Differential expression in a C57BL/6J-chrYA congenic strain versus its C57BL/6J background genotype in myocardial cells

Description

Chromosome Y (chrY) from the mouse strain C57BL/6J (ChrYC57) was substituted for that of A/J mice (ChrYA). Cardiomyocytes from the resulting "chromosome substitution" C57BL/6J-chrYA strain were smaller than that of their C57BL/6J counterparts. In the opposite direction, when chrYA from A/J mice was substituted for that of chrYC57, cardiomyocytes from the resulting A/J-chrYC57 strain were larger than in their A/J counterparts. Genome-wide gene expression in cardiomyocytes was compared between these strains using the Illumina Mouse-ref8 BeadChip. The effects of strain and post-pubertal testosterone levels were tested by ANOVA of a factorial design with four experimental groups by genotype and castration treatment: ChrYA/intact, ChrYA/castrated, C57/intact, C57/castrated. Four animals per group were tested. For more information about the experimental samples, see Llamas et al., 2009. For information about the analysis of these data, see Verdugo et al. 2009.

Reference

Chromosome Y variants from different inbred mouse strains are linked to differences in the morphologic and molecular responses of cardiac cells to postpubertal testosterone
Llamas B, Verdugo RA, Churchill GA, Deschepper CF.
BMC Genomics. 2009 Apr 7;10:150. PMCID: PMC2679052 [ Full Text ]

Importance of randomization in microarray experimental designs with Illumina platforms
Verdugo RA, Deschepper CF, Muñoz G, Pomp D, Churchill GA.
Nucleic Acids Res. 2009 Sep;37(17):5610-8. PMCID: PMC2761262. [ Full Text ]

Datasets


README file:
README-UNIX.txt

README-WIN.txt

Raw data: rawdata.txt

Microarray gene list: MouseRef8_genemap.csv

Description of samples and layout of hybridizations: YChrom_design.csv

CEL files: GEO

Script: YChrom-DE.R