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Sample GSM417744 Query DataSets for GSM417744
Status Public on Feb 15, 2010
Title TM 93 treated with Dex at 1uM, rep A
Sample type RNA
 
Source name TM 93 treated with Dex at 1uM
Organism Homo sapiens
Characteristics cell type: human trabecular meshwork cells
cell line: TM 93
Treatment protocol TM 86 and TM 93 cells were treated with Dex, FA, and TA at 1 uM or 0.1% DMSO v/v as vehicle control .
Growth protocol TM 86 and TM 93 cells were maintained in low glucose DMEM medium supplemented with 10% FBS and antibiotics.
Extracted molecule total RNA
Extraction protocol RNA was isolated from flash frozen cell culture plates using RNeasy Mini columns (Qiagen, Valencia, CA) according to the manufacturer's protocol. There were three biological replicates per treatment condition.
Label Cy3
Label protocol 500 ng of total RNA from each RNA sample was amplified and labeled with a fluorescent dye (Cy3) using the Low RNA Input Linear Amplification Labeling kit (Agilent Technologies, Palo Alto, CA, USA) following the manufacturer's protocol.
 
Hybridization protocol An equal amount of Cy3-labeled cRNA (1.6 g) was hybridized to the Agilent Human Whole Genome Oligo Microarray (Agilent Technologies) for 17 hours, prior to washing and scanning.
Scan protocol Data were extracted from scanned images using Agilent's Feature Extraction Software (Agilent Technologies) using default settings.
Description 2/15/08 TM 93 p4 Dex A 24 hr
Data processing Gene expression data were loaded into the Rosetta Resolver® Gene Expression Analysis System version 7.1.0.1.11. Data from three biological replicate hybridizations were combined using an error-weighted average and the following criteria was used to identify differentially expressed transcripts: a log ratio p-value < 0.001, and a log(10) intensity measurement > -1.8.
 
Submission date Jun 16, 2009
Last update date Feb 15, 2010
Contact name Alissar Nehme
E-mail(s) nehme_alissar@allergan.com
Organization name Allergan Inc.
Street address 2525 Dupont Drive
City Irvine
State/province CA
ZIP/Postal code 92612
Country USA
 
Platform ID GPL6480
Series (1)
GSE16643 Effect of glucocorticoid chemical structure and receptor potency on human trabecular meshwork cells

Data table header descriptions
ID_REF
VALUE Normalized signal intensity
Error
Background
P-value
Data Control
Fail Code(s)
Flagged

Data table
ID_REF VALUE Error Background P-value Data Control Fail Code(s) Flagged
A_23_P100001 424.09329 42.68549 7.03562 5.12391E-23 No OK No
A_23_P100011 410.91840 41.39750 7.07415 5.83094E-23 No OK No
A_23_P100022 17.60214 5.76465 4.35194 0.01692 No OK No
A_23_P100056 141.84039 15.14529 5.78857 1.02336E-19 No OK No
A_23_P100074 11199.34961 1119.94702 7.76306 8.00648E-24 No OK No
A_23_P100092 226.96040 23.20822 6.02065 6.61618E-22 No OK No
A_23_P100103 658.45453 66.03168 7.00320 2.28933E-23 No OK No
A_23_P100111 323.57349 32.72328 5.41387 1.19039E-22 No OK No
A_23_P100127 30.63003 5.98962 7.86152 0.00001 No OK No
A_23_P100133 321.74649 32.58764 5.91426 1.38724E-22 No OK No
A_23_P100141 1027.40796 102.86810 4.21536 1.45971E-23 No OK No
A_23_P100156 1367.86304 136.89310 8.03865 1.22383E-23 No OK No
A_23_P100177 51.09658 7.30535 6.42293 1.93339E-10 No OK No
A_23_P100189 114.10530 12.42650 8.02014 1.06426E-18 No OK No
A_23_P100196 2247.30200 224.81010 5.85304 1.00492E-23 No OK No
A_23_P100203 6845.06201 684.52789 6.16461 8.27419E-24 No OK No
A_23_P100220 139.39861 14.86422 7.42397 9.67856E-20 No OK No
A_23_P100240 8.33401 5.53577 5.22687 0.29618 No OK No
A_23_P10025 11.14446 4.93823 7.33553 0.12114 No OK No
A_23_P100263 19802.75000 1980.28101 6.25661 7.83380E-24 No OK No

Total number of rows: 41088

Table truncated, full table size 2365 Kbytes.




Supplementary file Size Download File type/resource
GSM417744.txt.gz 8.9 Mb (ftp)(http) TXT
Processed data included within Sample table

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