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Series GSE20259 Query DataSets for GSE20259
Status Public on Feb 11, 2010
Title Phylogenetic & expression analysis of the bHLH transcription factor family: genomic approach to cellular differentiation
Organism Rattus norvegicus
Experiment type Expression profiling by array
Summary A phylogenetic analysis of seven different species (human, mouse, rat, worm, fly, yeast, and plant) utilizing all (541) basic helix-loop-helix (bHLH) genes identified, including expressed sequence tags (EST), was performed. A super-tree involving six clades and a structural categorization involving the entire coding sequence was established. A nomenclature was developed based on clade distribution to discuss the functional and ancestral relationships of all the genes. The position/location of specific genes on the phylogenetic tree in relation to known bHLH factors allows for predictions of the potential functions of uncharacterized bHLH factors, including EST's. A genomic analysis using microarrays for four different mouse cell types (i.e. Sertoli, Schwann, thymic, and muscle) was performed and considered all known bHLH family members on the microarray for comparison. Cell-specific groups of bHLH genes helped clarify those bHLH genes potentially involved in cell specific differentiation. This phylogenetic and genomic analysis of the bHLH gene family has revealed unique aspects of the evolution and functional relationships of the different genes in the bHLH gene family. PMID: 18557763
We used microarrays to determine bHLH expression in 20d rat Sertoli cells.
 
Overall design RNA samples from two control groups (Sertoli cells cultured for 72 h) are compared to two treated groups (Sertoli cells cultured for 72 h with cAMP).
 
Contributor(s) Stevens JD, Roalson EH, Skinner MK
Citation(s) 18557763
Submission date Feb 10, 2010
Last update date Jul 31, 2017
Contact name Michael K Skinner
E-mail(s) skinner@mail.wsu.edu
Organization name WSU
Department SBS
Street address Abelson 507
City Pullman
State/province WA
ZIP/Postal code 99163
Country USA
 
Platforms (1)
GPL1355 [Rat230_2] Affymetrix Rat Genome 230 2.0 Array
Samples (4)
GSM507513 Sertoli cell_control_biological rep1
GSM507514 Sertoli cell_control_biological rep2
GSM507515 Sertoli cell_cAMP_biological rep1
Relations
BioProject PRJNA124223

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
GSE20259_RAW.tar 10.8 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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