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Sample GSM1320415 Query DataSets for GSM1320415
Status Public on Aug 30, 2016
Title ctrl EtoH 2000µM SM 1hr replicate 2
Sample type RNA
 
Source name Keratinocyte 24hr pretreatment with control vehicle (1.25% ethanol) followed by 200µM SM exposure then 1hr 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 1.90613
14qI-1_st 2.09726
14qI-1_x_st 2.66224
14qI-2_st 1.88615
14qI-3_x_st 1.95198
14qI-4_st 2.54378
14qI-4_x_st 2.29512
14qI-5_st 2.28733
14qI-6_st 2.1626
14qI-6_x_st 2.23142
14qI-7_st 2.01923
14qI-8_st 1.78741
14qI-8_x_st 2.12282
14qI-9_x_st 2.00452
14qII-10_st 1.78216
14qII-10_x_st 2.15683
14qII-11_st 2.56215
14qII-11_x_st 2.09458
14qII-12_st 2.09399
14qII-12_x_st 2.52877

Total number of rows: 24980

Table truncated, full table size 607 Kbytes.




Supplementary file Size Download File type/resource
GSM1320415_NHEK_9B_200SM_ctrl_EtOH_1hr_miRNA-3_0_.CEL.gz 859.3 Kb (ftp)(http) CEL
Processed data included within Sample table

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