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Sample GSM2645900 Query DataSets for GSM2645900
Status Public on Sep 06, 2017
Title NMuMG-ErbB2/PGC-1alpha_PBS_2
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 5.447524269
ERCCmix1step10 4.706055219
ERCCmix1step11 7.009272911
ERCCmix1step12 3.675372466
ERCCmix1step13 4.094482472
ERCCmix1step14 4.899634164
ERCCmix1step15 4.278513976
ERCCmix1step16 3.422136249
ERCCmix1step17 4.216141859
ERCCmix1step18 4.505496849
ERCCmix1step19 6.072918097
ERCCmix1step2 6.898728598
ERCCmix1step20 4.613673227
ERCCmix1step21 6.922458613
ERCCmix1step22 8.125382527
ERCCmix1step3 5.217665776
ERCCmix1step4 5.272524476
ERCCmix1step5 5.013802159
ERCCmix1step6 3.158498632
ERCCmix1step7 5.22029848

Total number of rows: 28815

Table truncated, full table size 861 Kbytes.




Supplementary file Size Download File type/resource
GSM2645900_22_JPS086B08B08_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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