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Sample GSM1320438 Query DataSets for GSM1320438
Status Public on Aug 30, 2016
Title 500µM HC 200µM NM 8hr replicate 2
Sample type RNA
 
Source name Keratinocyte 24hr pretreatment with 500µM hydrocortisone (500µM HC) followed by 200µM NM 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 2.29709
14qI-1_st 3.42542
14qI-1_x_st 2.39466
14qI-2_st 2.05196
14qI-3_x_st 2.00487
14qI-4_st 2.78063
14qI-4_x_st 1.91597
14qI-5_st 1.81589
14qI-6_st 2.2343
14qI-6_x_st 1.78999
14qI-7_st 1.65016
14qI-8_st 1.8481
14qI-8_x_st 2.24849
14qI-9_x_st 2.02378
14qII-10_st 1.87842
14qII-10_x_st 1.666
14qII-11_st 2.07233
14qII-11_x_st 2.34976
14qII-12_st 2.08311
14qII-12_x_st 2.31655

Total number of rows: 24980

Table truncated, full table size 607 Kbytes.




Supplementary file Size Download File type/resource
GSM1320438_NHEK_12B_200NM_500uM_HC_8hr_miRNA-3_0_.CEL.gz 752.4 Kb (ftp)(http) CEL
Processed data included within Sample table

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