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Sample GSM1320394 Query DataSets for GSM1320394
Status Public on Aug 30, 2016
Title ctrl EtoH 0µM vesicant 8hr replicate 7
Sample type RNA
 
Source name Keratinocyte 24hr pretreatment with control vehicle (1.25% ethanol) followed by 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 1.9781
14qI-1_st 1.94265
14qI-1_x_st 2.42681
14qI-2_st 2.03539
14qI-3_x_st 2.15429
14qI-4_st 2.05745
14qI-4_x_st 2.81856
14qI-5_st 2.01022
14qI-6_st 1.77994
14qI-6_x_st 1.88901
14qI-7_st 1.88807
14qI-8_st 1.7695
14qI-8_x_st 2.06021
14qI-9_x_st 1.81318
14qII-10_st 2.42826
14qII-10_x_st 1.69455
14qII-11_st 1.92917
14qII-11_x_st 1.89885
14qII-12_st 2.61967
14qII-12_x_st 2.55887

Total number of rows: 24980

Table truncated, full table size 607 Kbytes.




Supplementary file Size Download File type/resource
GSM1320394_NHEK_4D_0NM_ctrl_EtOH_8hr_miRNA-3_0_.CEL.gz 887.0 Kb (ftp)(http) CEL
Processed data included within Sample table

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