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Sample GSM2645923 Query DataSets for GSM2645923
Status Public on Sep 06, 2017
Title LMTV_NMuMG-ErbB2/VC_ctrl_3
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 5.416301351
ERCCmix1step10 4.663912274
ERCCmix1step11 5.917394074
ERCCmix1step12 4.133415105
ERCCmix1step13 4.782679537
ERCCmix1step14 5.456012313
ERCCmix1step15 4.065448783
ERCCmix1step16 3.858189582
ERCCmix1step17 4.277982534
ERCCmix1step18 4.308504026
ERCCmix1step19 5.785523393
ERCCmix1step2 6.177089259
ERCCmix1step20 4.358591865
ERCCmix1step21 6.546666141
ERCCmix1step22 7.892074577
ERCCmix1step3 5.39556956
ERCCmix1step4 4.949930227
ERCCmix1step5 5.3778279
ERCCmix1step6 3.049675483
ERCCmix1step7 4.862200337

Total number of rows: 28815

Table truncated, full table size 861 Kbytes.




Supplementary file Size Download File type/resource
GSM2645923_15.3_JPS051-3_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

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