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Sample GSM126900 Query DataSets for GSM126900
Status Public on Feb 10, 2007
Title Cornea Sample 3
Sample type RNA
Source name Fresh human cornea
Organism Homo sapiens
Characteristics This sample comprises of RNA isolated from human cornea pooled from a mixed population of (age, sex and cause of death identified). Tissue was send to us by the National Disease Resource Center (NDRI);
Biomaterial provider National Disease Resource Center (NDRI), Philadelphia, USA.
Treatment protocol None. Fresh tissue from donor, post mortem
Growth protocol N/A Fresh tissue
Extracted molecule total RNA
Extraction protocol Epithelial sheets were manually transferred from the Dispase solution directly into lysis buffer, total RNA was isolated using the RNeasy minikit (Qiagen Inc., Valencia, CA) and was further purified using RNeasy (Qiagen) spin columns. RNA was suspended in RNase-Free water at a concentration of 1.5 ug/ul
Label Biotin-labled cRNA
Label protocol Biotin labeled cRNA using the ENZO RNA transcript labeling Kit 9 (BioArray High Yeald Labeling Kit, P/N 900182). IVT cRNA cleanup and quantitation, cRNA fragmentation, control targets performed according to Affymetrix protocols. Synthesis of cDNA using T7-(dT)24 Primer (Genset Corp) and Superscript Choice System (Gibco BRL Life technologies).
Hybridization protocol Hybridization cocktail made according to Affymetrix protocols. Heated to 99C and then heat block for 5 mins at 45oC. Incubate probe array with 1X hybridization buffer (MES, 1M [Na], 20mM EDTA, 0.01% Tween) for 10 mins 45oC. Hybridize for 16 h 45oC using final volume of 200ul. For washing use GeneChip Fluidics Station 450 using fluidics protocol EukGE-WS2v4. Hybridized microarrays were stained with a strepavidin-phycoerythrin (SAPE) reagent.
Scan protocol Hybridized microarrays were stained with a strepavidin-phycoerythrin (SAPE) reagent and fluorescence images were captured using an Agilent G2500A laser scanner.
Description Standard Affymetrix protocols performed
Data processing Microarray Analysis Suite, version 5.0 (MAS 5.0; Affymetrix)
Submission date Aug 10, 2006
Last update date Aug 15, 2006
Contact name Jose Mario Wolosin
Phone 212 241 8980
Organization name Mount Sinai School of Medicine
Department Ophthalmology
Lab 22-76
Street address 1 Gustave L. Levy Place
City New York
State/province NY
ZIP/Postal code 10029
Country USA
Platform ID GPL96
Series (1)
GSE5543 Gene Expression in Human Conjunctiva and Cornea

Data table header descriptions
VALUE Co3 SI values

Data table
AFFX-BioB-5_at 117
AFFX-BioB-M_at 216
AFFX-BioB-3_at 122
AFFX-BioC-5_at 489
AFFX-BioC-3_at 640
AFFX-BioDn-5_at 188
AFFX-BioDn-3_at 1306
AFFX-CreX-5_at 4551
AFFX-CreX-3_at 5647
AFFX-DapX-5_at 973
AFFX-DapX-M_at 6098
AFFX-DapX-3_at 6619
AFFX-LysX-5_at 6592
AFFX-LysX-M_at 9478
AFFX-LysX-3_at 8051
AFFX-PheX-5_at 13
AFFX-PheX-M_at 23
AFFX-PheX-3_at 8
AFFX-ThrX-5_at 158
AFFX-ThrX-M_at 558

Total number of rows: 22283

Table truncated, full table size 308 Kbytes.

Supplementary data files not provided

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