data_MiTF_1000genes: Extract of a Transciptome Dataset from Human Melanoma Cell...

In SeqGate: Filtering of Lowly Expressed Features

Description

This data set is an extract from a dataset from human transciptome studied by Strub et al. (2011).

Usage

data(data_MiTF_1000genes)

Format

A data frame with 1,000 raw gene counts on the following 6 samples.

A1

a numeric vector: counts from sample A1 (condition A)

A2

a numeric vector: counts from sample A2 (condition A)

B1

a numeric vector: counts from sample B1 (condition B)

B2

a numeric vector: counts from sample B2 (condition B)

A3

a numeric vector: counts from sample A3 (condition A)

B3

a numeric vector: counts from sample B3 (condition B)

Details

The extract counts 1,000 genes measured in 6 samples, from 2 biological conditions (cells expressing the Microphtalmia Transcription Factor (MiTF) are compared to cells in which the MiTF is repressed). The raw read counts have been retrieved from the Supplementary Materials of Dillies et al. (2012). The initial dataset counts 37,720 genes.

Source

Dillies, M.A. et al. (2012) A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis. Brief. Bioinformatics 2013 Nov;14(6):671-83

References

Strub, T., Giuliano, S., Ye T,, et al. Essential role of microphthalmia transcription factor for DNA replication, mitosis and genomic stability in melanoma. Oncogene 2011;30:2319–32

Examples

    data(data_MiTF_1000genes)

SeqGate documentation built on Jan. 24, 2021, 2:03 a.m.