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Series GSE18653 Query DataSets for GSE18653
Status Public on Oct 21, 2009
Title Comparison between skeletal transcriptomes of Korean native pig and Yorkshire
Organism Sus scrofa
Experiment type Expression profiling by array
Summary The pig could be a useful model to characterize molecular aspects determining several delicate phenotypes because they have been bred for those characteristics. The Korean native pig (KNP) is a regional breed in Korea that was characterized by relatively high intramuscular fat content and reddish meat color compared to other western breeds such as Yorkshire (YS). YS grew faster and contained more lean muscle than KNP. We compared the KNP to Yorksire to find molecular clues determining muscle characteristics. The comparison of skeletal gene expression profiles between these two breeds showed molecular differences in muscle. We found 82 differentially expressed genes (DEGs) defined by fold change (more than 1.5 fold difference) and statistical significance (within 5% of false discovery rate). Functional analyses of these DEGs indicated up-regulation of most genes involved in cell cycle arrest, down-regulation of most genes involved in cellular differentiation and its inhibition, down-regulation of most genes encoding component of muscular-structural system, and up-regulation of most genes involved in diverse metabolism in KNP. Especially, DEGs in above-mentioned categories included a large number of genes encoding proteins directly or indirectly involved in p53 pathway. Our results indicated a possible role of p53 to determine muscle characteristics between these two breeds.
 
Overall design Comparing gene expression profiles to discover differentially expressed genes from skeletal muscles of two different pig breeds.
 
Contributor(s) Lee C
Citation(s)
  • Kim SS, Kim JR, Moon JK, Choi BH et al. Transcriptional alteration of p53 related processes as a key factor for skeletal muscle characteristics in Sus scrofa. Mol Cells 2009 Dec 31;28(6):565-73. PMID: 19937136
Submission date Oct 20, 2009
Last update date May 03, 2013
Contact name Cheol-Koo Lee
E-mail(s) cklee2005@korea.ac.kr
Phone 82-2-3290-3008
Organization name Korea University
Department Biotechnology
Lab Functional Genomics
Street address Korea University, Biotechnology #318 West building, Anam-dong, Seongbuk-gu
City Seoul
ZIP/Postal code 136-701
Country South Korea
 
Platforms (1)
GPL3533 [Porcine] Affymetrix Porcine Genome Array
Samples (8)
GSM463379 KNP LD, biological rep 1
GSM463380 KNP LD, biological rep 2
GSM463381 KNP LD, biological rep 3
Relations
BioProject PRJNA121591

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE18653_RAW.tar 61.0 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file

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