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Sample GSM1226042 Query DataSets for GSM1226042
Status Public on Jan 01, 2014
Title Control (WT) skin 24hr
Sample type RNA
 
Source name WT_non-wounded_skin
Organism Mus musculus
Characteristics strain background: C57BL6
genotype/variation: control WT; MED1 fl/fl
age: 8 wks
hair cycling stage: telogen
tissue: skin
sample group: non-wounded
time after wound: 24 hr
Treatment protocol Med1 KO mice and their littermate control mice received two full-thickness wounds with a 6-mm biopsy punch on the telogen skin. Med1 KO mice showed both telogen and pigmented anagen skin because of hair cycling defects, In contrast, control skin was in telogen in whole area at 8 wk of age. We made wounds on telogen skin. The telogen wounded skin was excised by using 8-mm biopsy punch after 24 hr of wound preparation. Non-wounded telogen skin was also excised from the same mouse as a control.
Growth protocol Coactivator MED1 is removed from keratin 14 (K14) expressing keratinocytes by using Crelox stragety
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from wounded or non wounded skin by using combination of RNAzol and RNAeasy RNA purification kit (Qiagen).
Label biotin
Label protocol Standard Illumina hybridization protocol cDNA labeled by Biotin and detected by Cy3-streptoavidin
 
Hybridization protocol Standard Illumina hybridization protocol done by UCLA neuroscience genomics core
Scan protocol Standard Illumina hybridication protocol done by UCLA neuroscience genomics core
Description WT 24hr
Data processing data were normalized by using quantile method in Genome studio V2011.1
 
Submission date Sep 06, 2013
Last update date Jan 01, 2014
Contact name Yuko Oda
E-mail(s) yuko.oda@ucsf.edu
Phone 4152692370
Organization name VA Medical Center UCSF
Department Endocrine Research
Street address 111N-MB 360 1700 Owens St, Suite 360
City San Francisco
State/province CA
ZIP/Postal code 94158
Country USA
 
Platform ID GPL6885
Series (2)
GSE50670 Ablation of coactivator Med1 regulates bulge keratinocyte stem cells and accelerates epidermal regeneration after injury [skin wound]
GSE50673 Ablation of coactivator Med1 regulates bulge keratinocyte stem cells and accelerates epidermal regeneration after injury.

Data table header descriptions
ID_REF
VALUE quantile normalized using Genome Studio
p-value

Data table
ID_REF VALUE p-value
ILMN_1248788 310.8 0.00376
ILMN_2707227 382.5 0
ILMN_2896528 8599.6 0
ILMN_2721178 2310 0
ILMN_1227723 1373.2 0
ILMN_3033922 2712.5 0
ILMN_3092673 14378.2 0
ILMN_2730714 9730.9 0
ILMN_3162224 3766.2 0
ILMN_2816356 258.4 0.03509
ILMN_2808939 2265 0
ILMN_2634564 1420.4 0
ILMN_1216623 1593.2 0
ILMN_1215157 2107.2 0
ILMN_1228777 210.6 0.20426
ILMN_2737647 222 0.13659
ILMN_1216425 158.7 0.96617
ILMN_2734484 1072.4 0
ILMN_2652961 183.3 0.55514
ILMN_2952292 406 0

Total number of rows: 25697

Table truncated, full table size 613 Kbytes.




Supplementary data files not provided
Raw data are available on Series record
Processed data included within Sample table

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