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Sample GSM1843188 Query DataSets for GSM1843188
Status Public on Jun 13, 2016
Title Rac1 biological replicate #3
Sample type RNA
 
Source name Wholeskin Rac1 pup D7
Organism Mus musculus
Characteristics strain: CBA/CaJ
age: Day7
tissue: Whole skin
genotype/variation: overexpressing epidermal specific (K14) activated mutant (V12) Rac1
Extracted molecule total RNA
Extraction protocol RNA was extracted using a Qiagen RNA miniprep kit. RNA concentration was determined with spectrophotometric analysis; purity analyzed with 260:280 absorbance ratios; RNA quality and integrity were assessed and ensured using Bioanalyzer 2100 (Agilent Technologies, Santa Clara, CA) and RNA 6000 NanoAssay.
Label biotin
Label protocol Each RNA sample was amplified using the Ambion Illumina RNA amplification kit with biotin UTP labeling. T7 oligo(dT) primer was used to generate single stranded cDNA, followed by second strand synthesis to generate double-stranded cRNA, which is then column purified. In vitro transcription was performed to synthesize biotin-labeled cRNA using T7 RNA polymerase. The cRNA was then column purified and measured.
 
Hybridization protocol A total of 1500 ng of cRNA was hybridized for each array using standard Illumina protocols with streptavidin-Cy3 for detection.
Scan protocol Slides were scanned on an Illumina Beadstation and analyzed using BeadStudio (Illumina, Inc).
Description 9237545002_C
Data processing Samples were log-transformed and quantile normalized using Partek GS 6.6
 
Submission date Aug 04, 2015
Last update date Jun 13, 2016
Contact name Marten CG Winge
E-mail(s) mcgwinge@stanford.edu
Organization name Stanford University
Department Dermatology
Lab Marinkovich
Street address 269 Campus Drive
City Stanford
State/province CA
ZIP/Postal code 94035
Country USA
 
Platform ID GPL15097
Series (1)
GSE71683 Transcriptome of K14 V12 Rac1 mice

Data table header descriptions
ID_REF
VALUE AVG_signal = average signal intensity
9237545002_C.Detection Pval

Data table
ID_REF VALUE 9237545002_C.Detection Pval
0610006I08Rik 10.7239 0.00
0610007C21Rik 11.3752 0.00
0610007P08Rik 6.59375 0.01503759
0610007P14Rik 10.2671 0.00
0610007P22Rik 9.62751 0.00
0610008C08Rik 6.13797 0.2155388
0610009B22Rik 9.41501 0.00
0610009D07Rik 6.87664 0.3738199
0610009O20Rik 8.57526 0.00
0610010D20Rik 6.09237 0.1611241
0610010E21Rik 10.682 0.00
0610010K06Rik 10.6831 0.00
0610010K14Rik 9.13455 0.00
0610011L14Rik 6.34059 0.08646616
0610012A05Rik 6.18648 0.1654135
0610012D14Rik 6.23565 0.3759901
0610012G03Rik 11.9804 0.00
0610012H03Rik 6.13028 0.1275188
0610013E23Rik 6.54185 0.02130326
0610025P10Rik 7.56084 0.00

Total number of rows: 18138

Table truncated, full table size 415 Kbytes.




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

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