result: Jurkat T-cell transcritomic data with isoforms selected by...

In NBBttest: Negative Binomial Beta t-Test

Jurkat T-cell transcritomic data with isoforms selected by NBBttest

Description

A data consist of 7 information columns and 6 data (numeric) columns and 1953 RNA isoforms selected by NBBttest are used to make heatmaps.

Usage

data("result")

Format

A data frame with 1953 observations on the following 14 variables.

tagid

: a numeric vector

geneid

: a numeric vector

name

: a string vector

chr

: a string vector, a set of 24 chrosomomes

strand

: a factor with levels - +

pos

: a numeric vector

anno

: string vector, poly(A) site types

Jurk.NS.A

: a numeric vector

Jurk.NS.B

: a numeric vector

Jurk.NS.C

: a numeric vector

Jurk.48h.A

: a numeric vector

Jurk.48h.B

: a numeric vector

Jurk.48h.C

: a numeric vector

tvalue

: a numeric vector

Details

The original data are count data generated by next generation sequencing from Jurkat T-cells. This dataset is a short dataset containing 1953 isoforms that show differential expression between rest status and stimulation status. The T-cells were treated by resting and stimulating with CD3/CD28 for 48 hours. The data have 7 columns for the information of poly(A) site: "tagid", "geneid", "gene name", "chromosome", "strand",poly(A) site position, poly(A) site annotation and 6 columns for data: Jurk.NS.A, Jurk.NS.B, Jurk.NS.C, Jurk.48h.A, Jurk.48h.B, Jurk.48h.C. where NS means Normal state or no stimulation and 48h means 48 hours after CD3/CD28 stimulatuin of T-cells. 13409 RNA isoforms were detected to have alternative poly(A) sites.

Value

datasheet containd ID, information, count data of RNA reads.

References

Yuan-De Tan Anita M. Chandler, Arindam Chaudhury, and Joel R. Neilson(2015) A Powerful Statistical Approach for Large-scale Differential Transcription Analysis. Plos One. DOI: 10.1371/journal.pone.0123658.

Examples

data(result)

NBBttest documentation built on May 30, 2022, 1:05 a.m.