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Sample GSM2645906 Query DataSets for GSM2645906
Status Public on Sep 06, 2017
Title NMuMG-ErbB2/VC_Phenformin2
Sample type RNA
 
Source name lung metastasis, control, Phenformin
Organism Mus musculus
Characteristics tissue: metastasis lung tissue
cell line: NMuMG-ErbB2/VC (control)
Treatment protocol lung were perfused with 50% optimal cutting temperature solution, diluted in PBS and removed and embedded in OCT at -80degC
Growth protocol lung metastasis from mice treated with phenformin or PBS was extracted by laser capture microdissection (LCM) from slides
Extracted molecule total RNA
Extraction protocol Lung metastasis RNA was isolated using LCM and pico RNA kit.
Label pico RNA 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 expression data of lung metastatic tissue from mice injected with control cells, treated with phenformin
Data processing Bioconductor Oligo R package. 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)
GSE99555 Expression data from lung metastasis
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 5.164657617
ERCCmix1step10 4.692355344
ERCCmix1step11 7.051844695
ERCCmix1step12 3.711442416
ERCCmix1step13 3.931074747
ERCCmix1step14 4.742780348
ERCCmix1step15 4.244798312
ERCCmix1step16 3.666639363
ERCCmix1step17 4.338008278
ERCCmix1step18 4.278386037
ERCCmix1step19 5.536320855
ERCCmix1step2 6.796163203
ERCCmix1step20 4.512599156
ERCCmix1step21 5.995625978
ERCCmix1step22 7.08920567
ERCCmix1step3 5.15844388
ERCCmix1step4 4.850033679
ERCCmix1step5 4.96056588
ERCCmix1step6 3.327452485
ERCCmix1step7 4.856314199

Total number of rows: 28815

Table truncated, full table size 860 Kbytes.




Supplementary file Size Download File type/resource
GSM2645906_32_JPS092C02C02_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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