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Sample GSM289473 Query DataSets for GSM289473
Status Public on Oct 01, 2008
Title Celiac Disease Sample 2_CAP162542
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 2_CAP162542
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 4.394350482001694
ILMN_1660305 4.707607281116973
ILMN_1792173 4.554697109727105
ILMN_1762337 4.137190714710197
ILMN_1736007 4.202517699051267
ILMN_1731507 4.130639248320741
ILMN_1745607 4.045140902507716
ILMN_1757454 4.279296011264597
ILMN_1735045 4.357182427552601
ILMN_1680754 4.357866982922611
ILMN_1659452 4.171278851159298
ILMN_1767388 4.690055340110503
ILMN_1673870 4.102142906461235
ILMN_1675204 4.197796997767181
ILMN_1755321 4.4981172153138225
ILMN_1698554 4.702217242134435
ILMN_1805938 4.14364271385945
ILMN_1676336 4.533735992000747
ILMN_1752884 4.205086791171268
ILMN_1809959 4.234495581604323

Total number of rows: 18981

Table truncated, full table size 574 Kbytes.




Supplementary file Size Download File type/resource
GSM289473_2_CAP162542.txt.gz 176.0 Kb (ftp)(http) TXT
Processed data included within Sample table

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