NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1429435 Query DataSets for GSM1429435
Status Public on Aug 01, 2014
Title epidermis_REDD1_KO_treated_FA_1
Sample type RNA
 
Source name Epidermis from posterior ear lobe
Organism Mus musculus
Characteristics treatment status: 2 ug/animal Glucocorticoid FA
phenotype: REDD1_KO
strain: B6D2
Treatment protocol Seven wk old B6D2 females in the telogen stage of the hair cycle were shaved, and treated 3 days later. Glucocorticoid FA was applied topically (2 ug/animal) in 200 ul acetone to the back skin once or up to four applications every third day as described previously (Chebotaev et al., 2007b). Control animals were treated with acetone only.
Extracted molecule total RNA
Extraction protocol Total RNA from murine epidermis was isolated with RiboPure kit (Ambion). Total RNA from murine s.c. adipose was isolated with RNeasy Lipid Tissue Kit (Qiagen). The RNA samples were treated with TURBOTM DNase (Ambion). Purity of RNA samples isolated from epidermis and s.c. fat was confirmed by the expression of adipose and keratinocyte cell markers.
Label biotin
Label protocol RNA amplification, labeling, hybridization with the Mouse Whole-Genome Gene Expression BeadChips (Illumina), and data analysis were performed at the Genomics Core Facility at the Center for Genetic Medicine at Northwestern University according to the DNA chip manufacturer's protocols.
 
Hybridization protocol RNA amplification, labeling, hybridization with the Mouse Whole-Genome Gene Expression BeadChips (Illumina), and data analysis were performed at the Genomics Core Facility at the Center for Genetic Medicine at Northwestern University according to the DNA chip manufacturer's protocols.
Scan protocol RNA amplification, labeling, hybridization with the Mouse Whole-Genome Gene Expression BeadChips (Illumina), and data analysis were performed at the Genomics Core Facility at the Center for Genetic Medicine at Northwestern University according to the DNA chip manufacturer's protocols.
Data processing The data underwent background subtraction and quantile normalization using the neqc function from limma package in R
 
Submission date Jul 07, 2014
Last update date Aug 01, 2014
Contact name Ben Readhead
E-mail(s) ben.readhead@asu.edu
Organization name ASU-Banner Neurodegenerative Disease Research Center
Street address 797 E. Tyler Street
City Tempe
State/province AZ
ZIP/Postal code 85281
Country USA
 
Platform ID GPL6885
Series (1)
GSE59151 REDD1 (regulated in development and DNA damage response 1) dissociates therapeutic and adverse effects of topical steroids in skin

Data table header descriptions
ID_REF
VALUE quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 8.890452157 0
ILMN_2721178 6.507795392 0
ILMN_3033922 7.181077174 0
ILMN_3092673 10.90548331 0
ILMN_2816356 4.406383626 0.1817043
ILMN_2808939 8.088547822 0
ILMN_2634564 7.85474271 0
ILMN_2737647 4.266541449 0.5350877
ILMN_2734484 6.675940947 0
ILMN_2952292 6.739098551 0
ILMN_2699078 4.198726253 0.8784461
ILMN_1213681 6.015425031 0
ILMN_2735413 5.196594114 0.002506266
ILMN_2735415 5.452512166 0
ILMN_2891688 7.383960283 0
ILMN_2637698 8.944974072 0
ILMN_2674228 6.209608787 0
ILMN_2601546 4.410720109 0.1766917
ILMN_1230831 4.626417849 0.05889724
ILMN_2848071 4.542323458 0.0914787

Total number of rows: 25697

Table truncated, full table size 808 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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