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Sample GSM2645911 Query DataSets for GSM2645911
Status Public on Sep 06, 2017
Title NMuMG-ErbB2/VC_PBS_2
Sample type RNA
Source name lung metastasis, control, PBS
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 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
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
VALUE log2 GC-RMA signal

Data table
ERCCmix1step1 5.475649224
ERCCmix1step10 4.70951089
ERCCmix1step11 7.1373612
ERCCmix1step12 3.726634519
ERCCmix1step13 4.098581391
ERCCmix1step14 5.142007669
ERCCmix1step15 4.322981066
ERCCmix1step16 3.437390952
ERCCmix1step17 4.479352506
ERCCmix1step18 4.528673792
ERCCmix1step19 5.672261211
ERCCmix1step2 6.976712235
ERCCmix1step20 4.562092075
ERCCmix1step21 6.472001807
ERCCmix1step22 7.58500548
ERCCmix1step3 5.408976268
ERCCmix1step4 4.735837471
ERCCmix1step5 4.866400205
ERCCmix1step6 3.314783529
ERCCmix1step7 5.128306134

Total number of rows: 28815

Table truncated, full table size 860 Kbytes.

Supplementary file Size Download File type/resource
GSM2645911_45_JPS097C07C07_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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