short-paper

COVIDSeer: Extending the CORD-19 Dataset

Authors:

Shaurya Rohatgi,

Sai Raghav Reddy Keesara,

Cornelia Caragea,

C. Lee GilesAuthors Info & Claims

DocEng '20: Proceedings of the ACM Symposium on Document Engineering 2020

Article No.: 21, Pages 1 - 4

https://doi.org/10.1145/3395027.3419597

Published: 29 September 2020 Publication History

Abstract

We develop an enhanced version of CORD-19 dataset released by the Allen Institute for AI. Tools in the SeerSuite project are used to exploit information in original articles not directly provided in the CORD-19 datasets. We add 728 new abstracts, 70,102 figures and 31,446 tables with captions that are not provided in the current data release. We also built a vertical search engine COVIDSeer based on the new dataset we created. COVIDSeer has a relatively simple architecture with features like keyword filtering, and similar paper recommendation. The goal was to provide a system and dataset that can help scientists better navigate through the literature concerning COVID-19. The enriched dataset can serve as a supplement to the existing dataset. The search engine, which offers keyphrase-enhanced search, will hopefully help biomedical and life science researchers, medical students, and the general public to more effectively explore coronavirus-related literature. The entire data set and the system will be made open source.

References

[1]

Iz Beltagy, Kyle Lo, and Arman Cohan. 2019. SciBERT: A Pretrained Language Model for Scientific Text. In Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language Processing (EMNLP-IJCNLP). 3606--3611.

[2]

Chandra Bhagavatula, Sergey Feldman, Russell Power, and Waleed Ammar. 2018. Content-Based Citation Recommendation. In Proceedings of the 2018 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies, Volume 1 (Long Papers). 238--251.

[3]

Cornelia Caragea, Florin Adrian Bulgarov, Andreea Godea, and Sujatha Das Gollapalli. 2014. Citation-Enhanced Keyphrase Extraction from Research Papers: A Supervised Approach. In Proceedings of the 2014 Conference on Empirical Methods in Natural Language Processing (EMNLP). Association for Computational Linguistics, Doha, Qatar, 1435--1446. https://doi.org/10.3115/v1/D14-1150

[4]

Hung-Hsuan Chen, Jian Wu, and C Lee Giles. 2017. Compiling Keyphrase Candidates for Scientific Literature Based on Wikipedia.

[5]

Christopher Clark and Santosh Divvala. 2015. Looking Beyond Text: Extracting Figures, Tables, and Captions from Computer Science Paper. (2015).

[6]

Emanuele Guidotti and David Ardia. 2020. COVID-19 data hub. (2020).

[7]

Jonathan Koren, Yi Zhang, and Xue Liu. 2008. Personalized Interactive Faceted Search. Association for Computing Machinery, New York, NY, USA.

[8]

Jimmy Lin. 2009. Is searching full text more effective than searching abstracts? BMC bioinformatics 10, 1 (2009), 46.

[9]

Patrice Lopez. 2009. GROBID: Combining Automatic Bibliographic Data Recognition and Term Extraction for Scholarship Publications. In ECDL.

[10]

Rodrigo Nogueira and Kyunghyun Cho. 2019. Passage Re-ranking with BERT. arXiv preprint arXiv:1901.04085 (2019).

[11]

Pradeep B Teregowda, Isaac G Councill, Juan Pablo Fernández Ramírez, Madian Khabsa, Shuyi Zheng, and C Lee Giles. 2010. SeerSuite: Developing a Scalable and Reliable Application Framework for Building Digital Libraries by Crawling the Web. WebApps 10 (2010), 14--14.

[12]

Lucy Lu Wang, Kyle Lo, Yoganand Chandrasekhar, Russell Reas, Jiangjiang Yang, Darrin Eide, Kathryn Funk, Rodney Michael Kinney, Ziyang Liu, William. Merrill, Paul Mooney, Dewey A. Murdick, Devvret Rishi, Jerry Sheehan, Zhihong Shen, Brandon Stilson, Alex D. Wade, Kuansan Wang, Christopher Wilhelm, Boya Xie, Douglas M. Raymond, Daniel S. Weld, Oren Etzioni, and Sebastian Kohlmeier. 2020. CORD-19: The Covid-19 Open Research Dataset. ArXiv abs/2004.10706 (2020).

[13]

Jian Wu, Jason Killian, Huaiyu Yang, Kyle Williams, Sagnik Ray Choudhury, Suppawong Tuarob, Cornelia Caragea, and C. Lee Giles. 2015. PDFMEF: A Multi-Entity Knowledge Extraction Framework for Scholarly Documents and Semantic Search. Association for Computing Machinery, New York, NY, USA.

[14]

Jian Wu, Kunho Kim, and C. Lee Giles. 2019. CiteSeerX: 20 years of service to scholarly big data. Proceedings of the Conference on Artificial Intelligence for Data Discovery and Reuse (2019).

Digital Library

[15]

Edwin Zhang, Nikhil Gupta, Rodrigo Nogueira, Kyunghyun Cho, and Jimmy Lin. 2020. Rapidly Deploying a Neural Search Engine for the COVID-19 Open Research Dataset: Preliminary Thoughts and Lessons Learned. arXiv:2004.05125 [cs.CL]

Cited By

Cajamarca Carrazco DHidalgo Cajo DJhon Alexander Ponce Alencastro JTípula Quispe N(2024)Evaluation of the use of virtual simulators for training in problem-solving skills in university studentsSalud, Ciencia y Tecnología10.56294/saludcyt202412814(1281)Online publication date: 1-Jan-2024
https://doi.org/10.56294/saludcyt20241281
Dai TZhao JLi DTian SZhao XPan S(2023)Heterogeneous deep graph convolutional network with citation relational BERT for COVID-19 inline citation recommendationExpert Systems with Applications: An International Journal10.1016/j.eswa.2022.118841213:PAOnline publication date: 1-Mar-2023
https://dl.acm.org/doi/10.1016/j.eswa.2022.118841
Mahdi MAhmad ANatiq HSubhi MQassim Q(2021)Comprehensive Review and Future Research Directions on Dynamic Faceted SearchApplied Sciences10.3390/app1117811311:17(8113)Online publication date: 31-Aug-2021
https://doi.org/10.3390/app11178113
Show More Cited By

Index Terms

COVIDSeer: Extending the CORD-19 Dataset
1. Information systems
  1. Information retrieval

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cover image ACM Conferences

DocEng '20: Proceedings of the ACM Symposium on Document Engineering 2020

September 2020

130 pages

ISBN:9781450380003

DOI:10.1145/3395027

Copyright © 2020 ACM.

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SIGWEB: ACM Special Interest Group on Hypertext, Hypermedia, and Web

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SIGDOC: ACM Special Interest Group for Design of Communications

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New York, NY, United States

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Published: 29 September 2020

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DocEng '20

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SIGWEB

DocEng '20: ACM Symposium on Document Engineering 2020

September 29 - October 1, 2020

CA, Virtual Event, USA

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Overall Acceptance Rate 194 of 564 submissions, 34%

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Cited By

Cajamarca Carrazco DHidalgo Cajo DJhon Alexander Ponce Alencastro JTípula Quispe N(2024)Evaluation of the use of virtual simulators for training in problem-solving skills in university studentsSalud, Ciencia y Tecnología10.56294/saludcyt202412814(1281)Online publication date: 1-Jan-2024
https://doi.org/10.56294/saludcyt20241281
Dai TZhao JLi DTian SZhao XPan S(2023)Heterogeneous deep graph convolutional network with citation relational BERT for COVID-19 inline citation recommendationExpert Systems with Applications: An International Journal10.1016/j.eswa.2022.118841213:PAOnline publication date: 1-Mar-2023
https://dl.acm.org/doi/10.1016/j.eswa.2022.118841
Mahdi MAhmad ANatiq HSubhi MQassim Q(2021)Comprehensive Review and Future Research Directions on Dynamic Faceted SearchApplied Sciences10.3390/app1117811311:17(8113)Online publication date: 31-Aug-2021
https://doi.org/10.3390/app11178113
Vergoulis TKanellos IChatzopoulos SPla Karidi DDalamagas T(2021)BIP4COVID19: Releasing impact measures for articles relevant to COVID-19Quantitative Science Studies10.1162/qss_a_001692:4(1447-1465)Online publication date: 1-Dec-2021
https://doi.org/10.1162/qss_a_00169
Sayed DNour MSchuldt HDiaz FShah CSuel TCastells PJones RSakai T(2021)Seer-Dock: A General-Purpose Dockerized Scholarly Document Collection and Management FrameworkProceedings of the 44th International ACM SIGIR Conference on Research and Development in Information Retrieval10.1145/3404835.3463251(2485-2490)Online publication date: 11-Jul-2021
https://dl.acm.org/doi/10.1145/3404835.3463251

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