WonJin Yoon, PhD (윤원진)
It is pronounced like
[One gene🧬]
Research Interests: ClinicalNLP / BioNLP / NLP
Postdoctoral researcher at Harvard Medical School and Boston Children's Hospital
- Machine Learning for Medical Language (MLML) Lab
Former research collaborator of AstraZeneca
- Feb. 2020 ~ Apr. 2023
May. 2023 ~ Present
Postdoctoral researcher at MLML Lab,
Harvard Medical School and Boston Children's Hospital
MLML
Harvard Catalyst
2017 ~ Apr. 2023
Researcher at DMIS Lab, Korea University, Seoul (Jan 2017 ~ )
DMIS
Research collaborator, AstraZeneca (UK & Sweden), (Feb 2020 ~ )
Research Intern @ NAVER (Clova AI), (Sep~Dec, 2019)
2013 ~ 2016
B.S., CSE Major, Class of 2017. Korea University (고려대학교)
Exchange Student at NUS (National Univ. of Singapore) (2015)
Chairperson of KUICS ; Korea University Institute of Computer Security (Club) (2015)
KUICS
Chairperson of KU - Kyunggi high school Alumni Association(YB) (2014)
Chairperson of Inc0gnito Hacking Conference 2014
Incognito Conference
2012
Seoul Kyunggi High School (Class of 2012 ; 108th graduating class)
KAZU Project and a paper about the project
(Industrial Collaboration Project with AstraZeneca)
KAZU is a highly extensible, scalable open source framework designed to support BioNLP for the pharmaceutical sector.
This project is personally very meaningful to me as during my PhD days I always wanted to know the needs of the "real-world settings" and to challenge myself to bridge the gap between the lab and the real-world settings. This is because I wanted to conduct research that goes beyond the lab settings (i.e. restricted settings) and eventually helps to progress science.
My research collaboration with AstraZeneca started 3 years ago and was initiated from this aspiration. It was really a fantastic experience to work with scientists (special thanks to Richard Jackson) who struggle to fight together to connect recent research outputs to what is compatible for scientists from other academic subjects and industrial researchers.
(The name of the project and framework "KAZU" is named after characters from "Korea University" and "AstraZeneca")
KAZU web demo,
KAZU open-source repo
and Training code for NER NN module
[Paper] Biomedical NER for the Enterprise with Distillated BERN2 and the Kazu Framework
Wonjin Yoon, Richard Jackson, Aron Lagerberg and Jaewoo Kang
Work as a research collaborator of AstraZeneca PLC
EMNLP 2022, Abu Dhabi, UAE (Industry track)
Available on
arXiv
Sequence tagging for biomedical extractive question answering
Wonjin Yoon, Richard Jackson, Aron Lagerberg and Jaewoo Kang
Work as a research collaborator of AstraZeneca PLC
Bioinformatics, 2022, 1-8
Available on
Bioinformatics
and github
KU-DMIS at BioASQ 9: Data-centric and model-centric approaches for biomedical question answering
Wonjin Yoon, Jaehyo Yoo, Sumin Seo, Mujeen Sung, Minbyul Jeong, Gangwoo Kim and Jaewoo Kang
Original work accepted for BioASQ9b (@CLEF2021) and later invited to CLEF2022 Best of 2021 Labs paper track.
Available on
CLEF 2022 (Best paper track)
and BioASQ 9b (Original paper)
covidAsk: real-time QA system on COVID-19
Jinhyuk Lee, Minbyul Jeong, Mujeen Sung, Wonjin Yoon, Yonghwa Choi, Miyoung Ko, Seok-Won Lee and Jaewoo Kang
Available on
arXiv
and covidAsk
Pre-trained model for biomedical question answering
Wonjin Yoon, Jinhyuk Lee, Donghyeon Kim, Minbyul Jeong and Jaewoo Kang
Available on
arxiv
and github
BioBERT: a pre-trained biomedical language representation model for biomedical text mining
Jinhyuk Lee*, Wonjin Yoon*, Sungdong Kim, Donghyeon Kim, Sunkyu Kim, Chan Ho So and Jaewoo Kang
* Joint co-first authors; these authors contributed equally to the work.
One of the Best Papers for the Natural Language Processing Section of the 2020 IMIA (International Medical Informatics Association) Yearbook
Available on
Bioinformatics and
github(Fine-tuning codes)
* Joint co-first authors; these authors contributed equally to the work.
CollaboNet: collaboration of deep neural networks for biomedical named entity recognition
Wonjin Yoon*, Chan Ho So*, Jinhyuk Lee and Jaewoo Kang
BMC Bioinformatics 2019, 20(Suppl 10):249
Available on
here
(Open access)
and
github
* Joint co-first authors; these authors contributed equally to the work.
A Neural Named Entity Recognition and Multi-Type Normalization Tool for Biomedical Text Mining
Donghyeon Kim, Jinhyuk Lee, Chan Ho So, Hwisang Jeon, Minbyul Jeong, Yonghwa Choi, Wonjin Yoon, Mujeen Sung, Jaewoo Kang
IEEE Access, vol. 7, pp. 73729-73740, 2019.
Available on
IEEE
(Open access)
and
BERN
E Mail
WonJin Yoon
Ph.D. in Computer Science
Postdoc fellow at Harvard Medical School
Biomedical / Clinical Natural Language Processing