COVID-19-AR | Chest Imaging with Clinical and Genomic Correlates Representing a Rural COVID-19 Positive Population
DOI: 10.7937/tcia.2020.py71-5978 | Data Citation Required | 356 Views | 20 Citations | Image Collection
| Location | Species | Subjects | Data Types | Cancer Types | Size | Status | Updated | |
|---|---|---|---|---|---|---|---|---|
| Lung | Human | 105 | CT, DX, CR, Demographic, Diagnosis, Other | COVID-19 (non-cancer) | Clinical, Genomics | Public, Ongoing | 2020/07/13 |
Summary
Radiology imaging is playing an increasingly vital role in the diagnosis of COVID-19 patients and determining therapeutic options, patient care management and new research directions. Publicly available imaging data is essential to drive new research by permitting the creation of large multi-site cohorts for machine learning based analyses. All too frequently rural populations are underrepresented in such public collections. In fact, the literature demonstrates there is very limited data on COVID-19 outcomes in rural populations, while it is well established that such populations have differentially high expression of key comorbidities. Similarly, while the number of genomes of the SARS-COV-2 virus are rapidly growing in public repositories, few samples represent the variants expressed in rural populations. This gap in available data is of particular importance given that the southern United States, as of July 2020, is the most rapidly expanding COVID-19 hot spot on earth. We have published a collection of radiographic and CT imaging studies for patients who tested positive for COVID-19. Each patient is described by a limited set of clinical data correlates that includes demographics, comorbidities, selected lab data and key radiology findings. These data are cross-linked to SARS-COV-2 cDNA sequence data extracted from clinical isolates from the same population, uploaded to the Genbank repository. We believe this collection will help to define appropriate correlative data and contribute samples from this normally underrepresented population to the global research community. Additional datasets and information about TCIA efforts to support COVID-19 research can be found here.TCIA COVID-19 Datasets
Data Access
Version 1: Updated 2020/07/13
| Title | Data Type | Format | Access Points | Subjects | License | |||
|---|---|---|---|---|---|---|---|---|
| Images | CT, DX, CR | DICOM | Download requires NBIA Data Retriever |
105 | 256 | 461 | 31,935 | CC BY 4.0 |
| Clinical data | Demographic, Diagnosis, Other | XLSX | CC BY 4.0 |
Additional Resources for this Dataset
The following external resources have been made available by the data submitters. These are not hosted or supported by TCIA, but may be useful to researchers utilizing this collection.
- Viral Genomes Genbank repository (accession no. MT766907: USA/AR-UAMS001/2020)
- Viral Genomes Genbank repository (accession no. MT766908: USA/AR-UAMS002/2020)
The NCI Cancer Research Data Commons (CRDC) provides access to additional data and a cloud-based data science infrastructure that connects data sets with analytics tools to allow users to share, integrate, analyze, and visualize cancer research data.
- Imaging Data Commons (IDC) (Imaging Data)
Citations & Data Usage Policy
Data Citation Required: Users must abide by the TCIA Data Usage Policy and Restrictions. Attribution must include the following citation, including the Digital Object Identifier:
Data Citation |
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Desai, S., Baghal, A., Wongsurawat, T., Al-Shukri, S., Gates, K., Farmer, P., Rutherford, M., Blake, G.D., Nolan, T., Powell, T., Sexton, K., Bennett, W., Prior, F. (2020). Data from Chest Imaging with Clinical and Genomic Correlates Representing a Rural COVID-19 Positive Population [Data set]. The Cancer Imaging Archive. DOI: https://doi.org/10.7937/tcia.2020.py71-5978. |
Acknowledgement |
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This project has been funded in whole or in part with federal funds from the National Center for Advancing Translational Sciences UL1 TR003107 and the National Cancer Institute, Contract No. 75N91019D00024, Subcontract 20X023F. |
Acknowledgements
We would like to acknowledge the individuals and institutions that have provided data for this collection:
The University of Arkansas for Medical Sciences (UAMS) Translational Research Institute, Department of Radiology, Department of Biomedical Informatics and Department of Surgery, Little Rock, Arkansas, USA.
Related Publications
Publications by the Dataset Authors
The authors recommended the following as the best source of additional information about this dataset:
Publication Citation |
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Desai, S., Baghal, A., Wongsurawat, T., Jenjaroenpun, P., Powell, T., Al-Shukri, S., Gates, K., Farmer, P., Rutherford, M., Blake, G., Nolan, T., Sexton, K., Bennett, W., Smith, K., Syed, S., Prior, F. (2020). Chest imaging representing a COVID-19 positive rural U.S. population. Scientific Data. 2020;7(1):414. doi: https://doi.org/10.1038/s41597-020-00741-6. |
Publication Citation |
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Jenjaroenpun, P., Wanchai, V., OnoMoore, K.D., Laudadio, J., James, L.P., Adams, S.H., Prior, F., Nookaew, I., Ussery, D.W., Wongsurawat, T. (2020). Two SARS-CoV-2 genome sequences of isolates from rural U.S. patients harboring the D614G mutation, obtained using Nanopore sequencing. Microbiology Resource Announcements, 2020. DOI: https://doi.org/10.1128/MRA.01109-20. |
No other publications were recommended by dataset authors.
Research Community Publications
TCIA maintains a list of publications that leveraged this dataset. If you have a manuscript you’d like to add please contact TCIA’s Helpdesk.