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Series GSE49906 Query DataSets for GSE49906
Status Public on Apr 16, 2014
Title Transcriptome modulation of ventricles, cardiomyocytes and cardiac fibroblasts during postnatal mouse development
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary During development the fetal heart undergoes a rapid and dramatic transition to adult function through transcriptional and post-transcriptional mechanisms, including alternative splicing (AS). We performed deep RNA-sequencing for high-resolution analysis of transcriptome changes during postnatal mouse heart development using RNA from ventricles and freshly isolated cardiomyocytes (CM) and cardiac fibroblasts (CF). Extensive changes in gene expression and AS occur primarily between postnatal days 1 and 28. CM and CF showed reciprocal regulation of gene expression during postnatal development reflecting differences in proliferative capacity, cell adhesion functions, and mitochondrial metabolism. We found that AS plays a novel role in vesicular trafficking and membrane organization during postnatal CM development. Interestingly, these AS transitions are enriched among targets of two RNA-binding proteins, Celf1 and Mbnl1, which undergo developmentally regulated change in expression. Vesicular traffic genes affected by AS during normal development where Celf1 is down-regulated, showed a reversion to neonatal AS patterns when Celf1 was over-expressed in adults.
 
Overall design RNA-seq was performed in RNA samples of ventricles, cardiomyocytes or cardiac fibroblast at different developmental stages;
embryonic day 17, postnatal day (PN) 1, 10, 28 and 90 for ventricles, PN1-3, PN28 and PN60 for cardiac fibroblasts, and PN1-2, PN30, and PN67 for cardiomyocytes
 
Contributor(s) Giudice J, Xia Z, Li W, Cooper TA
Citation(s) 24752171
Submission date Aug 15, 2013
Last update date May 15, 2019
Contact name Zheng Xia
E-mail(s) xiaz@ohsu.edu
Organization name Oregon Health & Science University
Department Department of Biomedical Engineering
Lab Xia Lab
Street address 3181 SW Sam Jackson Park Rd
City Portland
State/province Oregon
ZIP/Postal code 97239
Country USA
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (13)
GSM1223635 RNA-seq ventricle PN90 (adult)
GSM1223636 RNA-seq ventricle PN28
GSM1223637 RNA-seq ventricle PN10
Relations
BioProject PRJNA217955
SRA SRP029464

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
GSE49906_RAW.tar 37.4 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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