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Series GSE13923 Query DataSets for GSE13923
Status Public on Dec 21, 2010
Title Divergent gene-expression profiles between proepicardium and epicardium differentiation
Organism Gallus gallus
Experiment type Expression profiling by array
Summary The HH16/17 chicken proepicardium (PE) gives rise to the embryonic epicardium (Epi) which significantly contributes formation of the coronary vasculature during cardiac development. In contrast to explanted Epi cells, explanted PE cells can undergo differentiation into a cardiac myocyte phenotype.
In order to assess which genes are associated with PE differentiation into distinc cellular lineages, two interconnented microarray gene-expression series were performed.
1: Gene-expression profiles at 12, 24, 36, 48, 60, 72 and 120 hours during cardiac myocyte differentiation from including the HH16/17 PE (t0h) were determined by hybridizing Cy3 and Cy5 labelled amplified RNA to the ArkGen 20K oligo arrays in a 2-color looped experiment design, i.e., hybridization of successive time-points per array, including dye swaps, resulting in four technical replicates for each time point.
2: Gene expression changes during normal embryonic Epi maturation were assess by hybridizing Epi from stages HH25, HH29, HH32 and HH37 in all possible pair-wise combinations, including dye-swaps, leading to 6 replicates per time point. To allow for valid comparisons between the Epi and untreated PE differentiation, these two array series were connected via hybridization of both Epi stage HH25 and HH29 with the PE explant at 48 hours in culture, with dye swaps.

Keywords: time course, cardiac myocyte differentiation, embryonic coronary vessel formation, cell type comparison, mRNA expression
 
Overall design Proepicardium to cardiac myocyte differentiation: 16 arrays for 8 time points [t0h,t12h,t24h,t36h,t48h,t60h,t72h,t120h]; successive time points hybridized per array in a loop design with dye swaps + Embryonic epicardium dfferentiation: 12 arrays for 4 time points [HH25,HH29,HH32,HH37]; all possible sample combination were hybridized with dye swaps + Epicardium to Proepicardium data connection: 4 arrays; comparing HH25 and HH29 Epicardium to t48h Proepicardium with dye swaps.
 
Contributor(s) Buermans HP, van Wijk B, van den Hoff MJ, 't Hoen PA
Citation(s) 21179454
Submission date Dec 12, 2008
Last update date Sep 20, 2012
Contact name Henk Buermans
E-mail(s) h.buermans@lumc.nl
Phone +31715268558
Organization name Leiden University Medical Center
Department Human Genetics
Lab Leiden Genome Technology Center
Street address Albinusdreef 2
City Leiden
State/province ZH
ZIP/Postal code 2300 RC
Country Netherlands
 
Platforms (1)
GPL5480 ARK-Genomics G. gallus 20K v1.0
Samples (64)
GSM350659 Epi_no_treatment_HH29_tech-rep1_Cy3
GSM350660 Epi_no_treatment_HH25_tech-rep1_Cy5
GSM350661 Epi_no_treatment_HH32_tech-rep1_Cy3
Relations
BioProject PRJNA110251

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
GSE13923_RAW.tar 125.3 Mb (http)(custom) TAR (of GPR)
Processed data included within Sample table
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