NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2645922 Query DataSets for GSM2645922
Status Public on Sep 06, 2017
Title LMTV_NMuMG-ErbB2/VC_ctrl_2
Sample type RNA
 
Source name LMTV, control,dh20
Organism Mus musculus
Characteristics cell line: LMTV_NMuMG-ErbB2/VC (control)
tissue: lung metastatis explants
Treatment protocol LMTV explants were treated with phenformin (100uM) or dh20 control for 4 days
Growth protocol LMTV explants were grown as described in this paper, materials and methods
Extracted molecule total RNA
Extraction protocol RNA from LMTV explants were isolated in tissue culture using an Aurum Total RNA Mini Kit.
Label Aurum Total RNA Mini Kit
Label protocol Sense-strand cDNA was synthesized from 10 ng of total RNA and fragmentation and labeling were performed to produce ds DNA with the GeneChip® Pico Labeling Kit according to manufacturer’s instructions (Applied Biosystems)
 
Hybridization protocol After fragmentation and labeling, 4 µg DNA target was hybridized on GeneChip® Mouse Clariom™ S (ThermoFisher) and incubated at 450C in the Genechip® Hybridization oven 640 (ThermoFisher) for 17 hours at 60 rpm
Scan protocol The microarrays were finally scanned on a GeneChip® scanner 3000 (ThermoFisher).
Description cell culture
expression data of explants from LMTV injections of mice injected with control cells. explants treated with dh20 control for 4 days
Data processing Bioconductor. The file 'normalized_data_allcontrols.txt' contains data for all probe sets including controls. The sample table does not include data for AFFX controls or *RPTR controls.
 
Submission date Jun 01, 2017
Last update date Jan 23, 2018
Contact name Julie St-Pierre
E-mail(s) julie.st-pierre@mcgill.ca
Organization name McGill University
Department Department of Biochemistry
Street address 3655 Promenade Sir William Osler
City Montreal
State/province Quebec
ZIP/Postal code H3G 1Y6
Country Canada
 
Platform ID GPL23038
Series (2)
GSE99556 Expression data from lung metastatic explants
GSE99557 Expression data from a lung metastatic cell line or metastatic explants in mouse and human

Data table header descriptions
ID_REF
VALUE log2 GC-RMA signal

Data table
ID_REF VALUE
ERCCmix1step1 4.947670916
ERCCmix1step10 4.893064171
ERCCmix1step11 5.969067195
ERCCmix1step12 4.177009998
ERCCmix1step13 4.981795386
ERCCmix1step14 5.412234749
ERCCmix1step15 3.98877979
ERCCmix1step16 3.567651613
ERCCmix1step17 4.430485208
ERCCmix1step18 4.72799942
ERCCmix1step19 6.129391452
ERCCmix1step2 6.02537633
ERCCmix1step20 4.449762543
ERCCmix1step21 7.13737984
ERCCmix1step22 8.380283645
ERCCmix1step3 5.581058976
ERCCmix1step4 5.450485583
ERCCmix1step5 5.470773284
ERCCmix1step6 2.893231981
ERCCmix1step7 5.428521272

Total number of rows: 28815

Table truncated, full table size 860 Kbytes.




Supplementary file Size Download File type/resource
GSM2645922_15.2_JPS050-3_01.CEL.gz 1.1 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table
Processed data are available on Series record

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