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Sample GSM2127166 Query DataSets for GSM2127166
Status Public on Jun 03, 2016
Title skin_noUv_WT_4_miRNA
Sample type RNA
 
Source name dorsal skin, not irradiated, WT(Ppard+/+)
Organism Mus musculus
Characteristics background strain: SKH1-C57/Bl6-SV129
tissue: skin
uv irradiation: no_UV
genotype: WT(Ppard+/+)
Treatment protocol Irradiated mice: 70mJ/cm2 of UVB three times a week
Growth protocol Mice in standard colony, with water and food ad libitum
Extracted molecule total RNA
Extraction protocol Total RNA containing the small RNA fraction was isolated using TRIzol reagent (Invitrogen).
Label Cy3
Label protocol Each sample was prepared according to the Agilent’s miRNA Microarray System protocol. 100 ng of total RNA was dephosphorylated with calf intestine alkaline phosphatase (GE Healthcare Europe GmbH, Otelfingen, Switzerland), denatured with dimethyl sulfoxide and labeled with pCp-Cy3 using T4 RNA ligase (GE Healthcare Europe GmbH, Otelfingen, Switzerland).
 
Hybridization protocol The labeled RNA was hybridized to Agilent mouse miRNA microarrays for 20 hours at 55°C with rotation.
Scan protocol The arrays were scanned with an Agilent Technologies Scanner G2505B with high dynamic range settings as specified by the manufacturer.
Description WT.592
Data processing Agilent Feature Extraction Software (version 9.5.3.1) was used to extract the data and quantile normalization was applied to the Total Gene Signal intensity values
 
Submission date Apr 19, 2016
Last update date Jun 03, 2016
Contact name Mark Ibberson
Organization name SIB Swiss Institute of Bioinformatics
Department Vital-IT
Street address Genopode building
City Lausanne
ZIP/Postal code CH-1015
Country Switzerland
 
Platform ID GPL8824
Series (2)
GSE80428 Identification of a novel PPARβ/δ / miR-21-3p axis in UV-induced skin inflammation [mouse miRNA]
GSE80431 Identification of a novel PPARβ/δ / miR-21-3p axis in UV-induced skin inflammation

Data table header descriptions
ID_REF
VALUE Quantile normalized, log2 transformed

Data table
ID_REF VALUE
DarkCorner 3.081023269
NC1_00000197 4.601102045
NC1_00000215 4.176657943
NC2_00079215 4.14192507
NC2_00092197 4.539816938
NC2_00106057 4.887834275
NC2_00122731 4.832930547
NegativeControl 5.126648492
SCorner3 2.828965835
dmr_285 3.136538927
dmr_3 2.213692982
dmr_308 2.417322951
dmr_316 3.028162951
dmr_31a 2.07860031
dmr_6 2.049313008
hur_1 16.14693357
hur_2 17.80489489
hur_4 13.4099952
hur_5 2.792896889
hur_6 15.84732064

Total number of rows: 599

Table truncated, full table size 14 Kbytes.




Supplementary file Size Download File type/resource
GSM2127166_US22502600_SLOT01_S01_miRNA-v1_95_May07_2_3.txt.gz 1.7 Mb (ftp)(http) TXT
Processed data included within Sample table

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