decay_data: Normalized RNA abundance RNA decay timecourse

In reedssorenson/RNAdecay: Maximum Likelihood Decay Modeling of RNA Degradation Data

Normalized RNA abundance RNA decay timecourse

Description

A long form dataset of RNA abundance of 118 genes in four Arabidopsis thaliana genotypes (WT, sov, vcs, vcs sov). Four biological replicates were collectred 0, 7.5, 15, 30, 60, 120, 240, 480 min after blocking transcription. RNA was extracted, subjected to ribodepletion, and sequenced by RNA-seq (Illumina 50 nt single end reads). RPM values were normalized to mean T0 abundance and corrected by a decay factor.

Usage

decay_data

Format

a data frame with 5 columns and 15104 rows.

geneID

gene identifier; AGI

treatment

Arabidopsis genotype

t.decay

time of decay, in minutes

rep

replicate number

value

RPM value normalized to the replicate samples' mean T0 abundance and decay factor corrected

Source

Sorenson et al. (2017) Submitted; https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE86361

reedssorenson/RNAdecay documentation built on Oct. 28, 2023, 11:31 a.m.