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Summary

This dataset includes baseline pathologic, MRI and genomic features of 85 treatment-naive naturally-occurring canine glioma. The data were collected from 5 different veterinary institutions' patient populations. Clinical MRI are available prior to any treatment, and surgical biopsy and/or tissues collected at necropsy are provided as H&E stained sections. The tumors have been classified with a harmonized classification scheme developed by veterinary and physician neuropathologists. The genomic features were described using whole exome, whole genome, RNAseq and methylation profiling.Sporadic gliomas in companion dogs provide a window on the interaction between tumorigenic mechanisms and host environment. We compared the molecular profiles of canine gliomas with those of human pediatric and adult gliomas to characterize evolutionarily conserved mammalian mutational processes in gliomagenesis. Employing whole genome-, exome-, transcriptome- and methylation-sequencing of 81 canine gliomas, our cross-species comparative genomic analysis provides unique insights into glioma etiology and the chronology of glioma-causing somatic alterations, and rationalizes sporadic canine glioma as a preclinical model tailored to measuring treatment efficacies in patients with canine or human glioma. Here, we provide high-throughput multi-omics sequencing data in binary alignment map (BAM) format for the largest canine glioma cohort to date.


This dataset includes baseline pathologic, MRI and genomic features of treatment-naive naturally-occurring canine glioma. Multi-omic data for all 81 subjects can be found in the Integrated Canine Data Commons.  Radiology imaging are available for 57 of these subjects, and pathology imaging for 76 subjects. The data were collected from 5 different veterinary institutions' patient populations. Clinical MRI are available prior to any treatment, and surgical biopsy and/or tissues collected at necropsy are provided as H&E stained sections. The tumors have been classified with a harmonized classification scheme developed by veterinary and physician neuropathologists. The genomic features were described using whole exome, whole genome, RNAseq and methylation profiling.

This is the first dataset of its kind to comprehensively describe and report the clinical, pathologic, imaging and genomic landscape of naturally-occurring canine glioma. This work serves the cancer research community by providing the necessary multi-parametric data to define the translational relevance of this canine tumor as a model for its human counterpart(s). Inclusion of appropriate canine glioma patients with similar and/or relevant features can be studied in the context of comparative oncology clinical trials to advance questions in cancer biology and drug development.

About the Integrated Canine Data Commons

NCI's Division of Cancer Treatment and Diagnosis (DCTD) charged the Frederick National Laboratory for Cancer Research (FNLCR) to build the Integrated Canine Data Commons (ICDC), a cloud-based repository of spontaneously-arising canine cancer data. ICDC was established to further research on human cancers by enabling comparative analysis with canine cancer. The data in the ICDC is sourced from multiple different programs and projects; all focused on canine subjects. The data is harmonized into an integrated data model and then made available to the research community. The ICDC is part of the Cancer Research Data Commons (CRDC), an initiative from NCI’s Center for Biomedical Informatics and Information Technology (CBIIT). Bioinformatic analysis of the ICDC data is accomplished using the CRDC’s Cloud Resources.

Acknowledgements

We would like to acknowledge the individuals and institutions that have provided data for this collection:

  • This work was funded in part by NCI funding to designated cancer centers through a competitive P30 supplement mechanism and through support of the COP, an intramural NCI/Center for Cancer Research program.

Continue with any names from additional submitting sites if collection consists of more that one.

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Localtab
activetrue
titleData Access

Data Access

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Images (DICOM,
XX
5.
X
Supplemental Data (format
Histopathology Images (SVS, 172 GB)
Genomics (External)


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Localtab
titleDetailed Description

Detailed Description



Radiology Image Statistics

Pathology Image Statistics

Modalities

MR

,

Pathology

Number of Participants

57

85
78

Number of Studies

170

58

N/A

Number of Series

650

N/A

Number of Images

17,797

84
Images Size (GB)
Add any additional information as needed below. Likely would be something from site.
5.1 GB172





Localtab
titleCitations & Data Usage Policy

Citations & Data Usage Policy

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Tcia license 4 international

Tcia license 4 noncommercial


Info
title
Acknowledgement Samirkumar B. Amin1, Kevin J. Anderson1,$, C. Elizabeth Boudreau2,$, Emmanuel Martinez-Ledesma3, 4,$, Emre Kocakavuk1,5, Kevin C. Johnson1, Floris P. Barthel1, Frederick S. Varn1, Cynthia Kassab6, Xiaoyang Ling6, Hoon Kim1, Mary Barter7, Chew Yee Ngan1, Margaret Chapman,1 Jennifer W. Koehler8, Andrew D. Miller9, C. Ryan Miller10, Brian F. Porter11, Daniel R. Rissi12, Christina Mazcko13, Amy K. LeBlanc13, Peter J. Dickinson14, Rebecca Packer15, Amanda R. Taylor16¥, John H. Rossmeisl Jr17, Amy Heimberger6#, Jonathan M. Levine2,#, Roel G. W. Verhaak1,# 1 The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA 2 Department of Small Animal Clinical Sciences, College of Veterinary Medicine and Biomedical Sciences, Texas A&M University, College Station, TX, USA 3 Tecnologico de Monterrey, Monterrey, Mexico 4 Department of Neuro-Oncology, the University of Texas MD Anderson Cancer Center, Houston, TX, USA 5 DKFZ Division of Translational Neurooncology at the West German Cancer Center (WTZ), German Cancer Consortium (DKTK) Partner Site & Department of Neurosurgery, University Hospital Essen, Essen, Germany 6 Department of Neurosurgery, the University of Texas MD Anderson Cancer Center, Houston, TX, USA 7 The Jackson Laboratory, Bar Harbor, ME, 04609, USA 8 Department of Pathobiology, College of Veterinary Medicine, Auburn University, Auburn, AL, USA 9Department of Biomedical Sciences, Section of Anatomic Pathology, College of Veterinary Medicine, Cornell University, Ithaca, NY, USA 10 Departments of Pathology and Laboratory Medicine, Neurology, and Pharmacology, Lineberger Comprehensive Cancer Center and Neuroscience Center, University of North Carolina School of Medicine, Chapel Hill, NC, USA 11 Department of Veterinary Pathobiology, College of Veterinary Medicine and Biomedical Sciences, Texas A&M University, College Station, TX, USA 12 Department of Pathology and Athens Veterinary Diagnostic Laboratory, College of Veterinary Medicine, University of Georgia, Athens, GA, USA 13 Comparative Oncology Program, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA 14 Department of Surgical and Radiological Sciences, UC Davis School of Veterinary Medicine, Davis, CA, USA 15 Colorado State University, Fort Collins, CO, USA 16 Auburn University College of Veterinary Medicine, Auburn, AL, USA 17 VA-MD College of Veterinary Medicine, Blacksburg, VA, USA ¥Current affiliation: MedVet Medical and Cancer Center for Pets, Columbus, OH, USA  Current affiliation: Department of Pathology, Division of Neuropathology, and O’Neal Comprehensive Cancer Center, University of Alabama at Birmingham, Birmingham, AL, USA
Data Citation

Amin SB, Anderson KJ, Boudreau CE, Martinez-Ledesma E, Kocakavuk E, Johnson KC, Barthel FP, Varn FS, Kassab C, Ling X, Kim H, Barter M, Lau CC, Yee Ngan C, Chapman M, Koehler JW, Miller AD, Long JP, Miller CR, Porter BF, Rissi DR, Mazcko C, LeBlanc AK, Dickinson PJ, Packer RA, Taylor AR, Rossmeisl Jr. JH, Woolard KD, Heimberger AB, Levine JM, Verhaak RGW. Canine glioma characterization project for ICDC [Dataset]. The Cancer Imaging Archive; 2020. Available from: https://doi.org/10.7937/TCIA.SVQT-Q016


Info
titlePublication Citation
Amin SB, Anderson KJ, Boudreau CE, Martinez-Ledesma E, Kocakavuk E, Johnson KC, Barthel FP, Varn FS, Kassab C, Ling X, Kim H, Barter M, Lau CC, Ngan CY, Chapman M, Koehler JW, Long JP, Miller AD, Miller CR, Porter BF, Rissi DR, Mazcko C, LeBlanc AK, Dickinson PJ, Packer RA, Taylor AR, Rossmeisl JH Jr, Woolard KD, Heimberger AB, Levine JM, Verhaak RGW. Comparative Molecular Life History of Spontaneous Canine and Human Gliomas. Cancer Cell [Internet]. Elsevier BV; 2020 Feb;37(2):243-257.e7. Available from: http://dx.doi.org/10.1016/j.ccell.2020.01.004


Info
titleTCIA Citation

Clark K, Vendt B, Smith K, Freymann J, Kirby J, Koppel P, Moore S, Phillips S, Maffitt D, Pringle M, Tarbox L, Prior F. The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository, Journal of Digital Imaging, Volume 26, Number 6, December, 2013, pp 1045-1057. DOI: https://doi.org/10.1007/s10278-013-9622-7


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Localtab
titleVersions

Version

X

1 (Current): Updated

yyyy

2020/

mm

12/

dd

18

Data TypeDownload all or Query/Filter
Images (DICOM,
xx
5.
x
Clinical Data (CSV
Histopathology Images (SVS, 172 GB)
Link
Other
Genomics (
format

Added new subjects.

Version 1: Updated 2018/10/24

Added new subjects.