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Sample GSM126877 Query DataSets for GSM126877
Status Public on Feb 10, 2007
Title Conjunctiva Sample 1
Sample type RNA
 
Source name Fresh Human Conjunctiva
Organism Homo sapiens
Characteristics This sample comprises of RNA isolated from human conjunctivae pooled from a mixed population of (age, sex and cause of death identified). Only Tissue was send to us by the National Disease Resource Center (NDRI).
Biomaterial provider National Disease Resource Center (NDRI)
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-labeled 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 This data was collected approx. 2 years ago. Affymetrix protocols described.
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
E-mail(s) jose.wolosin@mssm.edu
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
ID_REF
VALUE Cnj1 SI values

Data table
ID_REF VALUE
AFFX-BioB-5_at 60
AFFX-BioB-M_at 96
AFFX-BioB-3_at 84
AFFX-BioC-5_at 361
AFFX-BioC-3_at 258
AFFX-BioDn-5_at 2366
AFFX-BioDn-3_at 5067
AFFX-CreX-5_at 3724
AFFX-CreX-3_at 4991
AFFX-DapX-5_at 2304
AFFX-DapX-M_at 5337
AFFX-DapX-3_at 6570
AFFX-LysX-5_at 6417
AFFX-LysX-M_at 9012
AFFX-LysX-3_at 6913
AFFX-PheX-5_at 2
AFFX-PheX-M_at 3
AFFX-PheX-3_at 10
AFFX-ThrX-5_at 1102
AFFX-ThrX-M_at 1600

Total number of rows: 22283

Table truncated, full table size 308 Kbytes.




Supplementary data files not provided

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