NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE4054 Query DataSets for GSE4054
Status Public on Jan 28, 2006
Title Estrogen-responsive genes in the parenchyma and fat pad of the bovine mammary gland by microarray analysis
Organism Bos taurus
Experiment type Expression profiling by array
Summary Characterizing estrogen-responsive genes is an essential step towards fully understanding mechanisms of estrogen action during mammary gland development and function. To catalogue these genes, sixteen prepubertal heifers were used in a 2 x 2 factorial with ovarian status (intact or ovariectomized) as the first factor and estrogen treatment as the second (control or estradiol). Heifers were ovariectomized at approximately 4.5 months of age and estrogen treatments were initiated one month later. After 3 days of treatment, gene expression in the parenchyma and fat pad of the bovine mammary gland was analyzed using a high-density oligonucleotide microarray. This microarray contained probes representing 40,808 Tentative Consensus sequences from the TIGR Bos taurus Gene Index and 4,575 singletons derived from libraries of pooled mammary gland and gut tissues. Microarray data were analyzed using the SAS Mixed Procedure with permutation testing. A total of 125 estrogen-responsive genes were identified using an experiment-wide permutation-based significance level of P < 0.1. Among these genes are known estrogen-targeted genes such as stanniocalcin 1, alpha-1-antiproteinase, progesterone receptor, nucleobindin 2, insulin-like growth factor 1, and tissue factor pathway inhibitor. However, the majority of the genes identified were not previously reported to be estrogen-responsive. In silico mapping and an estrogen response element (ERE) search indicated potential EREs in the promoter regions of some of these novel estrogen-responsive genes. The distinctive expression patterns regulated by estrogen in parenchyma and fat pad suggest mechanisms of action and reciprocal signaling between cell types.
Keywords: Cell type comparision, two class unpaired design
 
Overall design Sixteen prepubertal heifers were used in a 2 x 2 factorial with ovarian status (intact or ovariectomized) as the first factor and estrogen treatment as the second (control or estradiol). Two tissues (parenchyma and fat pad) from each heifer were sampled. 32 single-channel microarray hybridization were performed.
 
Contributor(s) Li RW, Meyer MJ, Van Tassell CP, Sonstegard TS, Connor EE, Van Amburgh ME, Boisclair YR, Capuco AV
Citation(s) 16788005
Submission date Jan 18, 2006
Last update date May 11, 2012
Contact name Robert W Li
E-mail(s) robert.li@ars.usda.gov
Phone 301-504-5185
Fax 301-504-8414
Organization name USDA
Department Animal & Natural Resources Institute
Lab Bovine Functional Genomics Laboratory
Street address Barc East
City Beltsville
State/province MD
ZIP/Postal code 20705
Country USA
 
Platforms (1)
GPL3711 USDA Bovine 60mer 344k Array (oligo layout)
Samples (32)
GSM92884 39030
GSM92890 39031
GSM92896 39034
Relations
BioProject PRJNA95195

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
GSE4054_RAW.tar 181.8 Mb (http)(custom) TAR (of CEL)

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap