NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1199178 Query DataSets for GSM1199178
Status Public on Apr 21, 2014
Title BRAF-V600E melanoma_451Lu_parental_drug senstive
Sample type genomic
 
Channel 1
Source name 451Lu_drug sensitive
Organism Homo sapiens
Characteristics cell line: BRAF-V600E melanoma 451Lu cell line
genotype/variation: parental (drug sensitive)
tissue origin: lung metastasis
age: 24 hrs
Treatment protocol Drug resistant sublines were generated by chronic exposure to escaliting doses of trametinib
Growth protocol Melanoma cells are grown in DMEM + 5% FBS as previously described (Villanueva, et al. Cancer Cell. 2010 Dec 14;18(6):683-95 - PMID: 21156289)
Extracted molecule genomic DNA
Extraction protocol Cells were scrapped, pelleted, and genomic DNA extracted using Qiagen genomic DNA purification kit.
Label Cy5
Label protocol Experimental and Control DNA was labeled using Invitrogen's BioPrime Total for Agilent aCGH following standard labeling and purification protocol.
 
Channel 2
Source name reference sample
Organism Homo sapiens
Characteristics sample type: Female Control DNA from Promega
Treatment protocol Drug resistant sublines were generated by chronic exposure to escaliting doses of trametinib
Growth protocol Melanoma cells are grown in DMEM + 5% FBS as previously described (Villanueva, et al. Cancer Cell. 2010 Dec 14;18(6):683-95 - PMID: 21156289)
Extracted molecule genomic DNA
Extraction protocol Cells were scrapped, pelleted, and genomic DNA extracted using Qiagen genomic DNA purification kit.
Label Cy3
Label protocol Experimental and Control DNA was labeled using Invitrogen's BioPrime Total for Agilent aCGH following standard labeling and purification protocol.
 
 
Hybridization protocol Hybridization was performed following Agilent's Array-based CGH for Genomic DNA Analysis - Enzymatic Labeling protocol, using reagents supplied in the Agilent Oligo aCGH Hybridization Kit.
Scan protocol Scanned on an Agilent G2565CA scanner.
Description 451Lu
Data processing Agilent Feature Extraction Software (version 10.5.1.1) was used for background subtraction and linear normalization.
 
Submission date Aug 01, 2013
Last update date Apr 21, 2014
Contact name Katherine Nathanson
E-mail(s) knathans@exchange.upenn.edu
Organization name Perelman School of Medicine at the University of Pennsylvania
Street address 421 Curie Blvd
City Philadelphia
State/province PA
ZIP/Postal code 19103
Country USA
 
Platform ID GPL9777
Series (1)
GSE49430 Human BRAF-V600E melanoma cell lines drug sensitive vs drug resistant

Data table header descriptions
ID_REF
VALUE normalized log10 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
1 -8.277146903e-002
2 6.939755746e-001
3 0.000000000e+000
4 1.423289973e-002
5 -5.388420101e-001
6 -3.934843628e-003
7 -1.385204419e-001
8 1.338513736e-001
9 -5.371717144e-002
10 -1.079630911e-002
11 3.118513462e-001
12 5.441155311e-002
13 2.885133879e-001
14 4.329159085e-003
15 -5.449294128e-002
16 5.263084236e-002
17 -6.780229095e-002
18 9.664184216e-002
19 -2.343247047e-001
20 -1.072018836e-002

Total number of rows: 420288

Table truncated, full table size 9945 Kbytes.




Supplementary file Size Download File type/resource
GSM1199178_451Lu.txt.gz 106.6 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap