Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 57
Release date: Nov 10 2011
Last update date: Mar 22 2012
Access: Public
Diseases: Muscular Diseases
Dataset link Genetic variability of transcript abundance in pig peri-mortem skeletal muscle: eQTL localized genes involved in stress response, cell death, muscle disorders and metabolism.

Experimental Protocol


A wide genomic project was designed to combine genetic and transcriptome analysis. This project involved about 1,000 F2 pigs from 15 half-sib families to identify QTL for meat quality traits (Cherel et al., unpublished data). In this study, we focused on one family of 57 half sib F2 pigs. Total RNA was isolated from each of the 57 muscle samples using a commercial kit, and controlled for quality and concentration using an AGILENT 2100 bioanalyzer. cDNA was synthesized and labelled from 5 µg total RNA by simultaneous reverse transcription of mRNA using SuperScriptTM II RNase H- Reverse Transcriptase and 33P-deoxy-CTP. Each muscle sample mRNA was hybridized at 68°C during 24 h to one array. The arrays were then exposed to radioisotopic-sensitive imaging plates that were scanned thereafter with a phosphor imaging system at a 25 µm resolution. Hybridization images were quantified using a semi-automated software through a grid process with a fixed spot diameter. The output was then subjected to the data analysis process.

Repositories


GEO

GSE26924

ArrayExpress

E-GEOD-26924

BioProject

PRJNA136069

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Contact


Laurence Liaubet

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