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Outbreak.info Research Library: A standardized, searchable platform to discover and explore COVID-19 resources

To combat the ongoing COVID-19 pandemic, scientists have been conducting research at breakneck speeds, producing over 52,000 peer-reviewed articles within the first year. To address the challenge in tracking the vast amount of new research located in separate repositories, we developed outbreak.info...

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Autores principales: Tsueng, Ginger, Mullen, Julia L., Alkuzweny, Manar, Cano, Marco, Rush, Benjamin, Haag, Emily, Curators, Outbreak, Lin, Jason, Welzel, Dylan J., Zhou, Xinghua, Qian, Zhongchao, Latif, Alaa Abdel, Hufbauer, Emory, Zeller, Mark, Andersen, Kristian G., Wu, Chunlei, Su, Andrew I., Gangavarapu, Karthik, Hughes, Laura D.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8820656/
https://www.ncbi.nlm.nih.gov/pubmed/35132411
http://dx.doi.org/10.1101/2022.01.20.477133
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author Tsueng, Ginger
Mullen, Julia L.
Alkuzweny, Manar
Cano, Marco
Rush, Benjamin
Haag, Emily
Curators, Outbreak
Lin, Jason
Welzel, Dylan J.
Zhou, Xinghua
Qian, Zhongchao
Latif, Alaa Abdel
Hufbauer, Emory
Zeller, Mark
Andersen, Kristian G.
Wu, Chunlei
Su, Andrew I.
Gangavarapu, Karthik
Hughes, Laura D.
author_facet Tsueng, Ginger
Mullen, Julia L.
Alkuzweny, Manar
Cano, Marco
Rush, Benjamin
Haag, Emily
Curators, Outbreak
Lin, Jason
Welzel, Dylan J.
Zhou, Xinghua
Qian, Zhongchao
Latif, Alaa Abdel
Hufbauer, Emory
Zeller, Mark
Andersen, Kristian G.
Wu, Chunlei
Su, Andrew I.
Gangavarapu, Karthik
Hughes, Laura D.
author_sort Tsueng, Ginger
collection PubMed
description To combat the ongoing COVID-19 pandemic, scientists have been conducting research at breakneck speeds, producing over 52,000 peer-reviewed articles within the first year. To address the challenge in tracking the vast amount of new research located in separate repositories, we developed outbreak.info Research Library, a standardized, searchable interface of COVID-19 and SARS-CoV-2 resources. Unifying metadata from sixteen repositories, we assembled a collection of over 350,000 publications, clinical trials, datasets, protocols, and other resources as of October 2022. We used a rigorous schema to enforce consistency across different sources and resource types and linked related resources. Researchers can quickly search the latest research across data repositories, regardless of resource type or repository location, via a search interface, public API, and R package. Finally, we discuss the challenges inherent in combining metadata from scattered and heterogeneous resources and provide recommendations to streamline this process to aid scientific research.
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spelling pubmed-88206562022-12-15 Outbreak.info Research Library: A standardized, searchable platform to discover and explore COVID-19 resources Tsueng, Ginger Mullen, Julia L. Alkuzweny, Manar Cano, Marco Rush, Benjamin Haag, Emily Curators, Outbreak Lin, Jason Welzel, Dylan J. Zhou, Xinghua Qian, Zhongchao Latif, Alaa Abdel Hufbauer, Emory Zeller, Mark Andersen, Kristian G. Wu, Chunlei Su, Andrew I. Gangavarapu, Karthik Hughes, Laura D. bioRxiv Article To combat the ongoing COVID-19 pandemic, scientists have been conducting research at breakneck speeds, producing over 52,000 peer-reviewed articles within the first year. To address the challenge in tracking the vast amount of new research located in separate repositories, we developed outbreak.info Research Library, a standardized, searchable interface of COVID-19 and SARS-CoV-2 resources. Unifying metadata from sixteen repositories, we assembled a collection of over 350,000 publications, clinical trials, datasets, protocols, and other resources as of October 2022. We used a rigorous schema to enforce consistency across different sources and resource types and linked related resources. Researchers can quickly search the latest research across data repositories, regardless of resource type or repository location, via a search interface, public API, and R package. Finally, we discuss the challenges inherent in combining metadata from scattered and heterogeneous resources and provide recommendations to streamline this process to aid scientific research. Cold Spring Harbor Laboratory 2022-12-07 /pmc/articles/PMC8820656/ /pubmed/35132411 http://dx.doi.org/10.1101/2022.01.20.477133 Text en https://creativecommons.org/licenses/by/4.0/This work is licensed under a Creative Commons Attribution 4.0 International License (https://creativecommons.org/licenses/by/4.0/) , which allows reusers to distribute, remix, adapt, and build upon the material in any medium or format, so long as attribution is given to the creator. The license allows for commercial use.
spellingShingle Article
Tsueng, Ginger
Mullen, Julia L.
Alkuzweny, Manar
Cano, Marco
Rush, Benjamin
Haag, Emily
Curators, Outbreak
Lin, Jason
Welzel, Dylan J.
Zhou, Xinghua
Qian, Zhongchao
Latif, Alaa Abdel
Hufbauer, Emory
Zeller, Mark
Andersen, Kristian G.
Wu, Chunlei
Su, Andrew I.
Gangavarapu, Karthik
Hughes, Laura D.
Outbreak.info Research Library: A standardized, searchable platform to discover and explore COVID-19 resources
title Outbreak.info Research Library: A standardized, searchable platform to discover and explore COVID-19 resources
title_full Outbreak.info Research Library: A standardized, searchable platform to discover and explore COVID-19 resources
title_fullStr Outbreak.info Research Library: A standardized, searchable platform to discover and explore COVID-19 resources
title_full_unstemmed Outbreak.info Research Library: A standardized, searchable platform to discover and explore COVID-19 resources
title_short Outbreak.info Research Library: A standardized, searchable platform to discover and explore COVID-19 resources
title_sort outbreak.info research library: a standardized, searchable platform to discover and explore covid-19 resources
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8820656/
https://www.ncbi.nlm.nih.gov/pubmed/35132411
http://dx.doi.org/10.1101/2022.01.20.477133
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