NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM3395632 Query DataSets for GSM3395632
Status Public on Nov 28, 2018
Title RJ324_PMT3_aCGH
Sample type genomic
 
Channel 1
Source name mammary tumor (IGF-IR induced)
Organism Mus musculus
Characteristics tissue: primary mammary tumor
strain: FVB (MTB-IGFIR transgenic mouse)
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated from snap frozen tissue pieces using the Qiagen DNAeasy kit
Label Cy5
Label protocol DNA was prepared for array hybridisation using the Agilent Genomic DNA Enzymatic Labeling kit and labelled with Cy-5. Cy3-labelled genomic DNA extracted from mouse spleen was used as a common reference.
 
Channel 2
Source name Normal splenic DNA (reference)
Organism Mus musculus
Characteristics tissue: spleen
strain: C57Bl/6
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated from snap frozen tissue pieces using the Qiagen DNAeasy kit
Label Cy3
Label protocol DNA was prepared for array hybridisation using the Agilent Genomic DNA Enzymatic Labeling kit and labelled with Cy-5. Cy3-labelled genomic DNA extracted from mouse spleen was used as a common reference.
 
 
Hybridization protocol 2ug of sample and reference DNA were hybridised to Agilent 244K whole mouse genome CGH arrays (Agilent, G4415A). Samples were prepared using the direct method with hybridizization and microarray washing carried out according to the manufacturer’s protocol.
Scan protocol Scanned on an Agilent G2505C scanner
Data processing Agilent Feature Extraction Software (v 10.5.1.1) was used for background subtraction and LOWESS normalization.
 
Submission date Sep 19, 2018
Last update date Feb 27, 2019
Contact name Roger Moorehead
E-mail(s) rmoorehe@uoguelph.ca
Organization name University of Guelph
Department Biomedical Sciences
Street address 50 Stone Rd E
City Guelph
ZIP/Postal code N1G2W1
Country Canada
 
Platform ID GPL15076
Series (1)
GSE120186 Mammary Tissue: aCGH of primary (IGF-IR induced) and recurrent (IGF-IR independent) mammary tumors from MTB-IGFIR mice

Data table header descriptions
ID_REF
VALUE normalized log2 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
A_67_P04000012 -0.21434471
A_67_P04000019 -0.023760865
A_67_P04000027 -0.120222285
A_67_P04000032 0.20272994
A_67_P04000058 -0.085080326
A_67_P04000065 0.080777094
A_67_P04000071 0.021895656
A_67_P04000083 -0.35448945
A_67_P04000100 -0.12859373
A_67_P04000126 0.48425552
A_67_P04000143 0.13359706
A_67_P00000082 -0.8060882
A_67_P04000179 0.26755825
A_67_P04000184 0.08708388
A_67_P04000193 0.012749615
A_67_P04000207 0.03479483
A_67_P00000133 -0.06891448
A_67_P00000149 0.21143259
A_67_P04000256 0.098496564
A_67_P00000176 0.2304157

Total number of rows: 234018

Table truncated, full table size 6007 Kbytes.




Supplementary file Size Download File type/resource
GSM3395632_June25_251469515445_S01_CGH_105_Dec08.txt.gz 67.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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