NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2865619 Query DataSets for GSM2865619
Status Public on Mar 13, 2018
Title Adjacent non tumoral liver tissue from N°1931
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 5.398494366
100009600_at 3.751589448
100009609_at 2.036843632
100009614_at 2.670727915
100009664_at 2.82021382
100012_at 3.545991365
100017_at 5.973938353
100019_at 5.49009063
100033459_at 2.410161161
100034251_at 7.922354751
100034729_at 4.127497533
100034739_at 3.446839257
100034748_at 3.526922623
100036518_at 2.186562026
100036520_at 3.675391116
100036521_at 5.235286006
100036523_at 5.896896762
100036537_at 2.903974424
100036768_at 4.177650857
100037258_at 10.18352202

Total number of rows: 24479

Table truncated, full table size 515 Kbytes.




Supplementary file Size Download File type/resource
GSM2865619_6_A93_NT_MoGene-2_0-st_.CEL.gz 8.2 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap