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Sample GSM815118 Query DataSets for GSM815118
Status Public on Oct 01, 2012
Title 10 uM phevalin (0.1%DMSO) in EpiLife growth medium supplemented with human keratinocyte growth supplement, replicate 1
Sample type RNA
 
Source name Primary human keratinocytes were cultured from newborn foreskin.
Organism Homo sapiens
Characteristics treatment: 10uM phevalin in growth media
cell type: Human Foreskin Keratinocytes were isolated at the University of Washington.
Treatment protocol After growing HaCaT cells to confluence, cells were treated for 4 hours at 37C, 5% CO2.
Growth protocol HaCaT keratinocytes were cultured in 6 well plates using EpiLife growth medium supplemented with human keratinocyte growth supplement. Cells were maintained at 37C in a humidified, 5% CO2 atmosphere.
Extracted molecule total RNA
Extraction protocol After treatment, the medium was removed and RNA was isolated using an RNeasy minikit following the manufacturer’s instructions for adherent cells. Extracted RNA was then ethanol precipitated.
Label biotin
Label protocol Total RNA (500ng) was reverse transcribed, and amplified and biotin-labeled via in vitro transcription using the MessageAmp Premier kit
 
Hybridization protocol Labeled and fragmented cRNA was hybridized for 16 hr at 45C to the Affymetrix Human Genome U133A 2.0 GeneChip. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using an Affymetrix 7G scanner and GCOS version 1.4.
Description 10uM_a
Data processing Microarray data were analyzed using FlexArray version 1.6. The Affymetrix CEL files were imported and normalized using GC-RMA.
Matrix files include scaled MAS5 (linked to the Series record) and GC-RMA (contained in the data table below) normalized (log2) values.
 
Submission date Oct 12, 2011
Last update date Oct 01, 2012
Contact name Kate McInnerney
E-mail(s) kmcinnerney@montana.edu
Phone 406-994-5666
Fax 406-994-4926
URL http://cores.montana.edu
Organization name Montana State University
Department Microbiology
Lab Functional Genomics Facility
Street address 109 Lewis Hall
City Bozeman
State/province MT
ZIP/Postal code 59717
Country USA
 
Platform ID GPL571
Series (1)
GSE32920 Phevalin (aureusimine B) production by Staphylococcus aureus biofilm and impacts on human keratinocyte gene expression

Data table header descriptions
ID_REF
VALUE GC-RMA log2 normalized signal intensity

Data table
ID_REF VALUE
212296_at 11.41482582
221368_at 2.153517257
205530_at 4.196633635
217147_s_at 1.593004416
213290_at 1.919915656
209861_s_at 11.48706321
221784_at 2.552725445
217682_at 3.689167083
218090_s_at 9.641611169
212219_at 8.206631093
31846_at 8.477539047
200868_s_at 8.208517802
36612_at 6.552170835
209909_s_at 3.674458704
213746_s_at 11.47269536
219555_s_at 9.786174737
219495_s_at 3.754786092
204522_at 4.423423216
217725_x_at 10.73776054
217675_at 1.717327588

Total number of rows: 22277

Table truncated, full table size 496 Kbytes.




Supplementary file Size Download File type/resource
GSM815118.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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