vipor: Plot Categorical Data Using Quasirandom Noise and Density Estimates

Data on HIV integration sites from several studies

Description

A dataset containing data from a meta-analysis looking for differences between active and inactive HIV integrations. Each row represents a provirus integrated somewhere in a human chromosome with whether viral expression was detectd, the distance to the nearest gene and the number of reads from H4K12ac ChIP-Seq mapped to within 50,000 bases of the integration.

Usage

integrations

Format

A data frame with 12436 rows and 4 variables:

study

the cell population infected by HIV

latent

whether the provirus was active (expressed) or inactive (latent)

nearestGene

distance to nearest gene (transcription unit) (0 if in a gene)

H4K12ac

number of reads aligned within +- 50,000 bases in a H4K12ac ChIP-Seq

Source

https://retrovirology.biomedcentral.com/articles/10.1186/1742-4690-10-90, system.file("data-raw", "makeIntegrations.R", package = "vipor")

References

https://retrovirology.biomedcentral.com/articles/10.1186/1742-4690-10-90

sherrillmix/vipor documentation built on Jan. 26, 2024, 11:01 a.m.