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Sample GSM289470 Query DataSets for GSM289470
Status Public on Oct 01, 2008
Title Celiac Disease Sample 3_CAP153242
Sample type RNA
 
Source name Total RNA from peripheral blood RNA.
Organism Homo sapiens
Characteristics disease state: Celiac Disease
tissue: Peripheral blood
Extracted molecule total RNA
Extraction protocol PAXgene Blood RNA isolation kit protocol (Qiagen, UK, 762174)
Label Cy3
Label protocol 2.5 ml of peripheral blood was collected into a PAXgene tube (Becton Dickinson, UK, 762165). PAXgene vials were chosen to prevent density gradient centrifugation, immortalization or in vitro cell culture artifacts changing mRNA profiles. PAXgene tubes were mixed gently and incubated at room temperature for two hours. After collection, tubes were frozen at -20 degrees Celsius for at least 24 hours followed by storage at -80 degrees Celsius. RNA was isolated using the PAXgene Blood RNA isolation kit (Qiagen, UK, 762174). RNA was quantified using the Nanodrop (Nanodrop Technologies, USA). Total RNA integrity was analyzed using an Agilent Bioanalyzer (Agilent Technologies, USA).
 
Hybridization protocol Complementary RNA was hybridized to Illumina HumanRef-8 v2 Whole Genome BeadChips
Scan protocol Illumina BeadArray Reader, data was handled through Illumina BeadStudio Gene Expression module v3
Description Celiac Disease Sample 3_CAP153242
Data processing Quantile-quantile normalization.
 
Submission date May 19, 2008
Last update date Mar 12, 2010
Contact name Graham Heap
E-mail(s) g.heap@qmul.ac.uk
Organization name QMUL
Street address 4 Newark Street
City London
ZIP/Postal code E1 2AT
Country United Kingdom
 
Platform ID GPL6104
Series (1)
GSE11501 Primary human leucocyte RNA expression of unrelated celiac disease cases and unrelated healthy controls.

Data table header descriptions
ID_REF
VALUE Quantile-quantile normalized ln expression intensity.

Data table
ID_REF VALUE
ILMN_1809034 4.390243627784612
ILMN_1660305 4.751449155741236
ILMN_1792173 4.8583770449290125
ILMN_1762337 3.9953276483276343
ILMN_1736007 4.107818872872386
ILMN_1731507 4.104972990552014
ILMN_1745607 4.193352971986044
ILMN_1757454 4.245459338875342
ILMN_1735045 4.275370212165144
ILMN_1680754 4.313053782302682
ILMN_1659452 4.082651856988637
ILMN_1767388 4.567681737421062
ILMN_1673870 4.094720251573467
ILMN_1675204 4.19071647446323
ILMN_1755321 4.458971328971971
ILMN_1698554 4.509903678070385
ILMN_1805938 4.170736945194387
ILMN_1676336 4.565125162610956
ILMN_1752884 4.095796233849064
ILMN_1809959 4.125653769847033

Total number of rows: 18981

Table truncated, full table size 574 Kbytes.




Supplementary file Size Download File type/resource
GSM289470_3_CAP153242.txt.gz 177.5 Kb (ftp)(http) TXT
Processed data included within Sample table

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