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Sample GSM304411 Query DataSets for GSM304411
Status Public on Oct 02, 2009
Title blood_responder_patient10
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 6.47732841688961
GI_10047091-S 6.58130639139181
GI_10047093-S 7.1228683340073
GI_10047099-S 6.35327489890239
GI_10047103-S 8.3049441108916
GI_10047123-S 7.28604719881578
GI_10047133-I 6.59407941247594
GI_10092578-S 6.60178480436814
GI_10092585-S 6.65384940513889
GI_10092596-S 8.56620838006565
GI_10092600-S 7.02944378740395
GI_10092602-S 6.52239473356177
GI_10092611-A 8.42146008305981
GI_10092616-S 6.61762479837432
GI_10092618-S 9.4018919983249
GI_10092638-S 6.5786536625924
GI_10092658-S 6.29095468414572
GI_10092668-S 6.42977111253208
GI_10092672-S 6.89650080974598
GI_10190657-S 6.47493350008584

Total number of rows: 17454

Table truncated, full table size 521 Kbytes.




Supplementary file Size Download File type/resource
GSM304411.txt.gz 212.9 Kb (ftp)(http) TXT
Processed data included within Sample table

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