Mountain View
biomedical and healthCAre Data Discovery Index Ecosystem
help Advanced Search
Title: Characterization of novel ovarian tumor cell lines that retain the phenotype of primary tumors [Illumina]      
dateReleased:
06-16-2015
description:
The inability to establish stable cell lines from the vast majority of human tumors has limited the use of in vitro models to study human cancer. Currently available tumor cell lines fail to represent the biological diversity of human tumors. We have developed a cell culture medium that enabled us to routinely establish cell lines from diverse subtypes of ovarian tumors. Importantly, the twenty-five ovarian tumor cell lines described here retain the genomic landscape, histopathology, and molecular features of the original tumors. Furthermore, the molecular profile and drug response of these cell lines correlated with distinct groups of primary tumors with different outcomes. Thus, tumor cell lines derived using this methodology represent a significantly improved new platform to study human tumor biology and treatment. Total RNA was obtained from untreated ovarian cancer cell lines and clustering analysis was performed. The 'Median-Cent_5147_probes.txt' is a list of the 5147 gene probes that has at least 2-fold difference relative to median value across cell lines in at least 4 samples. These are the probes that were used for hierarchial clustering analysis. The 'Combined_and_GSE9891.txt' is a combination of gene probes from this study of ovarian cell lines and of human ovarian cancer cell lines (GSE9891[GPL570]: Expression profile of 285 ovarian tumour samples). Only the 3832 overlapping gene probes between the this study and the GSE9891[GPL570] study are listed. The 3832 gene probes listed have at least 2-fold difference relative to median value across samples in at least 4 samples.
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-40785
refinement:
raw
alternateIdentifiers:
40785
keywords:
functional genomics
dateModified:
06-21-2015
availability:
available
types:
gene expression
name:
Homo sapiens
ID:
A-GEOD-10558
name:
Illumina HumanHT-12 V4.0 expression beadchip
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-40785/E-GEOD-40785.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-40785/E-GEOD-40785.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE40785
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress

Feedback?

If you are having problems using our tools, or if you would just like to send us some feedback, please post your questions on GitHub.