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Sample GSM2645924 Query DataSets for GSM2645924
Status Public on Sep 06, 2017
Title LMTV_NMuMG-ErbB2/VC_phenformin_1
Sample type RNA
 
Source name LMTV, control,phenformin 4 days
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 phenformin 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 5.273164484
ERCCmix1step10 4.727021417
ERCCmix1step11 5.772285403
ERCCmix1step12 4.044561563
ERCCmix1step13 4.561201297
ERCCmix1step14 5.22869164
ERCCmix1step15 3.989752261
ERCCmix1step16 3.403257226
ERCCmix1step17 4.221418441
ERCCmix1step18 4.415212708
ERCCmix1step19 5.833442753
ERCCmix1step2 5.902732671
ERCCmix1step20 4.126821635
ERCCmix1step21 6.647840385
ERCCmix1step22 7.885451534
ERCCmix1step3 5.398688159
ERCCmix1step4 4.881429925
ERCCmix1step5 4.782068531
ERCCmix1step6 2.900078887
ERCCmix1step7 4.855166784

Total number of rows: 28815

Table truncated, full table size 861 Kbytes.




Supplementary file Size Download File type/resource
GSM2645924_15.4_JPS052-3_01.CEL.gz 1.2 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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