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Sample GSM4306795 Query DataSets for GSM4306795
Status Public on Feb 12, 2020
Title 20_02_2013_F05_E32.CEL SSc
Sample type RNA
 
Source name whole blood
Organism Homo sapiens
Characteristics tissue: blood
disease state: SSc
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using a PAXGene Blood RNA kit (PreAnalytiX GmbH) according to the manufacturer’s instructions.
Label biotin
Label protocol Gene expression analysis was performed using the Thermo Fischer Scientific Human Genome U219 96-array plate. To process the RNA samples, we used the Beckman Biomek FX TPE System (Beckman Coulter Inc., Indianapolis) by the manufacturer HT-IVT express 2.0.6 standard protocol from Thermo Fischer Scientific.
 
Hybridization protocol RNA was hybridized and scanned to the Human Genome U219 96-array plate using the GeneTitanR instrument (Thermo Fischer Scientific).
Scan protocol RNA was hybridized and scanned to the Human Genome U219 96-array plate using the GeneTitanR instrument (Thermo Fischer Scientific).
Description Gene expression data of SSc patients compared to healthy controls
Data processing All statistical analyses were carried out using the R system for statistical computing, version 3.2.3, whereas support vector machines (SVM) were trained and evaluated using the R package 'e1071', version 1.6-8. We used Ingenuity pathway analysis (IPA) to collect more information about signaling pathways, networks and gene functions
 
Submission date Feb 11, 2020
Last update date Feb 12, 2020
Contact name Pia Moinzadeh
E-mail(s) pia.moinzadeh@uk-koeln.de
Organization name University of Cologne
Street address Kerpener Str 62
City Cologne
ZIP/Postal code 50937
Country Germany
 
Platform ID GPL13667
Series (1)
GSE145120 Gene expression data of different SSc subsets

Data table header descriptions
ID_REF
VALUE normalized signal intensity

Data table
ID_REF VALUE
11715100_at 2.382884103
11715101_s_at 2.679464929
11715102_x_at 2.69257286
11715103_x_at 3.290456482
11715104_s_at 2.346068231
11715105_at 2.170812443
11715106_x_at 1.886365748
11715107_s_at 2.652235611
11715108_x_at 1.998675023
11715109_at 1.56192713
11715110_at 3.845799351
11715111_s_at 4.636171099
11715112_at 2.082146961
11715113_x_at 2.7988601
11715114_x_at 3.352170102
11715115_s_at 2.226710124
11715116_s_at 1.946606496
11715117_x_at 1.674834902
11715118_s_at 2.451940777
11715119_s_at 2.290704657

Total number of rows: 49386

Table truncated, full table size 1226 Kbytes.




Supplementary file Size Download File type/resource
GSM4306795_20_02_2013_F05_E32.CEL.gz 1.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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