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Sample GSM2549917 Query DataSets for GSM2549917
Status Public on Nov 11, 2017
Title control-149
Sample type RNA
 
Source name Intestinal mucosa pinch biopsy
Organism Homo sapiens
Characteristics disease state: non-IBD control
Extracted molecule total RNA
Extraction protocol Pinch biopsies were obtained at colonoscopy using sterile cold biopsy forceps and snap-frozen for RNA extraction in Trizol reagent (Invitrogen). RNA was isolated using chloroform purification and isopropanol extraction and purified using QIAgen Rneasy Mini Kit.
Label Cy3
Label protocol Labeling was performed with Cy3 according to the manufacturer protoocl for one color microarray based gene expression analysis (Agilent)
 
Hybridization protocol Equal amount of Cy3 labeled target was hybridized to Sureprint G3 Human GE 8x60k array (Agilent) for 15 hours according to the manufacturers protocol
Scan protocol Arrays were scanned using Agilent microarray scanner
Data processing Raw signal intensities were extracted with feature extraction v11.5 software
Expression intensities were background corrected using the normal plus exponential convolutional method, followed by between-array quantile normalization in limma (version 3.26.9), resulting in log2-transformed intensity values.
 
Submission date Mar 24, 2017
Last update date Nov 12, 2017
Contact name Mei San Tang
Organization name Washington University in St Louis
Department Pathology & Immunology
Street address 660 S Euclid, Campus Box 8118
City Saint Louis
State/province MO
ZIP/Postal code 63108
Country USA
 
Platform ID GPL13607
Series (2)
GSE97011 Genome wide transcriptional profiles of biopsies collected from non-IBD control subjects
GSE97012 Integrated Analysis Of Biopsies From Inflammatory Bowel Disease Patients Identifies SAA1 As A Link Between Mucosal Microbes With TH17 And TH22 Cells

Data table header descriptions
ID_REF
VALUE log2 normalized signal

Data table
ID_REF VALUE
1 14.3763957250413
2 3.17934428764925
3 4.05918734299626
4 8.02515835190859
5 6.15844445560303
6 5.61589971820278
7 10.5537036506361
8 7.03060240395798
9 12.88335106015
10 5.52888568447599
11 3.77099189935941
12 11.1166710603025
13 8.83155258195204
14 5.73203961243496
15 8.70794595985499
16 3.47196589232271
17 6.74151273082088
18 3.869328949531
19 3.60086707373506
20 8.58253810702865

Total number of rows: 62976

Table truncated, full table size 1395 Kbytes.




Supplementary file Size Download File type/resource
GSM2549917_149.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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