Unknown,Transcriptomics,Genomics,Proteomics

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Affymetrix SNP 6.0 array data for chordoma samples

ABSTRACT: Chordomas are rare, low to intermediate grade malignant bone tumors of the axial skeleton, believed to originate from the notochord. Treatment options are limited and mainly restricted to surgical excision, as chordomas have been proven to be largely resistant to conventional ionizing radiation and chemotherapy. Therefore a new cell line was established. The cell line has been characterized by immunohistochemistry,western blot and karyotyping using cobra fish technology. Copy number variations (CNV) and loss-of heterozygosity (LOH) from fibroblasts, tumor tissue, low and high cell line passage was evaluted by using Affymetrix 6.0SNP Arrays. DNA isolated from the patients MNCs was used as control. The cell line MUG-Chor1 is highly similar to genetic profiles of chordomas and provides therefore a powerful tool for further investigations. Affymetrix SNP 6.0 arrays were performed according to the manufacturer's directions on DNA extracted from cryo material or cell lines. Copy number analysis of Affymetrix SNP 6.0 arrays was performed for 4 samples. 60 samples from HapMap database were used as references for copy number inference.

ORGANISM(S): Homo sapiens

SUBMITTER: Carina Fischer 

PROVIDER: E-GEOD-25720 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Establishment and detailed functional and molecular genetic characterisation of a novel sacral chordoma cell line, MUG-Chor1.

Rinner Beate B   Froehlich Elke Verena EV   Buerger Karin K   Knausz Heike H   Lohberger Birgit B   Scheipl Susanne S   Fischer Carina C   Leithner Andreas A   Guelly Christian C   Trajanoski Slave S   Szuhai Karoly K   Liegl Bernadette B  

International journal of oncology 20111014 2

Chordomas are rare, low to intermediate grade malignant bone tumors of the axial skeleton. Current treatment options are limited to surgical procedures, as chordomas are largely resistant to conventional radiation and chemotherapy. Cell lines are valuable tools for exploring molecular mechan-isms involved in tumorigenesis and they have a fundamental impact on the development of new anticancer agents. To date, only two chordoma cell lines exist world-wide. In the present study we report a third c  ...[more]

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