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Sample GSM3912471 Query DataSets for GSM3912471
Status Public on Aug 05, 2020
Title EGA4
Sample type RNA
 
Source name ob/ob EGA islets, biological replicate 4
Organism Mus musculus
Characteristics tissue: pancreatic islets
strain: C57Bl/6J
gender: male
Treatment protocol Pancreatic islets were isolated from lean (WT) mice or from ob/ob mice, 28 days after sham or EGA surgery.
Extracted molecule total RNA
Extraction protocol RNA was extracted using the miRNeasy kit (Qiagen), according to manufacturer guidelines.
Label Cy3
Label protocol Total RNA from each sample was amplified and transcribed into fluorescent Cyanine-3 (cy3) cRNA using the manufacturer’s Agilent’s Quick Amp Labeling protocol (version 5.7, Agilent Technologies).
 
Hybridization protocol The labeled cRNAs were hybridized onto the Whole Mouse Genome Oligo Microarray (4 x 44K, Agilent Technologies) based on the manufacturer’s standard protocols.
Scan protocol Slides were scanned immediately after washing on the Agilent Scanner G2505C.
Description Gene expression 28 days after EGA surgery
Data processing Agilent Feature Extraction software (version 11.0.1.1) was used to analyze acquired array images. Quantile normalization and subsequent data processing were performed using the GeneSpring GX v12.1 software (Agilent Technologies). After quantile normalization of the raw data, genes that at least 3 out of 6 samples have flags in Detected (“All Targets Value”) were chosen for further data analysis.
 
Submission date Jul 01, 2019
Last update date Aug 05, 2020
Contact name Claudiane Guay
E-mail(s) claudiane.guay@unil.ch
Phone +41216925281
Organization name University of Lausanne
Department DNF
Street address Du Bugnon 9
City Lausanne
State/province Vaud
ZIP/Postal code 1005
Country Switzerland
 
Platform ID GPL11202
Series (2)
GSE133577 Effects of entero-gastro-anastomosis (EGA) surgery in ob/ob mice on pancreatic islet gene expression
GSE133852 ob/ob mice on pancreatic islet

Data table header descriptions
ID_REF
VALUE log2 value of Normalized Intensity of each sample

Data table
ID_REF VALUE
A_55_P1989846 6.9917483
A_55_P2022211 8.120274
A_55_P1980764 5.9129553
A_55_P1964375 10.362037
A_51_P128876 8.9970045
A_55_P2121042 7.262908
A_51_P207591 4.6738462
A_55_P2131920 6.6378107
A_55_P2404223 8.207916
A_55_P2101944 16.851263
A_52_P358860 8.995902
A_51_P119031 10.2137375
A_51_P309854 7.1507044
A_51_P343900 11.264679
A_51_P234359 5.8347025
A_51_P487813 10.179463
A_52_P613977 9.66463
A_55_P2096028 3.9577565
A_55_P2052210 14.261338
A_51_P128987 9.045435

Total number of rows: 30398

Table truncated, full table size 686 Kbytes.




Supplementary file Size Download File type/resource
GSM3912471_EGA4.txt.gz 2.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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