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Sample GSM2645921 Query DataSets for GSM2645921
Status Public on Sep 06, 2017
Title LMTV_NMuMG-ErbB2/VC_ctrl_1
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
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
VALUE log2 GC-RMA signal

Data table
ERCCmix1step1 5.52351651
ERCCmix1step10 4.776566181
ERCCmix1step11 5.987783959
ERCCmix1step12 4.125380915
ERCCmix1step13 4.832844613
ERCCmix1step14 5.565333103
ERCCmix1step15 4.19553597
ERCCmix1step16 3.633659802
ERCCmix1step17 4.284725254
ERCCmix1step18 4.629359766
ERCCmix1step19 6.064885587
ERCCmix1step2 5.835042153
ERCCmix1step20 4.153193354
ERCCmix1step21 6.91311674
ERCCmix1step22 8.106606572
ERCCmix1step3 5.478004016
ERCCmix1step4 5.23912901
ERCCmix1step5 5.564830812
ERCCmix1step6 2.915781844
ERCCmix1step7 5.016422627

Total number of rows: 28815

Table truncated, full table size 860 Kbytes.

Supplementary file Size Download File type/resource
GSM2645921_15.1_JPS049-3_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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