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Sample GSM1320441 Query DataSets for GSM1320441
Status Public on Aug 30, 2016
Title 500µM HC 200µM SM 8hr replicate 3
Sample type RNA
 
Source name Keratinocyte 24hr pretreatment with 500µM hydrocortisone (500µM HC) followed by 200µM SM exposure then 8hr incubation
Organism Homo sapiens
Characteristics tissue: Normal Human Epidermal Keratinocytes (NHEK)
Biomaterial provider Lonza (Walkersville, MD)
Treatment protocol Five days after plating, cells were pre-treated with control vehicle (1.25% ethanol) or hydrocortisone (500µM HC). After 24 hours cells were exposed to either 200µM SM or 200µM NM for 1 hour or 8 hours. Control unexposed cells were included with the study.
Growth protocol NHEK (Lonza, Walkersville, MD) were seeded at a density of 2.5X10E4 per well in T25 flasks and maintained according to manufucturer's specifications.
Extracted molecule total RNA
Extraction protocol Following SM and NM exposure cells were gently rinsed twice with hanks buffered saline solution. Total RNA was isolated from exposed and control cells using miRNeasy Mini Kit (Qiagen, Valencia, CA)
Label biotin
Label protocol 500ng total RNA was labeled using the RNA biotin labeling flashtag biotin HSR RNA labeling kit (Affymetrix, Santa Clara, CA) as per manufacturer’s instructions.
 
Hybridization protocol Labelled RNA was hybridized for 16 hrs at 48 degrees C on miRNA 3.0 GeneChips (Affymetrix). GeneChips were washed and stained using the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using Affymetrix 7G GeneChip Scanner.
Description Cells maintained in humidified incubator at 37 degrees C and 5% CO during treatment
Data processing Raw data (CEL files) were imported into Partek Genomic suite v6.6 (Partek Incorporated, St. Louis, MO) and normalized using robust multiarray averaging (RMA)
 
Submission date Feb 03, 2014
Last update date Aug 30, 2016
Contact name E Chepchumba K Yego
E-mail(s) eky1@case.edu
Phone 216-375-7334
Organization name US Army Medical Research Institute of Chemical Defense
Department Research
Street address 3100 Ricketts Point Road
City Aberdeen Proving Ground
State/province MD
ZIP/Postal code 21010
Country USA
 
Platform ID GPL16384
Series (1)
GSE54639 microRNA (miRNA) expression data from normal human epidermal keratinocytes exposed to sulfur mustard and nitrogen mustard in the presence and absence of hydrocortisone treatment

Data table header descriptions
ID_REF
VALUE RMA Signal Intensity (Log 2)

Data table
ID_REF VALUE
14q0_st 2.15818
14qI-1_st 2.53651
14qI-1_x_st 2.59766
14qI-2_st 2.0262
14qI-3_x_st 2.19406
14qI-4_st 1.85054
14qI-4_x_st 2.15658
14qI-5_st 1.91643
14qI-6_st 1.88002
14qI-6_x_st 1.93101
14qI-7_st 1.96335
14qI-8_st 2.03355
14qI-8_x_st 2.06984
14qI-9_x_st 2.19594
14qII-10_st 1.80118
14qII-10_x_st 1.93238
14qII-11_st 2.0834
14qII-11_x_st 1.86408
14qII-12_st 2.05101
14qII-12_x_st 2.06594

Total number of rows: 24980

Table truncated, full table size 607 Kbytes.




Supplementary file Size Download File type/resource
GSM1320441_NHEK_12C_200SM_500uM_HC_8hr_miRNA-3_0_.CEL.gz 878.7 Kb (ftp)(http) CEL
Processed data included within Sample table

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