 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Mar 07, 2009 |
| Title |
Transcript expression data from glioblastoma subcutaneous xenografts and non-neoplastic control brain |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
|
| Summary |
Development of model systems that recapitulate the molecular heterogeneity observed amongst GBM tumors will expedite the testing of targeted molecular therapeutic strategies for GBM treatment. In this study, we profiled DNA copy number and mRNA expression in 21 independent GBM tumor lines maintained as subcutaneous xenografts (GBMX), and compared GBMX molecular signatures to those observed in GBM clinical specimens derived from The Cancer Genome Atlas (TCGA). The predominant copy number signature in both tumor groups was defined by chromosome-7-gain/chromosome-10-loss, a poor prognosis genetic signature. We also observed, at frequencies similar to that detected in TCGA GBMs genomic amplification and overexpression of known GBM oncogenes such as EGFR, MDM2, CDK6 and MYCN, and novel genes including NUP107, SLC35E3, MMP1, MMP13 and DDX1. The transcriptional signature of GBMX tumors, which was stable over multiple subcutaneous passages, was defined by overexpression of genes involved in M-phase, DNA Replication, and Chromosome organization (MRC) and was highly similar to the poor-prognosis mitosis-and-cell-cycle-module (MCM) in GBM. Assessment of gene expression in TCGA-derived GBMs revealed overexpression of MRC cancer genes AURKB, BIRC5, CCNB1, CCNB2, CDC2, CDK2, and FOXM1, which form a transcriptional network important for G2/M- progression and/or -checkpoint activation. In conclusion, our study supports propagation of GBM tumors as subcutaneous xenografts as a useful approach for sustaining key molecular characteristics of patient tumors, and highlights therapeutic opportunities conferred by this GBMX tumor panel for testing targeted therapeutic strategies for GBM treatment.
Keywords: Disease state analysis
|
| |
|
| Overall design |
RNA expression was assessed in 38 samples: 34 GBM xenograft tumors (29 independent tumors with hybridization replicates for 5 tumors) and 4 non-neoplastic control brain samples
|
| |
|
| Contributor(s) |
Hodgson JG, Yeh R |
| Citation(s) |
19139420 |
| Submission date |
Feb 12, 2009 |
| Last update date |
Jan 17, 2017 |
| Contact name |
Graeme Hodgson |
| E-mail(s) |
ghodgson@cc.ucsf.edu
|
| Phone |
415-476-3630
|
| Fax |
415-476-8218
|
| Organization name |
UCSF
|
| Department |
Neurological Surgery
|
| Street address |
Box0808
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94143 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL3921 |
[HT_HG-U133A] Affymetrix HT Human Genome U133A Array |
|
| Samples (38)
|
| GSM370578 |
Gliosis non-neoplastic control tissue, ID number SF4916, microarray hybridization batch 2 |
| GSM370579 |
Gliosis non-neoplastic control tissue, ID number SF6637, microarray hybridization batch 2 |
| GSM370580 |
Gliosis non-neoplastic control tissue, ID number SF6700, microarray hybridization batch 2 |
| GSM370581 |
Gliosis non-neoplastic control tissue, ID number SF7178, microarray hybridization batch 2 |
| GSM370582 |
GBM xenograft tumor, line 3, generation 1, microarray hybridization batch 1 |
| GSM370583 |
GBM xenograft tumor, line 3, generation 11, microarray hybridization batch 1 |
| GSM370584 |
GBM xenograft tumor, line 5, generation 10, microarray hybridization batch 1 |
| GSM370585 |
GBM xenograft tumor, line 6, generation 8, microarray hybridization batch 1 |
| GSM370586 |
GBM xenograft tumor, line 8, generation 1, microarray hybridization batch 1 |
| GSM370587 |
GBM xenograft tumor, line 8, generation 2, microarray hybridization batch 1 |
| GSM370588 |
GBM xenograft tumor, line 10, generation 1, microarray hybridization batch 1 |
| GSM370589 |
GBM xenograft tumor, line 10, generation 9, microarray hybridization batch 1 |
| GSM370590 |
GBM xenograft tumor, line 10, generation 9, microarray hybridization batch 2 |
| GSM370591 |
GBM xenograft tumor, line 12, generation 3, microarray hybridization batch 1 |
| GSM370592 |
GBM xenograft tumor, line 14, generation 4, microarray hybridization batch 1 |
| GSM370593 |
GBM xenograft tumor, line 15, generation 1, microarray hybridization batch 1 |
| GSM370594 |
GBM xenograft tumor, line 15, generation 1, microarray hybridization batch 2 |
| GSM370595 |
GBM xenograft tumor, line 15, generation 15, microarray hybridization batch 1 |
| GSM370596 |
GBM xenograft tumor, line 15, generation 15, microarray hybridization batch 2 |
| GSM370597 |
GBM xenograft tumor, line 16, generation 4, microarray hybridization batch 1 |
| GSM370598 |
GBM xenograft tumor, line 22, generation 3, microarray hybridization batch 1 |
| GSM370599 |
GBM xenograft tumor, line 22, generation 3, microarray hybridization batch 2 |
| GSM370600 |
GBM xenograft tumor, line 28, generation 1, microarray hybridization batch 1 |
| GSM370601 |
GBM xenograft tumor, line 28, generation 3, microarray hybridization batch 1 |
| GSM370602 |
GBM xenograft tumor, line 34, generation 5, microarray hybridization batch 1 |
| GSM370603 |
GBM xenograft tumor, line 36, generation 6, microarray hybridization batch 1 |
| GSM370604 |
GBM xenograft tumor, line 38, generation 5, microarray hybridization batch 1 |
| GSM370605 |
GBM xenograft tumor, line 39, generation 4, microarray hybridization batch 1 |
| GSM370606 |
GBM xenograft tumor, line 40, generation 1, microarray hybridization batch 1 |
| GSM370607 |
GBM xenograft tumor, line 40, generation 2, microarray hybridization batch 1 |
| GSM370608 |
GBM xenograft tumor, line 40, generation 2, microarray hybridization batch 2 |
| GSM370609 |
GBM xenograft tumor, line 43, generation 2, microarray hybridization batch 1 |
| GSM370610 |
GBM xenograft tumor, line 44, generation 5, microarray hybridization batch 1 |
| GSM370611 |
GBM xenograft tumor, line 46, generation 1, microarray hybridization batch 1 |
| GSM370612 |
GBM xenograft tumor, line 46, generation 9, microarray hybridization batch 1 |
| GSM370613 |
GBM xenograft tumor, line 56, generation 2, microarray hybridization batch 1 |
| GSM370614 |
GBM xenograft tumor, line 58, generation 3, microarray hybridization batch 1 |
| GSM370615 |
GBM xenograft tumor, line 59, generation 2, microarray hybridization batch 1 |
|
| This SubSeries is part of SuperSeries: |
| GSE14806 |
Comparative analyses of gene copy number and mRNA expression in GBM tumors and GBM xenografts |
|
| Relations |
| BioProject |
PRJNA114361 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE14805_RAW.tar |
102.7 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
|
|
|
|
 |
Less...
More...