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Sample GSM351686 Query DataSets for GSM351686
Status Public on Feb 10, 2009
Title Sample 68: treated with frankincense oil for 1 hr
Sample type RNA
 
Source name Bladder transitional cell carcinoma J82 was obtained from ATCC (HTB-1; Manassas, VA)
Organism Homo sapiens
Characteristics J86 cell line treated with frankincense oil for 1 hr
Biomaterial provider HK Lin
Treatment protocol Cells untreated or Cells treated with 1/1000 dilution of frankincense oil (Young Living EWssential Oil, Lehi, Utah) for 1 hr prior to RNA extraction
Growth protocol J82 cells were maintained MEM medium supplemented with 10% FBS, 0.1 mM non-essential amino acids, 1 mM sodium pyruvate, 2% MEM vitamin solution, and 100 units/ml penicillin-, and 100 µg/ml streptomycin.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated at 0 hours (no treatment) or and at 0.5, 1, 2, and 3 hours following exposure to frankincense oil using RNeasy® Mini total RNA isolation kit based on manufacture’s procedures.
Label Cy3
Label protocol 250 ng of RNA from a single cell culture from each time point was labeled using the Illumina Total Prep RNA Amplification Kit following manufacturer’s directions (Ambion, Austin. TX)
 
Hybridization protocol cRNA was hybridized overnight on Illumina human Ref-8 version 3 BeadChips. Microarray chips were washed to high stringency and labeled with streptavidin -Cy3 (Amersham Biosciences, Piscataway, NJ) prior to scanning on an Illumina BeadArray Reader.
Scan protocol Microarrays were scanned on an Illumina BeadArray Reader.
Description None
Data processing Initial intensity values were obtained using with Illumina Bead Studio software with background subtraction. For normalization, negative values were replaced with 1, and all values were quantile normalized using Matlab software.
 
Submission date Dec 16, 2008
Last update date Feb 10, 2009
Contact name Bart Frank
E-mail(s) frank@omrf.org
Organization name OMRF
Street address 825 NE 13 St
City Oklahoma City
State/province OK
ZIP/Postal code 73103
Country USA
 
Platform ID GPL6883
Series (1)
GSE14002 J82 human bladder cell line treated with frankincense oil

Data table header descriptions
ID_REF
VALUE quantile normalized value

Data table
ID_REF VALUE
ILMN_1809034 183.67708
ILMN_1660305 286.0477
ILMN_1762337 1
ILMN_2055271 3.4438716
ILMN_1814316 1
ILMN_2359168 1
ILMN_1731507 1
ILMN_1787689 8.1958202
ILMN_1745607 1
ILMN_2136495 1
ILMN_1668111 1
ILMN_2295559 1
ILMN_1735045 1
ILMN_1680754 9.2689134
ILMN_2375184 1.6101164
ILMN_1659452 7.5073768
ILMN_1767388 1
ILMN_1675204 1
ILMN_1673870 0.25401172
ILMN_1755321 52.295084

Total number of rows: 24526

Table truncated, full table size 507 Kbytes.




Supplementary file Size Download File type/resource
GSM351686.txt.gz 207.5 Kb (ftp)(http) TXT
Processed data included within Sample table

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