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Sample GSM2645904 Query DataSets for GSM2645904
Status Public on Sep 06, 2017
Title NMuMG-ErbB2/PGC-1alpha_PBS_6
Sample type RNA
 
Source name lung metastasis, PGC1alpha, PBS
Organism Mus musculus
Characteristics tissue: metastasis lung tissue
cell line: NMuMG-ErbB2/PGC- 1alpha
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 PGC1alpha cells, treated with PBS
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 4.980319068
ERCCmix1step10 4.685070629
ERCCmix1step11 6.611161869
ERCCmix1step12 3.679693525
ERCCmix1step13 3.901060723
ERCCmix1step14 4.683603335
ERCCmix1step15 4.422213581
ERCCmix1step16 3.518312636
ERCCmix1step17 4.186368386
ERCCmix1step18 3.949123732
ERCCmix1step19 5.634640729
ERCCmix1step2 6.937124927
ERCCmix1step20 4.219750401
ERCCmix1step21 6.153144543
ERCCmix1step22 7.56711949
ERCCmix1step3 5.540557983
ERCCmix1step4 4.625789631
ERCCmix1step5 4.977176316
ERCCmix1step6 3.498972778
ERCCmix1step7 5.170526767

Total number of rows: 28815

Table truncated, full table size 860 Kbytes.




Supplementary file Size Download File type/resource
GSM2645904_27_JPS090B12B12_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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