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Sample GSM2537670 Query DataSets for GSM2537670
Status Public on Nov 11, 2017
Title 11I-CD-Active-Sigmoid-2
Sample type RNA
 
Source name Intestinal mucosa pinch biopsy
Organism Homo sapiens
Characteristics disease (uc = ulcerative colitis; cd = crohn's disease): CD
inflammation: Active
intestinal region: Sigmoid
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
 
Submission date Mar 15, 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)
GSE96665 Integrated analysis Of Biopsies From Inflammatory Bowel Disease Patients Identifies SAA1 As A Link Between Mucosal Microbes With TH17 And TH22 Cells [diseased 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 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.

Data table
ID_REF VALUE
1 17.52654702
2 5.731295392
3 5.865300501
4 10.97866687
5 9.206070383
6 9.77194537
7 13.2501792
8 13.96065314
9 12.92299219
10 8.241998421
11 5.803137825
12 12.8226189
13 11.35148984
14 12.34175236
15 12.47679846
16 6.267382415
17 7.529314696
18 9.029520173
19 8.835545757
20 10.39732958

Total number of rows: 62976

Table truncated, full table size 1089 Kbytes.




Supplementary file Size Download File type/resource
GSM2537670_US93503718_252800417818_S01_GE1_107_Sep09_2_4.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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