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Sample GSM304393 Query DataSets for GSM304393
Status Public on Oct 02, 2009
Title blood_responder_patient1
Sample type RNA
 
Source name Rheumatoid arthritis patient, whole blood, at 8:30-9:30 morning
Organism Homo sapiens
Characteristics disease state: responder
gender: female
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 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 6.41265051373227
GI_10047091-S 6.78838502996101
GI_10047093-S 6.93901120339727
GI_10047099-S 6.5649784733947
GI_10047103-S 9.25850253292417
GI_10047123-S 7.06083594956366
GI_10047133-I 6.81133015634498
GI_10092578-S 6.33062180664854
GI_10092585-S 6.84305846397438
GI_10092596-S 7.29524797613083
GI_10092600-S 6.95391415807198
GI_10092602-S 6.58276900783069
GI_10092611-A 8.0202460270249
GI_10092616-S 6.67574180350205
GI_10092618-S 9.60257267432906
GI_10092638-S 6.52576058704769
GI_10092658-S 6.70430285086841
GI_10092668-S 6.21349120735032
GI_10092672-S 7.34107882629376
GI_10190657-S 6.62220598922842

Total number of rows: 17454

Table truncated, full table size 521 Kbytes.




Supplementary file Size Download File type/resource
GSM304393.txt.gz 220.4 Kb (ftp)(http) TXT
Processed data included within Sample table

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