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Sample GSM2645920 Query DataSets for GSM2645920
Status Public on Sep 06, 2017
Title LMTV_NMuMG-ErbB2/PGC-1alpha_phenformin_3
Sample type RNA
Source name LMTV, PGC1alpha, phenformin 4 days
Organism Mus musculus
Characteristics cell line: LMTV_NMuMG-ErbB2/PGC- 1alpha
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 PGC1alpha 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
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 5.267607792
ERCCmix1step10 4.720784476
ERCCmix1step11 5.86950662
ERCCmix1step12 3.90454241
ERCCmix1step13 4.799904259
ERCCmix1step14 5.523036661
ERCCmix1step15 3.93941877
ERCCmix1step16 3.481716439
ERCCmix1step17 4.133971933
ERCCmix1step18 4.613978086
ERCCmix1step19 6.170655862
ERCCmix1step2 5.878029712
ERCCmix1step20 4.304232661
ERCCmix1step21 6.817365288
ERCCmix1step22 8.081940538
ERCCmix1step3 5.354417014
ERCCmix1step4 4.91207258
ERCCmix1step5 4.938536401
ERCCmix1step6 2.676942737
ERCCmix1step7 5.036236908

Total number of rows: 28815

Table truncated, full table size 861 Kbytes.

Supplementary file Size Download File type/resource
GSM2645920_5.6_JPS048-3_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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