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Sample GSM304391 Query DataSets for GSM304391
Status Public on Oct 02, 2009
Title blood_nonresponder_patient6
Sample type RNA
 
Source name Rheumatoid arthritis patient, whole blood, at 8:30-9:30 morning
Organism Homo sapiens
Characteristics disease state: nonresponder
gender: male
tissue: whole blood
treatment stage: baseline (prior infliximab infusion)
Treatment protocol Paxgene tube conservation at -80ºC
Extracted molecule total RNA
Extraction protocol Whole blood RNA was extracted from whole blood preserved in Paxgene tubes using the PAXgene RNA Isolation kit (Qiagen)
Label Biotin
Label protocol Biotin labeled cRNA preparation for the Illumina platform was performed using the Ambion(r) Illumina RNA amplification kit (Ambion Europe, Huntington, Cambridgeshire, UK).
 
Hybridization protocol Biotin labeled cRNA (1.5ug) was hybridized to Sentrix(r) whole genome bead chips 6 x 2 (Illumina, San Diego, CA, USA)
Scan protocol Scanning was performed on the Illumina(r) BeadStation 500x.
Description Whole blood RNA, Infliximab non-responder
Data processing Log2 transformation of BeadStudio raw data, gene filtering of Beadchip version2 RefSeq valid probes, quantile normalization using R.
 
Submission date Jul 09, 2008
Last update date Mar 29, 2010
Contact name Antonio Julià
E-mail(s) toni.julia@vhir.org
Phone +34 934029082
Organization name Vall d'Hebron Hospital Research Institute
Department Rheumatology Research Group
Lab Rheumatology Research Group
Street address c/ Baldiri Reixac nº15
City Barcelona
State/province Barcelona
ZIP/Postal code 08028
Country Spain
 
Platform ID GPL2507
Series (1)
GSE12051 Microarray predictor of response to infliximab in rheumatoid arthritis (RA) patients

Data table header descriptions
ID_REF
VALUE Quantile normalized signal intensity

Data table
ID_REF VALUE
GI_10047089-S 6.41967187687054
GI_10047091-S 6.57964150732756
GI_10047093-S 7.00916503149773
GI_10047099-S 6.46519892632808
GI_10047103-S 9.02942007398573
GI_10047123-S 7.00370191390042
GI_10047133-I 6.56170602554977
GI_10092578-S 6.62685650807466
GI_10092585-S 6.65179264860272
GI_10092596-S 7.27655576542164
GI_10092600-S 7.03016309873475
GI_10092602-S 6.43720758792735
GI_10092611-A 7.65130575124033
GI_10092616-S 6.62867138579451
GI_10092618-S 9.2372043098732
GI_10092638-S 6.51496575337357
GI_10092658-S 6.2091701838718
GI_10092668-S 6.5274801917434
GI_10092672-S 7.44765655637512
GI_10190657-S 6.54487861104894

Total number of rows: 17454

Table truncated, full table size 521 Kbytes.




Supplementary file Size Download File type/resource
GSM304391.txt.gz 219.6 Kb (ftp)(http) TXT
Processed data included within Sample table

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