Summary
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The Cancer Genome Atlas (TCGA) Glioma Phenotype Research Group is part of the |
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Cancer Imaging Project TCGA Radiology Initiative; an effort to build a research community focused on |
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According to the TCGA page on Glioblastoma Multiforme, researchers have already made the following types of discoveries with this data:
- Identified a new subtype of GBM that affects younger adults and has an increased survival rate. A subset of GBM tumors had specific chemical changes or 'marks' called methylation of a large group of genes. The methylation of these genes may account for the improved survival of these patients when compared to patients with other subtypes of GBM. These findings could aid in development of new treatment options for these patients.
- Recognized four distinct molecular subtypes of GBM that respond differently to aggressive therapies. Patients with one subtype survive about 50 percent longer than those with other GBM subtypes. Knowing a tumor's subtype could help match each patient to the most effective therapies. See more information about TCGA brain tumor subtype studies.
- Identified possible mechanisms that can cause some GBM tumors to become resistant to therapy after treatment with the standard chemotherapy called temozolomide. Treatment with temozolomide can cause gene mutations that help tumor cells become resistant. If GBM tumors return after successful treatment with temozolomide, the new gene mutations make the tumor resistant to further treatment with the drug. This finding could be used to develop new drugs that will not activate this drug resistance mechanism.
- Pinpointed four gene mutations in GBM tumors that may provide new insights into the biology of this disease.
- NF1, a gene identified as the cause of neurofibromatosis 1, a rare, inherited disorder characterized by uncontrolled tissue growth along nerves
- ERBB2 , a gene involved in breast cancer
- TP53, a gene involved in many types of cancers
- PIK3R1 , a gene that controls an enzyme that is found in many cancers
Research and Publications
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Data Source | Status |
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No restrictions; all data available without limitations | |
No restrictions; image data available without limitations |
We are currently hosting open t-cons for discussion of TCGA glioma based research projects (TCGA-GBM) on Wednesdays at 3pm Eastern. Please contact us at cancerimagingarchive@mail.nih.gov if you would like to join the calls or our mailing list to be otherwise kept in the loop on these topics.
TCGA-GBM Marker Paper and Image Source Sites (ISS)connecting cancer phenotypes to genotypes by providing clinical images matched to tissue specimens analyzed for The Cancer Genome Atlas (TCGA).
Imaging Source Site (ISS) Groups are
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being formed and governed by participants from institutions that have provided imaging data to the archive for a given cancer type. Modeled after TCGA analysis groups,
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ISS groups are given the opportunity to publish a marker paper for a given cancer
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type per the guidelines in the table above. This opportunity will generate increased participation in building these multi-institutional data sets as they become an open community resource. Current The Cancer Genome Atlas Glioblastoma Multiforme Collection (TCGA-GBM) (glioblastoma) and The Cancer Genome Atlas Low Grade Glioma Collection (TCGA-LGG) (low grade glioma) source sites include:
- Thomas Jefferson University
- Henry Ford Hospital
- University of California, San Francisco
- MD Anderson Cancer Center
- Emory University
- Mayo Clinic
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- Case Western Reserve University School of Medicine
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References
The following links contain publications from the main TCGA project, as well as their posted publication guidelines.
Publications utilizing TCGA-GBM imaging data from TCIA:
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Citation
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TCIA Shared Lists (Help Using Shared Lists)
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Supporting Materials
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A number of other collaborators have also been invited to join the group by its members. Please contact Adam Flanders (adam.flanders@jefferson.edu) if you have scientific questions for TCGA-GBM/LGG ISS or if you are interested in collaborating with their group.
Publications
TCGA Glioma Phenotype Research Group Publications
Wangaryattawanich, P., M. Hatami, et al. "Multicenter imaging outcomes study of The Cancer Genome Atlas glioblastoma patient cohort: imaging predictors of overall and progression-free survival." Neuro-oncology, (2015): nov117 .
Colen RR, Wang J, Singh SK, Gutman DA, Zinn PO. Glioblastoma: Imaging Genomic Mapping Reveals Sex-specific Oncogenic Associations of Cell Death. Radiology. 2014.
- Colen RR, Vangel M, Wang J, Gutman DA, Hwang SN, Wintermark M, Rajan J, Jilwan-Nicola M, Chen JY, Raghavan P, Holder CA, Rubin D, Huang E, Kirby J, Freymann J, Jaffee CC, Flanders A, Zinn PO. Imaging genomic mapping of an invasive MRI phenotype predicts patient outcome and metabolic dysfunction: a TCGA glioma phenotype research group project.BMC Medical Genomics, 2014. 7(1):30. doi:10.1186/1755-8794-7-30 (link)
- Gevaert O, Mitchell LA, Achrol AS, Xu J, Echegaray S, Steinberg GK, Chesier SH, Napel S, Zaharchuk G, Plevritis SK. Glioblastoma Multiforme: Exploratory Radiogenomic Analysis by Using Quantitative Image Features. Radiology, 2014. doi: 10.1148/radiol.14131731 (link)
- Jain R, Poisson L, Gutman D, Scarpace L, Hwang SN, Holder C, Wintermark M, Colen RR, Kirby J, Freymann J, Jaffe C, Mikkelsen T, Flanders A. Outcome Prediction in Patients with Glioblastoma by Using Imaging, Clinical, and Genomic Biomarkers: Focus on the Nonenhancing Component of the Tumor. Radiology. 2014 Aug;272(2):484-93. doi: 10.1148/radiol.14131691. Epub 2014 Mar 19. 2014 (link)
- Nicolasjilwan M, Hu Y, Yan C, Meerzaman D, Holder CA, Gutman D, et al. Addition of MR imaging features and genetic biomarkers strengthens glioblastoma survival prediction in TCGA patients. Journal of Neuroradiology, July 2014. doi: 10.1016/j.neurad.2014.02.006
- Wassal E, Zinn P, Colen R. DIFFUSION AND CONVENTIONAL MR IMAGING GENOMIC BIOMARKER SIGNATURE FOR EGFR MUTATION IDENTIFICATION IN GLIOBLASTOMA. Neuro-Oncology. 2014;16(suppl 5):v156-v7.
Wassal E, Zinn P, Colen R. DIFFUSION AND CONVENTIONAL MR IMAGING GENOMIC BIOMARKER SIGNATURE PREDICTS IDH-1 MUTATION IN GLIOBLASTOMA PATIENTS. Neuro-Oncology. 2014;16(suppl 5):v157-v.
Amer A, Zinn P, Colen R. IMMEDIATE POST OPERATIVE VOLUME OF ABNORMAL FLAIR SIGNAL PREDICTS PATIENT SURVIVAL IN GLIOBLASTOMA PATIENTS. Neuro-Oncology. 2014;16(suppl 5):v138-v.
- Amer A, Zinn P, Colen R. IMMEDIATE POST-RESECTION PERICAVITARIAN DWI HYPERINTENSITY IN GLIOBLASTOMA PATIENTS IS PREDICTIVE OF PATIENT OUTCOME. Neuro-Oncology. 2014;16(suppl 5):v138-v9.
- Gutman DA, Cooper LAD, Hwang SN, Holder CA, Gao J, Aurora TD, Dunn WD
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- , Scarpace L, Mikkelsen T, Jain R, Wintermark M, Jilwan M, Raghavan P, Huang E, Clifford RJ,
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- Monqkolwat P, Kleper V, Freymann J, Kirby J, Zinn PO, Moreno
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- CS, Jaffe C, Colen R, Rubin DL, Saltz J, Flanders A, Brat DJ.
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http://www.ncbi.nlm.nih.gov/pubmed/23392431])
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http://www.ncbi.nlm.nih.gov/pubmed/23238158])
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- TCGA-GBM DSC T2* MR Perfusion (contains the raw perfusion image studies)]]></ac:plain-text-body></ac:structured-macro>
- TCGA-GBM DSC T2* nordicICE (contains the post-processed nordiceICE perfusion image studies)
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- Spreadsheet - contains scaling factors, rCBV values, and scanner info
- Text files – contains text dumps of DICOM elements for nordicICE perfusion image studies
- MR Imaging Predictors of Molecular Profile and Survival: Multi-institutional Study of the TCGA Glioblastoma Data Set. Radiology. 2013 May:267(2):560-569,doi:10.1148/radiol.13120118 (link)
- Jain R, Poisson L, Narang J, Gutman D, Scarpace L, Hwang SN, Holder C, Wintermark M, Colen RR, Kirby J, Freymann J, Brat DJ, Jaffe C, Mikkelsen T.
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- Genomic Mapping and Survival Prediction in Glioblastoma: Molecular Subclassification Strengthened by Hemodynamic Imaging Biomarkers. Radiology, 2013 Apr:267(1):212 –220, doi:10.1148/radiol.12120846 (link)
- Zinn PO, Colen RR. Imaging Genomic Mapping in Glioblastoma. Neurosurgery 60:126-130. Aug 2013 (link)
- Jain R, Poisson L, Narang J, Scarpace L, Rosenblum ML, Rempel S, Mikkelson T. Correlation of Perfusion Parameters with Genes Related to Angiogenesis Regulation in Glioblastoma: A Feasibility Study. American Journal of Neuroradiology, 2012. 33(7):1343-1348 [Epub ahead of print] (link)
- Zinn PO, Sathyan P, Mahajan B, Bruyere J, Hegi M, et al. (2012)
- A Novel Volume-Age-KPS (VAK) Glioblastoma Classification Identifies a Prognostic Cognate microRNA-Gene Signature.
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- PLoS ONE, 2012 7(8): e41522. doi:10.1371/journal.pone.0041522 (link)
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- Zinn PO, Majadan B, Sathyan P, Singh SK, Majumder S, et al. 2011
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- Radiogenomic Mapping of Edema/Cellular Invasion MRI-Phenotypes in Glioblastoma Multiforme. PLoS ONE, 2011 6(10): e25451. doi:10.1371/journal.pone.0025451 (link)
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Zinn, P. O., M. Hatami, et al. (2015). "138 Diffusion MRI ADC Mapping of Glioblastoma Edema/
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Tumor Invasion and Associated Gene Signatures." Neurosurgery 62: 210.
Publications written by other members of the research community can be found on our TCIA Publications page. Please contact us at help@cancerimagingarchive.net if you have a publication you would like us to add.
TCGA Genomics Publications
Read the 2008 Nature paper and 2013 Cell paper to learn more about the GBM genomic study. Read the New England Journal of Medicine LGG paper to learn more about the LGG genomic study. Additional TCGA publications can be found at: http://cancergenome.nih.gov/publications.
Publication Policies
Per TCGA and TCIA Guidelines, formal permission requests are no longer required to submit publications using TCGA-GBM or TCGA-LGG data. Please see the following links for more information about the freedom-to-publish criteria for these data sets:
Data Source | Status |
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No restrictions; all data available without limitations. | |
No restrictions; all data available without limitations. |
Please contact us at help@cancerimagingarchive.net if you have any questions about these policies.
Note: For more information on how Shared Lists are used to cite and share data please view our TCIA Citation Guidelines.
Conference abstracts utilizing TCGA-GBM imaging data from TCIA:
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- Neuroimaging Predictors of Survival, Pathology, and Molecular Profiles in TCGA Glioblastomas. David A Gutman, Lee A.D. Cooper, Joel Saltz, Adam Flanders, Dan Brat and the TCGA Glioma Phenotype Research Group (Slides, Presentation Video)
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