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Sample GSM2865621 Query DataSets for GSM2865621
Status Public on Mar 13, 2018
Title Adjacent non tumoral liver tissue from N°81
Sample type RNA
 
Source name Non tumoral adjacent liver
Organism Mus musculus
Characteristics tissue: Liver
age: 16 months
gender: male
Treatment protocol Mutant mice were obtained by breeding Axin1 fl/fl mice with mice expressing Cre recombinase in embryonic hepatocytes (Alfp-Cre). Axin1-/- mice develop liver tumors after 9 months
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol 50 ng of total RNA is reverse transcribed following the Ovation PicoSL WTA System V2 (Nugen). Briefly, the resulting double strand cDNA is used for amplification based on SPIA technology. After purification according to Nugen protocol, 2.5 ug of single strand DNA is used for fragmentation and biotin labelling using Encore Biotin Module (Nugen).
 
Hybridization protocol biotynilated single stranded sense cDNA is then hybridized to GeneChip® Mouse Gene2.0 (Affymetrix) at 45°C for 17 hours
Scan protocol After overnight hybridization, chips are washed on the fluidic station FS450 following specific protocols (Affymetrix) and scanned using the GCS3000 7G
Description Gene expression data
Data processing Data were normalized using RMA and statistical analysis was realized on Partek Genomics Suite. CDF file V18 was used for annotation. We ve used the custom CDF file from BrainArray : mogene20st_Mm_ENTREZG V18.
 
Submission date Nov 27, 2017
Last update date Mar 13, 2018
Contact name Franck Letourneur
E-mail(s) franck.letourneur@inserm.fr
Organization name INSERM
Department U1016
Lab genomic
Street address 22 rue mechain
City Paris
ZIP/Postal code 75014
Country France
 
Platform ID GPL18802
Series (1)
GSE107374 Expression data from mouse hepatocellular carcinomas developed in Axin1 hepatocyte deleted mice

Data table header descriptions
ID_REF
VALUE Log2-RMA signal

Data table
ID_REF VALUE
100008567_at 5.278748583
100009600_at 3.682678351
100009609_at 2.065571188
100009614_at 2.59211911
100009664_at 3.103288978
100012_at 3.605128636
100017_at 5.711243266
100019_at 5.507180756
100033459_at 3.03830201
100034251_at 8.238689397
100034729_at 3.875513683
100034739_at 3.271400627
100034748_at 3.476645276
100036518_at 2.308458849
100036520_at 3.525975589
100036521_at 4.983717746
100036523_at 5.892060238
100036537_at 3.131238779
100036768_at 3.754304661
100037258_at 10.22319586

Total number of rows: 24479

Table truncated, full table size 515 Kbytes.




Supplementary file Size Download File type/resource
GSM2865621_8_A81_NT_MoGene-2_0-st_.CEL.gz 8.0 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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