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ORCIDYifan Peng 0002
Person information
- affiliation: Weill Cornell Medicine, Department of Population Health Sciences, New York City, NY, USA
- affiliation: National Institutes of Health (NIH), Bethesda, MD, USA
- affiliation (PhD 2016): University of Delaware, Newark, DE, USA
Other persons with the same name
- Yifan Peng (aka: Yi-Fan Peng) — disambiguation page
- Yifan Peng 0001
![[0000-0003-0667-2599]](https://dblp.dagstuhl.de/img/orcid-mark.12x12.png "0000-0003-0667-2599")
(aka: Yifan (Evan) Peng, Evan Yifan Peng) — University of Hong Kong, Computational Imaging & Mixed Representation Laboratory, Pokfulam, Hong Kong (and 3 more) - Yifan Peng 0003 — NVIDIA Corporation, Santa Clara, CA, USA (and 1 more)
- Yifan Peng 0004 — Duke University, Department of Radiology, Durham, NC, USA
- Yifan Peng 0005 — University of Chicago, Department of Statistics, Chicago, IL, USA (and 1 more)
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2020 – today
- 2026
[j55]Bernardo Consoli, Haoyang Wang, Xizhi Wu, Song Wang, Xinyu Zhao, Yanshan Wang, Justin F. Rousseau, Tom Hartvigsen, Li Shen, Huanmei Wu, Yifan Peng, Qi Long, Tianlong Chen, Ying Ding:
SDoH-GPT: using large language models to extract social determinants of health. J. Am. Medical Informatics Assoc. 33(1): 67-78 (2026)- 2025
- [j54]Fangyi Chen, Gongbo Zhang, Yilu Fang, Yifan Peng, Chunhua Weng:
Semi-supervised learning from small annotated data and large unlabeled data for fine-grained Participants, Intervention, Comparison, and Outcomes entity recognition. J. Am. Medical Informatics Assoc. 32(3): 555-565 (2025) - [j53]Shuyan Cheng, Yishu Wei, Yiliang Zhou, Zihan Xu, Drew N. Wright, Jinze Liu, Yifan Peng:
Deciphering genomic codes using advanced natural language processing techniques: a scoping review. J. Am. Medical Informatics Assoc. 32(4): 761-772 (2025) - [j52]Jian Chen, Leilei Su, Yihong Li, Mingquan Lin, Yifan Peng, Cong Sun:
A multimodal approach for few-shot biomedical named entity recognition in low-resource languages. J. Biomed. Informatics 161: 104754 (2025) - [j51]Yuhan Zhang, Yishu Wei, Yanshan Wang, Yunyu Xiao, Ronald K. Poropatich, Gretchen L. Haas, Yiye Zhang, Chunhua Weng, Jinze Liu, Lisa A. Brenner, James M. Bjork, Yifan Peng:
Machine learning applications related to suicide in military and Veterans: A scoping literature review. J. Biomed. Informatics 167: 104848 (2025) - [j50]Yilu Fang, Gongbo Zhang, Fangyi Chen, George Hripcsak, Yifan Peng, Patrick B. Ryan, Chunhua Weng:
CLEAR: A vision to support clinical evidence lifecycle with continuous learning. J. Biomed. Informatics 169: 104884 (2025) - [j49]Yilun Liang, Gongbo Zhang, Edward Sun, Betina Idnay, Yilu Fang, Fangyi Chen, Casey N. Ta, Yifan Peng, Chunhua Weng:
Scalable scientific interest profiling using large language models. J. Biomed. Informatics 172: 104949 (2025) - [j48]Mingquan Lin, Gregory Holste, Song Wang, Yiliang Zhou, Yishu Wei, Imon Banerjee, Pengyi Chen, Tianjie Dai, Yuexi Du, Nicha C. Dvornek, Yuyan Ge, Zuwei Guo, Shouhei Hanaoka, Dongkyun Kim, Pablo Messina, Yang Lu, Denis Parra, Donghyun Son, Álvaro Soto, Aisha Urooj, René Vidal, Yosuke Yamagishi, Pingkun Yan, Zefan Yang, Ruichi Zhang, Yang Zhou, Leo Anthony Celi, Ronald M. Summers, Zhiyong Lu, Hao Chen, Adam E. Flanders, George Shih, Zhangyang Wang, Yifan Peng:
CXR-LT 2024: A MICCAI challenge on long-tailed, multi-label, and zero-shot disease classification from chest X-ray. Medical Image Anal. 106: 103739 (2025) - [j47]Gongbo Zhang, Zihan Xu, Qiao Jin, Fangyi Chen, Yilu Fang, Yi Liu, Justin F. Rousseau, Ziyang Xu, Zhiyong Lu, Chunhua Weng, Yifan Peng:
Leveraging long context in retrieval augmented language models for medical question answering. npj Digit. Medicine 8(1) (2025) - [j46]Junkai Cheng, Yi-Jia Zhang, Hengyi Zhang, Yifan Peng, Mingyu Lu:
An Interpretable Complex Knowledge Multi-Hop Reasoning Model for Predicting Synthetic Lethality in Human Cancers. IEEE Trans. Comput. Biol. Bioinform. 22(6): 3386-3398 (2025) - [c52]Zihan Xu, Haotian Ma, Yihao Ding, Gongbo Zhang, Chunhua Weng, Yifan Peng:
Natural Language Processing in Support of Evidence-based Medicine: A Scoping Review. ACL (Findings) 2025: 21421-21443 - [c51]Feilong Tang, Chengzhi Liu, Zhongxing Xu, Ming Hu, Zile Huang, Haochen Xue, Ziyang Chen, Zelin Peng, Zhiwei Yang, Sijin Zhou, Wenxue Li, Yulong Li, Wenxuan Song, Shiyan Su, Wei Feng, Jionglong Su, Mingquan Lin, Yifan Peng, Xuelian Cheng, Imran Razzak, Zongyuan Ge:
Seeing Far and Clearly: Mitigating Hallucinations in MLLMs with Attention Causal Decoding. CVPR 2025: 26147-26159 - [i84]Zifeng Wang, Lang Cao, Qiao Jin, Joey Chan, Nicholas Wan, Behdad Afzali, Hyunjin Cho, Changin Choi, Mehdi Emamverdi, Manjot K. Gill, Sun-Hyung Kim, Yijia Li, Yi Liu, Hanley Ong, Justin F. Rousseau, Irfan Sheikh, Jenny J. Wei, Ziyang Xu, Christopher M. Zallek, Kyungsang Kim, Yifan Peng, Zhiyong Lu, Jimeng Sun:
A foundation model for human-AI collaboration in medical literature mining. CoRR abs/2501.16255 (2025) - [i83]Ying Lei, Yancheng Cao, Will Wang, Yuanzhe Dong, Changchang Yin, Weidan Cao, Ping Zhang, Jingzhen Yang, Bingsheng Yao, Yifan Peng, Chunhua Weng, Randy Auerbach, Lena Mamykina, Dakuo Wang, Yuntao Wang, Xuhai Xu:
WatchGuardian: Enabling User-Defined Personalized Just-in-Time Intervention on Smartwatch. CoRR abs/2502.05783 (2025) - [i82]Juncheng Wu, Wenlong Deng, Xingxuan Li, Sheng Liu, Taomian Mi, Yifan Peng, Ziyang Xu, Yi Liu, Hyunjin Cho, Changin Choi, Yihan Cao, Hui Ren, Xiang Li, Xiaoxiao Li, Yuyin Zhou:
MedReason: Eliciting Factual Medical Reasoning Steps in LLMs via Knowledge Graphs. CoRR abs/2504.00993 (2025) - [i81]Cong Sun, Kurt Teichman, Yiliang Zhou, Brian Critelli, David Nauheim, Graham Keir, Xindi Wang, Judy Zhong, Adam E. Flanders, George Shih, Yifan Peng:
Generative Large Language Models Trained for Detecting Errors in Radiology Reports. CoRR abs/2504.04336 (2025) - [i80]Yuhan Zhang, Yishu Wei, Yanshan Wang, Yunyu Xiao, Ronald K. Poropatich, Gretchen L. Haas, Yiye Zhang, Chunhua Weng, Jinze Liu, Lisa A. Brenner, James M. Bjork, Yifan Peng:
Machine Learning Applications Related to Suicide in Military and Veterans: A Scoping Literature Review. CoRR abs/2505.12220 (2025) - [i79]Feilong Tang, Chengzhi Liu, Zhongxing Xu, Ming Hu, Zelin Peng, Zhiwei Yang, Jionglong Su, Minquan Lin, Yifan Peng, Xuelian Cheng, Imran Razzak, Zongyuan Ge:
Seeing Far and Clearly: Mitigating Hallucinations in MLLMs with Attention Causal Decoding. CoRR abs/2505.16652 (2025) - [i78]Zihan Xu, Haotian Ma, Gongbo Zhang, Yihao Ding, Chunhua Weng, Yifan Peng:
Natural Language Processing in Support of Evidence-based Medicine: A Scoping Review. CoRR abs/2505.22280 (2025) - [i77]Yiliang Zhou, Abigail M. Newbury, Gongbo Zhang, Betina Ross S. Idnay, Hao Liu, Chunhua Weng, Yifan Peng:
EvidenceOutcomes: a Dataset of Clinical Trial Publications with Clinically Meaningful Outcomes. CoRR abs/2506.05380 (2025) - [i76]Mingquan Lin, Gregory Holste, Song Wang, Yiliang Zhou, Yishu Wei, Imon Banerjee, Pengyi Chen, Tianjie Dai, Yuexi Du, Nicha C. Dvornek, Yuyan Ge, Zuowei Guo, Shouhei Hanaoka, Dongkyun Kim, Pablo Messina, Yang Lu, Denis Parra, Donghyun Son, Álvaro Soto, Aisha Urooj, René Vidal, Yosuke Yamagishi, Zefan Yang, Ruichi Zhang, Yang Zhou, Leo Anthony Celi, Ronald M. Summers, Zhiyong Lu, Hao Chen, Adam E. Flanders, George Shih, Zhangyang Wang, Yifan Peng:
CXR-LT 2024: A MICCAI challenge on long-tailed, multi-label, and zero-shot disease classification from chest X-ray. CoRR abs/2506.07984 (2025) - [i75]Song Wang, Yishu Wei, Haotian Ma, Max Lovitt, Kelly Deng, Yuan Meng, Zihan Xu, Jingze Zhang, Yunyu Xiao, Ying Ding, Xuhai Xu, Joydeep Ghosh, Yifan Peng:
A Multi-Stage Large Language Model Framework for Extracting Suicide-Related Social Determinants of Health. CoRR abs/2508.05003 (2025) - [i74]Zilong Bai, Zihan Xu, Cong Sun, Chengxi Zang, H. Timothy Bunnell, Catherine Sinfield, Jacqueline R. M. A. Maasch, Aaron Thomas Martinez, L. Charles Bailey, Mark G. Weiner, Thomas R. Campion Jr., Thomas Carton, Christopher B. Forrest, Rainu Kaushal, Fei Wang, Yifan Peng:
Extracting Post-Acute Sequelae of SARS-CoV-2 Infection Symptoms from Clinical Notes via Hybrid Natural Language Processing. CoRR abs/2508.12405 (2025) - [i73]Yilun Liang, Gongbo Zhang, Edward Sun, Betina Idnay, Yilu Fang, Fangyi Chen, Casey N. Ta, Yifan Peng, Chunhua Weng:
Scalable Scientific Interest Profiling Using Large Language Models. CoRR abs/2508.15834 (2025) - [i72]Yiran Song, Yikai Zhang, Silvia Orengo-Nania, Nian Wang, Fenglong Ma, Rui Zhang, Yifan Peng, Mingquan Lin:
Two-Stage Decoupling Framework for Variable-Length Glaucoma Prognosis. CoRR abs/2509.12453 (2025) - [i71]Adam E. Flanders, Yifan Peng, Luciano M. Prevedello, Robyn L. Ball, Errol Colak, Prahlad Menon, George Shih, Hui-Ming Lin, Paras Lakhani:
A Multi-agent Large Language Model Framework to Automatically Assess Performance of a Clinical AI Triage Tool. CoRR abs/2510.26498 (2025) - [i70]Xizhi Wu, Nelly Estefanie Garduno-Rapp, Justin F. Rousseau, Mounika Thakkallapally, Hang Zhang, Yuelyu Ji, Shyam Visweswaran, Yifan Peng, Yanshan Wang:
Orchestrator Multi-Agent Clinical Decision Support System for Secondary Headache Diagnosis in Primary Care. CoRR abs/2512.04207 (2025) - 2024
- [j45]Jiayi Tong, Chongliang Luo, Yifei Sun, Rui Duan, M. Elle Saine, Lifeng Lin, Yifan Peng, Yiwen Lu, Anchita Batra, Anni Pan, Olivia Wang, Ruowang Li, Arielle Marks-Anglin, Yuchen Yang, Xu Zuo, Yulun Liu, Jiang Bian, Stephen E. Kimmel, Keith Hamilton, Adam Cuker, Rebecca A. Hubbard, Hua Xu, Yong Chen:
Confidence score: a data-driven measure for inclusive systematic reviews considering unpublished preprints. J. Am. Medical Informatics Assoc. 31(4): 809-819 (2024) - [j44]Gongbo Zhang, Yiliang Zhou, Yan Hu, Hua Xu, Chunhua Weng, Yifan Peng:
A span-based model for extracting overlapping PICO entities from randomized controlled trial publications. J. Am. Medical Informatics Assoc. 31(5): 1163-1171 (2024) - [j43]Yishu Wei, Yu Deng, Cong Sun, Mingquan Lin, Hongmei Jiang, Yifan Peng:
Deep learning with noisy labels in medical prediction problems: a scoping review. J. Am. Medical Informatics Assoc. 31(7): 1596-1607 (2024) - [j42]Zhiyong Lu, Yifan Peng, Trevor Cohen, Marzyeh Ghassemi, Chunhua Weng, Shubo Tian:
Large language models in biomedicine and health: current research landscape and future directions. J. Am. Medical Informatics Assoc. 31(9): 1801-1811 (2024) - [j41]Gongbo Zhang, Qiao Jin, Denis Jered McInerney, Yong Chen, Fei Wang, Curtis L. Cole, Qian Yang, Yanshan Wang, Bradley A. Malin, Mor Peleg, Byron C. Wallace, Zhiyong Lu, Chunhua Weng, Yifan Peng:
Leveraging generative AI for clinical evidence synthesis needs to ensure trustworthiness. J. Biomed. Informatics 153: 104640 (2024) - [j40]Zehao Yu, Cheng Peng, Xi Yang, Chong Dang, Prakash Adekkanattu, Braja Gopal Patra, Yifan Peng, Jyotishman Pathak, Debbie L. Wilson, Ching-Yuan Chang, Wei-Hsuan Lo-Ciganic, Thomas J. George, William R. Hogan, Yi Guo, Jiang Bian, Yonghui Wu:
Identifying social determinants of health from clinical narratives: A study of performance, documentation ratio, and potential bias. J. Biomed. Informatics 153: 104642 (2024) - [j39]Yifan Yang, Mingquan Lin, Han Zhao, Yifan Peng, Furong Huang, Zhiyong Lu:
A survey of recent methods for addressing AI fairness and bias in biomedicine. J. Biomed. Informatics 154: 104646 (2024) - [j38]Jiang Bian, Yifan Peng, Eneida A. Mendonça, Imon Banerjee, Hua Xu, Hong Sun, Ye Ye, Casey Overby Taylor, Anália Maria Garcia Lourenço, Alejandro Rodríguez González, Elena Tutubalina:
Call for papers: Special issue on biomedical multimodal large language models - novel approaches and applications. J. Biomed. Informatics 157: 104703 (2024) - [j37]Leilei Su, Jian Chen, Yifan Peng, Cong Sun:
Demonstration-based learning for few-shot biomedical named entity recognition under machine reading comprehension. J. Biomed. Informatics 159: 104739 (2024) - [j36]Gregory Holste, Yiliang Zhou, Song Wang, Ajay Jaiswal, Mingquan Lin, Sherry Zhuge, Yuzhe Yang, Dongkyun Kim, Trong-Hieu Nguyen Mau, Minh-Triet Tran, Jaehyup Jeong, Wongi Park, Jongbin Ryu, Feng Hong, Arsh Verma, Yosuke Yamagishi, Changhyun Kim, Hyeryeong Seo, Myungjoo Kang, Leo Anthony Celi, Zhiyong Lu, Ronald M. Summers, George Shih, Zhangyang Wang, Yifan Peng:
Towards long-tailed, multi-label disease classification from chest X-ray: Overview of the CXR-LT challenge. Medical Image Anal. 97: 103224 (2024) - [j35]Gregory Holste, Mingquan Lin, Ruiwen Zhou, Fei Wang, Lei Liu, Qi Yan, Sarah Van Tassel, Kyle Kovacs, Emily Y. Chew, Zhiyong Lu, Zhangyang Wang, Yifan Peng:
Harnessing the power of longitudinal medical imaging for eye disease prognosis using Transformer-based sequence modeling. npj Digit. Medicine 7(1) (2024) - [j34]Gregory Holste, Mingquan Lin, Ruiwen Zhou, Fei Wang, Lei Liu, Qi Yan, Sarah Van Tassel, Kyle Kovacs, Emily Y. Chew, Zhiyong Lu, Zhangyang Wang, Yifan Peng:
Author Correction: Harnessing the power of longitudinal medical imaging for eye disease prognosis using Transformer-based sequence modeling. npj Digit. Medicine 7(1) (2024) - [j33]Qiao Jin, Fangyuan Chen, Yiliang Zhou, Ziyang Xu, Justin M. Cheung, Robert Chen, Ronald M. Summers, Justin F. Rousseau, Peiyun Ni, Marc J. Landsman, Sally L. Baxter, Subhi J. Al'Aref, Yijia Li, Alexander Chen, Josef A. Brejt, Michael F. Chiang, Yifan Peng, Zhiyong Lu:
Hidden flaws behind expert-level accuracy of multimodal GPT-4 vision in medicine. npj Digit. Medicine 7(1) (2024) - [j32]Thomas Yu Chow Tam, Sonish Sivarajkumar, Sumit Kapoor, Alisa V. Stolyar, Katelyn Polanska, Karleigh R. McCarthy, Hunter Osterhoudt, Xizhi Wu, Shyam Visweswaran, Sunyang Fu, Piyush Mathur, Giovanni E. Cacciamani, Cong Sun, Yifan Peng, Yanshan Wang:
A framework for human evaluation of large language models in healthcare derived from literature review. npj Digit. Medicine 7(1) (2024) - [j31]Gongbo Zhang, Qiao Jin, Yiliang Zhou, Song Wang, Betina Idnay, Yiming Luo, Elizabeth Park, Jordan G. Nestor, Matthew E. Spotnitz, Ali Soroush, Thomas Campion, Zhiyong Lu, Chunhua Weng, Yifan Peng:
Closing the gap between open source and commercial large language models for medical evidence summarization. npj Digit. Medicine 7(1) (2024) - [c50]Max Lovitt, Haotian Ma, Song Wang, Yifan Peng:
Suicide Risk Assessment on Social Media with Semi-Supervised Learning. IEEE Big Data 2024: 8541-8549 - [c49]Richard Li Xu, Song Wang, Zewei Wang, Yuhan Zhang, Yunyu Xiao, Jyotishman Pathak, David Hodge, Yan Leng, S. Craig Watkins, Ying Ding, Yifan Peng:
Analyzing Social Factors to Enhance Suicide Prevention Across Population Groups. ICHI 2024: 189-199 - [i69]Gongbo Zhang, Yiliang Zhou, Yan Hu, Hua Xu, Chunhua Weng, Yifan Peng:
A Span-based Model for Extracting Overlapping PICO Entities from RCT Publications. CoRR abs/2401.06791 (2024) - [i68]Qiao Jin, Fangyuan Chen, Yiliang Zhou, Ziyang Xu, Justin M. Cheung, Robert Chen, Ronald M. Summers, Justin F. Rousseau, Peiyun Ni, Marc J. Landsman, Sally L. Baxter, Subhi J. Al'Aref, Yijia Li, Michael F. Chiang, Yifan Peng, Zhiyong Lu:
Hidden Flaws Behind Expert-Level Accuracy of GPT-4 Vision in Medicine. CoRR abs/2401.08396 (2024) - [i67]Mingquan Lin, Tianhao Li, Zhaoyi Sun, Gregory Holste, Ying Ding, Fei Wang, George Shih, Yifan Peng:
Improving Fairness of Automated Chest X-ray Diagnosis by Contrastive Learning. CoRR abs/2401.15111 (2024) - [i66]Yifan Yang, Mingquan Lin, Han Zhao, Yifan Peng, Furong Huang, Zhiyong Lu:
A survey of recent methods for addressing AI fairness and bias in biomedicine. CoRR abs/2402.08250 (2024) - [i65]Yishu Wei, Yu Deng, Cong Sun, Mingquan Lin, Hongmei Jiang, Yifan Peng:
Deep learning with noisy labels in medical prediction problems: a scoping review. CoRR abs/2403.13111 (2024) - [i64]Yiliang Zhou, Hanley Ong, Patrick Kennedy, Carol C. Wu, Jacob Kazam, Keith Hentel, Adam E. Flanders, George Shih, Yifan Peng:
Evaluating GPT-4 with Vision on Detection of Radiological Findings on Chest Radiographs. CoRR abs/2403.15528 (2024) - [i63]Song Wang, Yiliang Zhou, Ziqiang Han, Cui Tao, Yunyu Xiao, Ying Ding, Joydeep Ghosh, Yifan Peng:
Uncovering Misattributed Suicide Causes through Annotation Inconsistency Detection in Death Investigation Notes. CoRR abs/2403.19432 (2024) - [i62]Thomas Yu Chow Tam, Sonish Sivarajkumar, Sumit Kapoor, Alisa V. Stolyar, Katelyn Polanska, Karleigh R. McCarthy, Hunter Osterhoudt, Xizhi Wu, Shyam Visweswaran, Sunyang Fu, Piyush Mathur, Giovanni E. Cacciamani, Cong Sun, Yifan Peng, Yanshan Wang:
A Literature Review and Framework for Human Evaluation of Generative Large Language Models in Healthcare. CoRR abs/2405.02559 (2024) - [i61]Gregory Holste, Mingquan Lin, Ruiwen Zhou, Fei Wang, Lei Liu, Qi Yan, Sarah Van Tassel, Kyle Kovacs, Emily Y. Chew, Zhiyong Lu, Zhangyang Wang, Yifan Peng:
Harnessing the power of longitudinal medical imaging for eye disease prognosis using Transformer-based sequence modeling. CoRR abs/2405.08780 (2024) - [i60]Bernardo Consoli, Xizhi Wu, Song Wang, Xinyu Zhao, Yanshan Wang, Justin F. Rousseau, Tom Hartvigsen, Li Shen, Huanmei Wu, Yifan Peng, Qi Long, Tianlong Chen, Ying Ding:
SDoH-GPT: Using Large Language Models to Extract Social Determinants of Health (SDoH). CoRR abs/2407.17126 (2024) - [i59]Gongbo Zhang, Qiao Jin, Yiliang Zhou, Song Wang, Betina Ross S. Idnay, Yiming Luo, Elizabeth Park, Jordan G. Nestor, Matthew E. Spotnitz, Ali Soroush, Thomas Campion, Zhiyong Lu, Chunhua Weng, Yifan Peng:
Closing the gap between open-source and commercial large language models for medical evidence summarization. CoRR abs/2408.00588 (2024) - [i58]Yishu Wei, Xindi Wang, Hanley Ong, Yiliang Zhou, Adam E. Flanders, George Shih, Yifan Peng:
Enhancing disease detection in radiology reports through fine-tuning lightweight LLM on weak labels. CoRR abs/2409.16563 (2024) - [i57]Betina Idnay, Zihan Xu, William G. Adams, Mohammad Adibuzzaman, Nicholas R. Anderson, Neil Bahroos, Douglas S. Bell, Cody Bumgardner, Thomas R. Campion Jr., Victor M. Castro, James J. Cimino, I. Glenn Cohen, David A. Dorr, Peter L. Elkin, Jungwei W. Fan, Todd Ferris, David J. Foran, David A. Hanauer, Mike Hogarth, Kun Huang, Jayashree Kalpathy-Cramer, Manoj Kandpal, Niranjan S. Karnik, Avnish Katoch, Albert M. Lai, Christophe G. Lambert, Lang Li, Christopher J. Lindsell, Jinze Liu, Zhiyong Lu, Yuan Luo, Peter McGarvey, Eneida A. Mendonça, Parsa Mirhaji, Shawn N. Murphy, John D. Osborne, Ioannis Ch. Paschalidis, Paul A. Harris, Fred W. Prior, Nicholas J. Shaheen, Nawar Shara, Ida Sim, Umberto Tachinardi, Lemuel R. Waitman, Rosalind J. Wright, Adrian H. Zai, Kai Zheng, Sandra Soo-Jin Lee, Bradley A. Malin, Karthik Natarajan, W. Nicholson Price, Rui Zhang, Yiye Zhang, Hua Xu, Jiang Bian, Chunhua Weng, Yifan Peng:
Environment Scan of Generative AI Infrastructure for Clinical and Translational Science. CoRR abs/2410.12793 (2024) - [i56]John X. Morris, Thomas R. Campion Jr., Sri Laasya Nutheti, Yifan Peng, Akhil Raj, Ramin Zabih, Curtis L. Cole:
DIRI: Adversarial Patient Reidentification with Large Language Models for Evaluating Clinical Text Anonymization. CoRR abs/2410.17035 (2024) - [i55]Qiao Jin, Nicholas Wan, Robert Leaman, Shubo Tian, Zhizheng Wang, Yifan Yang, Zifeng Wang, Guangzhi Xiong, Po-Ting Lai, Qingqing Zhu, Benjamin Hou, Maame Sarfo-Gyamfi, Gongbo Zhang, Aidan Gilson, Balu Bhasuran, Zhe He, Aidong Zhang, Jimeng Sun, Chunhua Weng, Ronald M. Summers, Qingyu Chen, Yifan Peng, Zhiyong Lu:
Demystifying Large Language Models for Medicine: A Primer. CoRR abs/2410.18856 (2024) - [i54]Max Lovitt, Haotian Ma, Song Wang, Yifan Peng:
Suicide Risk Assessment on Social Media with Semi-Supervised Learning. CoRR abs/2411.12767 (2024) - [i53]Shuyan Cheng, Yishu Wei, Yiliang Zhou, Zihan Xu, Drew N. Wright, Jinze Liu, Yifan Peng:
Deciphering genomic codes using advanced NLP techniques: a scoping review. CoRR abs/2411.16084 (2024) - [i52]Gongbo Zhang, Zihan Xu, Qiao Jin, Fangyi Chen, Yilu Fang, Yi Liu, Justin F. Rousseau, Ziyang Xu, Zhiyong Lu, Chunhua Weng, Yifan Peng:
A MapReduce Approach to Effectively Utilize Long Context Information in Retrieval Augmented Language Models. CoRR abs/2412.15271 (2024) - [i51]Fangyi Chen, Gongbo Zhang, Yilu Fang, Yifan Peng, Chunhua Weng:
Semi-Supervised Learning from Small Annotated Data and Large Unlabeled Data for Fine-grained PICO Entity Recognition. CoRR abs/2412.19346 (2024) - 2023
- [j30]Mingquan Lin, Bo-Jian Hou, Swati Mishra, Tianyuan Yao, Yuankai Huo, Qian Yang, Fei Wang, George Shih, Yifan Peng:
Enhancing thoracic disease detection using chest X-rays from PubMed Central Open Access. Comput. Biol. Medicine 159: 106962 (2023) - [j29]Inci M. Baytas, Yifan Peng, Arzucan Özgür:
Editorial: Pattern recognition for healthcare analytics. Frontiers Digit. Health 5 (2023) - [j28]Tian Kang, Yingcheng Sun, Jae Hyun Kim, Casey N. Ta, Adler J. Perotte, Kayla Schiffer, Mutong Wu, Yang Zhao, Nour Moustafa-Fahmy, Yifan Peng, Chunhua Weng:
EvidenceMap: a three-level knowledge representation for medical evidence computation and comprehension. J. Am. Medical Informatics Assoc. 30(6): 1022-1031 (2023) - [j27]Song Wang, Yifang Dang, Zhaoyi Sun, Ying Ding, Jyotishman Pathak, Cui Tao, Yunyu Xiao, Yifan Peng:
An NLP approach to identify SDoH-related circumstance and suicide crisis from death investigation narratives. J. Am. Medical Informatics Assoc. 30(8): 1408-1417 (2023) - [j26]Vipina Kuttichi Keloth, Juan M. Banda, Michael J. Gurley, Paul M. Heider, Georgina Kennedy, Hongfang Liu, Feifan Liu, Timothy Miller, Karthik Natarajan, Olga V. Patterson, Yifan Peng, Kalpana Raja, Ruth M. Reeves, Masoud Rouhizadeh, Jianlin Shi, Xiaoyan Wang, Yanshan Wang, Wei-Qi Wei, Andrew E. Williams, Rui Zhang, Rimma Belenkaya, Christian G. Reich, Clair Blacketer, Patrick B. Ryan, George Hripcsak, Noémie Elhadad, Hua Xu:
Representing and utilizing clinical textual data for real world studies: An OHDSI approach. J. Biomed. Informatics 142: 104343 (2023) - [j25]Zhaoyi Sun, Mingquan Lin, Qingqing Zhu, Qianqian Xie, Fei Wang, Zhiyong Lu, Yifan Peng:
A scoping review on multimodal deep learning in biomedical images and texts. J. Biomed. Informatics 146: 104482 (2023) - [j24]David Oniani, Jordan Hilsman, Yifan Peng, Ronald K. Poropatich, Jeremy C. Pamplin, Gary L. Legault, Yanshan Wang:
Adopting and expanding ethical principles for generative artificial intelligence from military to healthcare. npj Digit. Medicine 6 (2023) - [j23]Liyan Tang, Zhaoyi Sun, Betina Ross S. Idnay, Jordan G. Nestor, Ali Soroush, Pierre A. Elias, Ziyang Xu, Ying Ding, Greg Durrett, Justin F. Rousseau, Chunhua Weng, Yifan Peng:
Evaluating large language models on medical evidence summarization. npj Digit. Medicine 6 (2023) - [j22]Yan Han, Gregory Holste, Ying Ding, Ahmed H. Tewfik, Yifan Peng, Zhangyang Wang:
Radiomics-Guided Global-Local Transformer for Weakly Supervised Pathology Localization in Chest X-Rays. IEEE Trans. Medical Imaging 42(3): 750-761 (2023) - [c48]Liyan Tang, Yifan Peng, Yanshan Wang, Ying Ding, Greg Durrett, Justin F. Rousseau:
Less Likely Brainstorming: Using Language Models to Generate Alternative Hypotheses. ACL (Findings) 2023: 12532-12555 - [c47]Tingyi Wanyan, Mingquan Lin, Ying Ding, Benjamin S. Glicksberg, Fei Wang, Yifan Peng:
Optimizing Embedding Space with Sub-categorical Supervised Pre-training: A Theoretical Approach Towards Improving Sepsis Prediction. ICHI 2023: 101-110 - [c46]Leilei Su, Zezheng Wang, Yifan Peng, Cong Sun:
Identification of Offensive Language in Social Media Using Prompt Learning. ICHI 2023: 690-691 - [c45]Qingqing Zhu, Tejas Sudharshan Mathai, Pritam Mukherjee, Yifan Peng, Ronald M. Summers, Zhiyong Lu:
Utilizing Longitudinal Chest X-Rays and Reports to Pre-fill Radiology Reports. MICCAI (5) 2023: 189-198 - [c44]Gregory Holste, Ziyu Jiang, Ajay Jaiswal, Maria Hanna, Shlomo Minkowitz, Alan C. Legasto, Joanna G. Escalon, Sharon Steinberger, Mark Bittman, Thomas C. Shen, Ying Ding, Ronald M. Summers, George Shih, Yifan Peng, Zhangyang Wang:
How Does Pruning Impact Long-Tailed Multi-label Medical Image Classifiers? MICCAI (5) 2023: 663-673 - [c43]Hao Liu, Yifan Peng, Chunhua Weng:
How Good Is ChatGPT for Medication Evidence Synthesis? MIE 2023: 1062-1066 - [c42]Ajay Jaiswal, Tianlong Chen, Justin F. Rousseau, Yifan Peng, Ying Ding, Zhangyang Wang:
Attend Who is Weak: Pruning-assisted Medical Image Localization under Sophisticated and Implicit Imbalances. WACV 2023: 4976-4985 - [i50]Mingquan Lin, Yuyun Xiao, Bo-Jian Hou, Tingyi Wanyan, Mohit Manoj Sharma, Zhangyang Wang, Fei Wang, Sarah Van Tassel, Yifan Peng:
Evaluate underdiagnosis and overdiagnosis bias of deep learning model on primary open-angle glaucoma diagnosis in under-served patient populations. CoRR abs/2301.11315 (2023) - [i49]Qianqian Xie, Jiayu Zhou, Yifan Peng, Fei Wang:
FactReranker: Fact-guided Reranker for Faithful Radiology Report Summarization. CoRR abs/2303.08335 (2023) - [i48]Liyan Tang, Yifan Peng, Yanshan Wang, Ying Ding, Greg Durrett, Justin F. Rousseau:
Less Likely Brainstorming: Using Language Models to Generate Alternative Hypotheses. CoRR abs/2305.19339 (2023) - [i47]Qingqing Zhu, Tejas Sudharshan Mathai, Pritam Mukherjee, Yifan Peng, Ronald M. Summers, Zhiyong Lu:
Utilizing Longitudinal Chest X-Rays and Reports to Pre-Fill Radiology Reports. CoRR abs/2306.08749 (2023) - [i46]Zhaoyi Sun, Mingquan Lin, Qingqing Zhu, Qianqian Xie, Fei Wang, Zhiyong Lu, Yifan Peng:
A scoping review on multimodal deep learning in biomedical images and texts. CoRR abs/2307.07362 (2023) - [i45]Mingquan Lin, Song Wang, Ying Ding, Lihui Zhao, Fei Wang, Yifan Peng:
An empirical study of using radiology reports and images to improve ICU mortality prediction. CoRR abs/2307.07513 (2023) - [i44]Haoju Leng, Ruining Deng, Shunxing Bao, Dazheng Fang, Bryan A. Millis, Yucheng Tang, Haichun Yang, Xiao Wang, Yifan Peng, Lipeng Wan, Yuankai Huo:
High-performance Data Management for Whole Slide Image Analysis in Digital Pathology. CoRR abs/2308.05784 (2023) - [i43]Leilei Su, Jian Chen, Yifan Peng, Cong Sun:
Demonstration-based learning for few-shot biomedical named entity recognition under machine reading comprehension. CoRR abs/2308.06454 (2023) - [i42]Gregory Holste, Ziyu Jiang, Ajay Jaiswal, Maria Hanna, Shlomo Minkowitz, Alan C. Legasto, Joanna G. Escalon, Sharon Steinberger, Mark Bittman, Thomas C. Shen, Ying Ding, Ronald M. Summers, George Shih, Yifan Peng, Zhangyang Wang:
How Does Pruning Impact Long-Tailed Multi-Label Medical Image Classifiers? CoRR abs/2308.09180 (2023) - [i41]Gregory Holste, Yiliang Zhou, Song Wang, Ajay Jaiswal, Mingquan Lin, Sherry Zhuge, Yuzhe Yang, Dongkyun Kim, Trong-Hieu Nguyen Mau, Minh-Triet Tran, Jaehyup Jeong, Wongi Park, Jongbin Ryu, Feng Hong, Arsh Verma, Yosuke Yamagishi, Changhyun Kim, Hyeryeong Seo, Myungjoo Kang, Leo Anthony Celi, Zhiyong Lu, Ronald M. Summers, George Shih, Zhangyang Wang, Yifan Peng:
Towards long-tailed, multi-label disease classification from chest X-ray: Overview of the CXR-LT challenge. CoRR abs/2310.16112 (2023) - [i40]Gongbo Zhang, Qiao Jin, Denis Jered McInerney, Yong Chen, Fei Wang, Curtis L. Cole, Qian Yang, Yanshan Wang, Bradley A. Malin, Mor Peleg, Byron C. Wallace, Zhiyong Lu, Chunhua Weng, Yifan Peng:
Leveraging Generative AI for Clinical Evidence Summarization Needs to Achieve Trustworthiness. CoRR abs/2311.11211 (2023) - 2022
- [j21]Pascal S. Brandt, Jennifer A. Pacheco, Prakash Adekkanattu, Evan Sholle, Sajjad Abedian, Daniel J. Stone, David Knaack, Jie Xu, Zhenxing Xu, Yifan Peng, Natalie C. Benda, Fei Wang, Yuan Luo, Guoqian Jiang, Jyotishman Pathak, Luke V. Rasmussen:
Design and validation of a FHIR-based EHR-driven phenotyping toolbox. J. Am. Medical Informatics Assoc. 29(9): 1449-1460 (2022) - [j20]Song Wang, Liyan Tang, Akash Majety, Justin F. Rousseau, George Shih, Ying Ding, Yifan Peng:
Trustworthy assertion classification through prompting. J. Biomed. Informatics 132: 104139 (2022) - [j19]Shuai Wang, Yingying Zhu, Sungwon Lee, Daniel C. Elton, Thomas C. Shen, Youbao Tang, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
Global-Local attention network with multi-task uncertainty loss for abnormal lymph node detection in MR images. Medical Image Anal. 77: 102345 (2022) - [j18]Xiaoshuang Shi, Yifan Peng, Qingyu Chen, Tiarnan D. Keenan, Alisa T. Thavikulwat, Sungwon Lee, Yuxing Tang, Emily Y. Chew, Ronald M. Summers, Zhiyong Lu:
Robust convolutional neural networks against adversarial attacks on medical images. Pattern Recognit. 132: 108923 (2022) - [c41]Song Wang, Liyan Tang, Akash Majety, Justin F. Rousseau, George Shih, Ying Ding, Yifan Peng:
Prompt-based Learning for Assertion Classification in Clinical Notes. AMIA 2022 - [c40]Tingyi Wanyan, Mingquan Lin, Eyal Klang, Kartikeya M. Menon, Faris F. Gulamali, Ariful Azad, Yiye Zhang, Ying Ding, Zhangyang Wang, Fei Wang, Benjamin S. Glicksberg, Yifan Peng:
Supervised pretraining through contrastive categorical positive samplings to improve COVID-19 mortality prediction. BCB 2022: 9:1-9:9 - [c39]Liyan Tang, Shravan Kooragayalu, Yanshan Wang, Ying Ding, Greg Durrett, Justin F. Rousseau, Yifan Peng:
EchoGen: Generating Conclusions from Echocardiogram Notes. BioNLP@ACL 2022: 359-368 - [c38]Suzanna Schmeelk, Martins Samuel Dogo, Braja Gopal Patra, Yifan Peng:
Classifying Cyber-Risky Clinical Notes by Employing Natural Language Processing. HICSS 2022: 1-7 - [c37]Ajay Jaiswal, Kumar Ashutosh, Justin F. Rousseau, Yifan Peng, Zhangyang Wang, Ying Ding:
RoS-KD: A Robust Stochastic Knowledge Distillation Approach for Noisy Medical Imaging. ICDM 2022: 981-986 - [c36]Song Wang, Mingquan Lin, Ying Ding, George Shih, Zhiyong Lu, Yifan Peng:
Radiology Text Analysis System (RadText): Architecture and Evaluation. ICHI 2022: 288-296 - [c35]Tejas Sudharshan Mathai, Sungwon Lee, Daniel C. Elton, Thomas C. Shen, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
Lymph node detection in T2 MRI with transformers. Computer-Aided Diagnosis 2022 - [c34]Junghwan Lee, Tingyi Wanyan, Qingyu Chen, Tiarnan D. L. Keenan, Benjamin S. Glicksberg, Emily Y. Chew, Zhiyong Lu, Fei Wang, Yifan Peng:
Predicting Age-related Macular Degeneration Progression with Longitudinal Fundus Images Using Deep Learning. MLMI@MICCAI 2022: 11-20 - [c33]Gregory Holste, Song Wang, Ziyu Jiang, Thomas C. Shen, George Shih, Ronald M. Summers, Yifan Peng, Zhangyang Wang:
Long-Tailed Classification of Thorax Diseases on Chest X-Ray: A New Benchmark Study. DALI@MICCAI 2022: 22-32 - [c32]Dana Moukheiber, Saurabh Mahindre, Lama Moukheiber, Mira Moukheiber, Song Wang, Chunwei Ma, George Shih, Yifan Peng, Mingchen Gao:
Few-Shot Learning Geometric Ensemble for Multi-label Classification of Chest X-Rays. DALI@MICCAI 2022: 112-122 - [c31]Mingquan Lin, Lei Liu, Mae Gorden, Michael Kass, Sarah Van Tassel, Fei Wang, Yifan Peng:
Multi-scale Multi-structure Siamese Network (MMSNet) for Primary Open-Angle Glaucoma Prediction. MLMI@MICCAI 2022: 436-445 - [c30]Yan Han, Chongyan Chen, Ahmed H. Tewfik, Benjamin S. Glicksberg, Ying Ding, Yifan Peng, Zhangyang Wang:
Knowledge-Augmented Contrastive Learning for Abnormality Classification and Localization in Chest X-rays with Radiomics using a Feedback Loop. WACV 2022: 1789-1798 - [i39]Song Wang, Liyan Tang, Mingquan Lin, George Shih, Ying Ding, Yifan Peng:
Prior Knowledge Enhances Radiology Report Generation. CoRR abs/2201.03761 (2022) - [i38]Suzanna Schmeelk, Martins Samuel Dogo, Yifan Peng, Braja Gopal Patra:
Classifying Cyber-Risky Clinical Notes by Employing Natural Language Processing. CoRR abs/2203.12781 (2022) - [i37]Song Wang, Mingquan Lin, Ying Ding, George Shih, Zhiyong Lu, Yifan Peng:
Radiology Text Analysis System (RadText): Architecture and Evaluation. CoRR abs/2204.09599 (2022) - [i36]Yan Han, Gregory Holste, Ying Ding, Ahmed H. Tewfik, Yifan Peng, Zhangyang Wang:
Radiomics-Guided Global-Local Transformer for Weakly Supervised Pathology Localization in Chest X-Rays. CoRR abs/2207.04394 (2022) - [i35]Gregory Holste, Song Wang, Ziyu Jiang, Thomas C. Shen, George Shih, Ronald M. Summers, Yifan Peng, Zhangyang Wang:
Long-Tailed Classification of Thorax Diseases on Chest X-Ray: A New Benchmark Study. CoRR abs/2208.13365 (2022) - [i34]Ajay Jaiswal, Kumar Ashutosh, Justin F. Rousseau, Yifan Peng, Zhangyang Wang, Ying Ding:
RoS-KD: A Robust Stochastic Knowledge Distillation Approach for Noisy Medical Imaging. CoRR abs/2210.08388 (2022) - [i33]Ajay Jaiswal, Tianlong Chen, Justin F. Rousseau, Yifan Peng, Ying Ding, Zhangyang Wang:
Attend Who is Weak: Pruning-assisted Medical Image Localization under Sophisticated and Implicit Imbalances. CoRR abs/2212.02675 (2022) - [i32]Zehao Yu, Xi Yang, Chong Dang, Prakash Adekkanattu, Braja Gopal Patra, Yifan Peng, Jyotishman Pathak, Debbie L. Wilson, Ching-Yuan Chang, Wei-Hsuan Lo-Ciganic, Thomas J. George, William R. Hogan, Yi Guo, Jiang Bian, Yonghui Wu:
SODA: A Natural Language Processing Package to Extract Social Determinants of Health for Cancer Studies. CoRR abs/2212.03000 (2022) - 2021
- [j17]Qingyu Chen, Tiarnan D. L. Keenan, Alexis Allot, Yifan Peng, Elvira Agrón, Amitha Domalpally, Caroline C. W. Klaver, Daniel T. Luttikhuizen, Marcus H. Colyer, Catherine A. Cukras, Henry E. Wiley, M. Teresa Magone, Chantal Cousineau-Krieger, Wai T. Wong, Yingying Zhu, Emily Y. Chew, Zhiyong Lu:
Multimodal, multitask, multiattention (M3) deep learning detection of reticular pseudodrusen: Toward automated and accessible classification of age-related macular degeneration. J. Am. Medical Informatics Assoc. 28(6): 1135-1148 (2021) - [j16]Yifan Peng, Yuxing Tang, Sungwon Lee, Yingying Zhu, Ronald M. Summers, Zhiyong Lu:
COVID-19-CT-CXR: A Freely Accessible and Weakly Labeled Chest X-Ray and CT Image Collection on COVID-19 From Biomedical Literature. IEEE Trans. Big Data 7(1): 3-12 (2021) - [j15]Angshuman Paul, Thomas C. Shen, Sungwon Lee, Niranjan Balachandar, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
Generalized Zero-Shot Chest X-Ray Diagnosis Through Trait-Guided Multi-View Semantic Embedding With Self-Training. IEEE Trans. Medical Imaging 40(10): 2642-2655 (2021) - [c29]Gregory C. Ghahramani, Matthew Brendel, Mingquan Lin, Qingyu Chen, Tiarnan D. Keenan, Kun Chen, Emily Y. Chew, Zhiyong Lu, Yifan Peng, Fei Wang:
Multi-task deep learning-based survival analysis on the prognosis of late AMD using the longitudinal data in AREDS. AMIA 2021 - [c28]Yan Han, Chongyan Chen, Liyan Tang, Mingquan Lin, Ajay Jaiswal, Song Wang, Ahmed H. Tewfik, George Shih, Ying Ding, Yifan Peng:
Using Radiomics as Prior Knowledge for Thorax Disease Classification and Localization in Chest X-rays. AMIA 2021 - [c27]Peng Su, Yifan Peng, K. Vijay-Shanker:
Improving BERT Model Using Contrastive Learning for Biomedical Relation Extraction. BioNLP@NAACL-HLT 2021: 1-10 - [c26]Ajay Jaiswal, Tianhao Li, Cyprian Zander, Yan Han, Justin F. Rousseau, Yifan Peng, Ying Ding:
SCALP - Supervised Contrastive Learning for Cardiopulmonary Disease Classification and Localization in Chest X-rays using Patient Metadata. ICDM 2021: 1132-1137 - [c25]Mingquan Lin, Song Wang, Ying Ding, Lihui Zhao, Fei Wang, Yifan Peng:
An empirical study of using radiology reports and images to improve ICU-mortality prediction. ICHI 2021: 497-498 - [c24]Yan Han, Chongyan Chen, Ahmed H. Tewfik, Ying Ding, Yifan Peng:
Pneumonia Detection On Chest X-Ray Using Radiomic Features And Contrastive Learning. ISBI 2021: 247-251 - [c23]Angshuman Paul, Thomas C. Shen, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
Learning Few-Shot Chest X-Ray Diagnosis Using Images From The Published Scientific Literature. ISBI 2021: 344-348 - [c22]Zhanghexuan Ji, Mohammad Abuzar Shaikh, Dana Moukheiber, Sargur N. Srihari, Yifan Peng, Mingchen Gao:
Improving Joint Learning of Chest X-Ray and Radiology Report by Word Region Alignment. MLMI@MICCAI 2021: 110-119 - [c21]Tejas Sudharshan Mathai, Sungwon Lee, Daniel C. Elton, Thomas C. Shen, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
Detection of Lymph Nodes in T2 MRI Using Neural Network Ensembles. MLMI@MICCAI 2021: 682-691 - [c20]Ajay Jaiswal, Liyan Tang, Meheli Ghosh, Justin F. Rousseau, Yifan Peng, Ying Ding:
RadBERT-CL: Factually-Aware Contrastive Learning For Radiology Report Classification. ML4H@NeurIPS 2021: 196-208 - [c19]Hyun Gi Lee, Evan Sholle, Ashley Beecy, Subhi J. Al'Aref, Yifan Peng:
Leveraging Deep Representations of Radiology Reports in Survival Analysis for Predicting Heart Failure Patient Mortality. NAACL-HLT 2021: 4533-4538 - [i31]Yan Han, Chongyan Chen, Ahmed H. Tewfik, Ying Ding, Yifan Peng:
Pneumonia Detection on Chest X-ray using Radiomic Features and Contrastive Learning. CoRR abs/2101.04269 (2021) - [i30]Yan Han, Chongyan Chen, Ahmed H. Tewfik, Benjamin S. Glicksberg, Ying Ding, Yifan Peng, Zhangyang Wang:
Cross-Modal Contrastive Learning for Abnormality Classification and Localization in Chest X-rays with Radiomics using a Feedback Loop. CoRR abs/2104.04968 (2021) - [i29]Peng Su, Yifan Peng, K. Vijay-Shanker:
Improving BERT Model Using Contrastive Learning for Biomedical Relation Extraction. CoRR abs/2104.13913 (2021) - [i28]Hyun Gi Lee, Evan Sholle, Ashley Beecy, Subhi J. Al'Aref, Yifan Peng:
Leveraging Deep Representations of Radiology Reports in Survival Analysis for Predicting Heart Failure Patient Mortality. CoRR abs/2105.01009 (2021) - [i27]Zhanghexuan Ji, Mohammad Abuzar Shaikh, Dana Moukheiber, Sargur N. Srihari, Yifan Peng, Mingchen Gao:
Improving Joint Learning of Chest X-Ray and Radiology Report by Word Region Alignment. CoRR abs/2109.01949 (2021) - [i26]Ajay Jaiswal, Tianhao Li, Cyprian Zander, Yan Han, Justin F. Rousseau, Yifan Peng, Ying Ding:
SCALP - Supervised Contrastive Learning for Cardiopulmonary Disease Classification and Localization in Chest X-rays using Patient Metadata. CoRR abs/2110.14787 (2021) - [i25]Ajay Jaiswal, Liyan Tang, Meheli Ghosh, Justin F. Rousseau, Yifan Peng, Ying Ding:
RadBERT-CL: Factually-Aware Contrastive Learning For Radiology Report Classification. CoRR abs/2110.15426 (2021) - [i24]Tejas Sudharshan Mathai, Sungwon Lee, Daniel C. Elton, Thomas C. Shen, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
Lymph Node Detection in T2 MRI with Transformers. CoRR abs/2111.04885 (2021) - [i23]Mehmet Efruz Karabulut, K. Vijay-Shanker, Yifan Peng:
CU-UD: text-mining drug and chemical-protein interactions with ensembles of BERT-based models. CoRR abs/2112.03004 (2021) - 2020
- [j14]Yifan Peng, Tiarnan D. Keenan, Qingyu Chen, Elvira Agrón, Alexis Allot, Wai T. Wong, Emily Y. Chew, Zhiyong Lu:
Predicting risk of late age-related macular degeneration using deep learning. npj Digit. Medicine 3 (2020) - [j13]Yuxing Tang, Youbao Tang, Yifan Peng, Ke Yan, Mohammadhadi Bagheri, Bernadette A. Redd, Catherine J. Brandon, Zhiyong Lu, Mei Han, Jing Xiao, Ronald M. Summers:
Automated abnormality classification of chest radiographs using deep convolutional neural networks. npj Digit. Medicine 3 (2020) - [c18]Yifan Peng, Sungwon Lee, Daniel C. Elton, Thomas C. Shen, Yuxing Tang, Qingyu Chen, Shuai Wang, Yingying Zhu, Ronald M. Summers, Zhiyong Lu:
Automatic recognition of abdominal lymph nodes from clinical text. ClinicalNLP@EMNLP 2020: 101-110 - [c17]Qingyu Chen, Tiarnan D. Keenan, Yifan Peng, Elvira Agrón, Christopher Hwang, Alisa T. Thavikulwat, Debora Lee, Wai T. Wong, Emily Y. Chew, Zhiyong Lu:
Detection of reticular pseudodrusen using deep learning. AMIA 2020 - [c16]Yifan Peng, Qingyu Chen, Zhiyong Lu:
An Empirical Study of Multi-Task Learning on BERT for Biomedical Text Mining. BioNLP 2020: 205-214 - [c15]Angshuman Paul, Thomas C. Shen, Niranjan Balachandar, Yuxing Tang, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
COMe-SEE: Cross-modality Semantic Embedding Ensemble for Generalized Zero-Shot Diagnosis of Chest Radiographs. iMIMIC/MIL3ID/LABELS@MICCAI 2020: 103-111 - [i22]Yifan Peng, Qingyu Chen, Zhiyong Lu:
An Empirical Study of Multi-Task Learning on BERT for Biomedical Text Mining. CoRR abs/2005.02799 (2020) - [i21]Yifan Peng, Yuxing Tang, Sungwon Lee, Yingying Zhu, Ronald M. Summers, Zhiyong Lu:
COVID-19-CT-CXR: a freely accessible and weakly labeled chest X-ray and CT image collection on COVID-19 from biomedical literature. CoRR abs/2006.06177 (2020) - [i20]Xing He, Rui Zhang, Jordan Alpert, Sicheng Zhou, Terrence J. Adam, Aantaki Raisa, Yifan Peng, Hansi Zhang, Jiang Bian:
When text simplification is not enough: could a graph-based visualization facilitate consumers' comprehension of dietary supplement information? CoRR abs/2007.02333 (2020) - [i19]Yifan Peng, Tiarnan D. Keenan, Qingyu Chen, Elvira Agrón, Alexis Allot, Wai T. Wong, Emily Y. Chew, Zhiyong Lu:
Predicting risk of late age-related macular degeneration using deep learning. CoRR abs/2007.09550 (2020) - [i18]Lana Yeganova, Rezarta Islamaj Dogan, Qingyu Chen, Robert Leaman, Alexis Allot, Chih-Hsuan Wei, Donald C. Comeau, Won Kim, Yifan Peng, W. John Wilbur, Zhiyong Lu:
Navigating the landscape of COVID-19 research through literature analysis: A bird's eye view. CoRR abs/2008.03397 (2020) - [i17]Qingyu Chen, Tiarnan D. L. Keenan, Alexis Allot, Yifan Peng, Elvira Agrón, Amitha Domalpally, Caroline C. W. Klaver, Daniel T. Luttikhuizen, Marcus H. Colyer, Catherine A. Cukras, Henry E. Wiley, M. Teresa Magone, Chantal Cousineau-Krieger, Wai T. Wong, Yingying Zhu, Emily Y. Chew, Zhiyong Lu:
Multi-modal, multi-task, multi-attention (M3) deep learning detection of reticular pseudodrusen: towards automated and accessible classification of age-related macular degeneration. CoRR abs/2011.05142 (2020) - [i16]Yan Han, Chongyan Chen, Liyan Tang, Mingquan Lin, Ajay Jaiswal, Ying Ding, Yifan Peng:
Using Radiomics as Prior Knowledge for Abnormality Classification and Localization in Chest X-rays. CoRR abs/2011.12506 (2020)
2010 – 2019
- 2019
- [j12]Jingcheng Du, Qingyu Chen, Yifan Peng, Yang Xiang, Cui Tao, Zhiyong Lu:
ML-Net: multi-label classification of biomedical texts with deep neural networks. J. Am. Medical Informatics Assoc. 26(11): 1279-1285 (2019) - [c14]Yifan Peng, Tiarnan D. Keenan, Qingyu Chen, Elvira Agrón, Wai T. Wong, Emily Y. Chew, Zhiyong Lu:
A deep learning-based survival model for prediction of progression in late Age-related Macular Degeneration (AMD) from color fundus photographs. AMIA 2019 - [c13]Yifan Peng, Shankai Yan, Zhiyong Lu:
Transfer Learning in Biomedical Natural Language Processing: An Evaluation of BERT and ELMo on Ten Benchmarking Datasets. BioNLP@ACL 2019: 58-65 - [c12]Ke Yan, Yifan Peng, Veit Sandfort, Mohammadhadi Bagheri, Zhiyong Lu, Ronald M. Summers:
Holistic and Comprehensive Annotation of Clinically Significant Findings on Diverse CT Images: Learning From Radiology Reports and Label Ontology. CVPR 2019: 8523-8532 - [c11]Qingyu Chen, Yifan Peng, Zhiyong Lu:
BioSentVec: creating sentence embeddings for biomedical texts. ICHI 2019: 1-5 - [c10]Yifan Peng, Ke Yan, Veit Sandfort, Ronald M. Summers, Zhiyong Lu:
A self-attention based deep learning method for lesion attribute detection from CT reports. ICHI 2019: 1-5 - [c9]Ke Yan, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
Fine-Grained Lesion Annotation in CT Images With Knowledge Mined From Radiology Reports. ISBI 2019: 285-288 - [c8]Ke Yan, Youbao Tang, Yifan Peng, Veit Sandfort, Mohammadhadi Bagheri, Zhiyong Lu, Ronald M. Summers:
MULAN: Multitask Universal Lesion Analysis Network for Joint Lesion Detection, Tagging, and Segmentation. MICCAI (6) 2019: 194-202 - [p2]Xiaosong Wang, Yifan Peng, Le Lu, Zhiyong Lu, Mohammadhadi Bagheri, Ronald M. Summers:
ChestX-ray: Hospital-Scale Chest X-ray Database and Benchmarks on Weakly Supervised Classification and Localization of Common Thorax Diseases. Deep Learning and Convolutional Neural Networks for Medical Imaging and Clinical Informatics 2019: 369-392 - [p1]Xiaosong Wang, Yifan Peng, Le Lu, Zhiyong Lu, Ronald M. Summers:
Automatic Classification and Reporting of Multiple Common Thorax Diseases Using Chest Radiographs. Deep Learning and Convolutional Neural Networks for Medical Imaging and Clinical Informatics 2019: 393-412 - [i15]Ke Yan, Yifan Peng, Zhiyong Lu, Ronald M. Summers:
Fine-grained lesion annotation in CT images with knowledge mined from radiology reports. CoRR abs/1903.01505 (2019) - [i14]Ke Yan, Yifan Peng, Veit Sandfort, Mohammadhadi Bagheri, Zhiyong Lu, Ronald M. Summers:
Holistic and Comprehensive Annotation of Clinically Significant Findings on Diverse CT Images: Learning from Radiology Reports and Label Ontology. CoRR abs/1904.04661 (2019) - [i13]Yifan Peng, Ke Yan, Veit Sandfort, Ronald M. Summers, Zhiyong Lu:
A self-attention based deep learning method for lesion attribute detection from CT reports. CoRR abs/1904.13018 (2019) - [i12]Tiarnan D. Keenan, Shazia Dharssi, Yifan Peng, Qingyu Chen, Elvira Agrón, Wai T. Wong, Zhiyong Lu, Emily Y. Chew:
A deep learning approach for automated detection of geographic atrophy from color fundus photographs. CoRR abs/1906.03153 (2019) - [i11]Yifan Peng, Shankai Yan, Zhiyong Lu:
Transfer Learning in Biomedical Natural Language Processing: An Evaluation of BERT and ELMo on Ten Benchmarking Datasets. CoRR abs/1906.05474 (2019) - [i10]Ke Yan, Youbao Tang, Yifan Peng, Veit Sandfort, Mohammadhadi Bagheri, Zhiyong Lu, Ronald M. Summers:
MULAN: Multitask Universal Lesion Analysis Network for Joint Lesion Detection, Tagging, and Segmentation. CoRR abs/1908.04373 (2019) - 2018
- [j11]Yifan Peng, Anthony Rios, Ramakanth Kavuluru, Zhiyong Lu:
Extracting chemical-protein relations with ensembles of SVM and deep learning models. Database J. Biol. Databases Curation 2018: bay073 (2018) - [j10]Alexis Allot, Yifan Peng, Chih-Hsuan Wei, Kyubum Lee, Lon Phan, Zhiyong Lu:
LitVar: a semantic search engine for linking genomic variant data in PubMed and PMC. Nucleic Acids Res. 46(Webserver-Issue): W530-W536 (2018) - [c7]Xiaosong Wang, Yifan Peng, Le Lu, Zhiyong Lu, Ronald M. Summers:
TieNet: Text-Image Embedding Network for Common Thorax Disease Classification and Reporting in Chest X-Rays. CVPR 2018: 9049-9058 - [i9]Xiaosong Wang, Yifan Peng, Le Lu, Zhiyong Lu, Ronald M. Summers:
TieNet: Text-Image Embedding Network for Common Thorax Disease Classification and Reporting in Chest X-rays. CoRR abs/1801.04334 (2018) - [i8]Yifan Peng, Anthony Rios, Ramakanth Kavuluru, Zhiyong Lu:
Chemical-protein relation extraction with ensembles of SVM, CNN, and RNN models. CoRR abs/1802.01255 (2018) - [i7]Qingyu Chen, Yifan Peng, Zhiyong Lu:
BioSentVec: creating sentence embeddings for biomedical texts. CoRR abs/1810.09302 (2018) - [i6]Jingcheng Du, Qingyu Chen, Yifan Peng, Yang Xiang, Cui Tao, Zhiyong Lu:
ML-Net: multi-label classification of biomedical texts with deep neural networks. CoRR abs/1811.05475 (2018) - [i5]Yifan Peng, Shazia Dharssi, Qingyu Chen, Tiarnan D. Keenan, Elvira Agrón, Wai T. Wong, Emily Y. Chew, Zhiyong Lu:
DeepSeeNet: A deep learning model for automated classification of patient-based age-related macular degeneration severity from color fundus photographs. CoRR abs/1811.07492 (2018) - [i4]Qingyu Chen, Yifan Peng, Tiarnan D. Keenan, Shazia Dharssi, Elvira Agrón, Wai T. Wong, Emily Y. Chew, Zhiyong Lu:
A multi-task deep learning model for the classification of Age-related Macular Degeneration. CoRR abs/1812.00422 (2018) - 2017
- [c6]Yifan Peng, Xiaosong Wang, Le Lu, Mohammadhadi Bagheri, Ronald M. Summers, Zhiyong Lu:
Text Mining Radiology Reports for Deep Learning Radiology Images. AMIA 2017 - [c5]Yifan Peng, Zhiyong Lu:
Deep learning for extracting protein-protein interactions from biomedical literature. BioNLP 2017: 29-38 - [c4]Rezarta Islamaj Dogan, Andrew Chatr-aryamontri, Sun Kim, Chih-Hsuan Wei, Yifan Peng, Donald C. Comeau, Zhiyong Lu:
BioCreative VI Precision Medicine Track: creating a training corpus for mining protein-protein interactions affected by mutations. BioNLP 2017: 171-175 - [c3]Xiaosong Wang, Yifan Peng, Le Lu, Zhiyong Lu, Mohammadhadi Bagheri, Ronald M. Summers:
ChestX-Ray8: Hospital-Scale Chest X-Ray Database and Benchmarks on Weakly-Supervised Classification and Localization of Common Thorax Diseases. CVPR 2017: 3462-3471 - [i3]Xiaosong Wang, Yifan Peng, Le Lu, Zhiyong Lu, Mohammadhadi Bagheri, Ronald M. Summers:
ChestX-ray8: Hospital-scale Chest X-ray Database and Benchmarks on Weakly-Supervised Classification and Localization of Common Thorax Diseases. CoRR abs/1705.02315 (2017) - [i2]Yifan Peng, Zhiyong Lu:
Deep learning for extracting protein-protein interactions from biomedical literature. CoRR abs/1706.01556 (2017) - [i1]Yifan Peng, Xiaosong Wang, Le Lu, Mohammadhadi Bagheri, Ronald M. Summers, Zhiyong Lu:
NegBio: a high-performance tool for negation and uncertainty detection in radiology reports. CoRR abs/1712.05898 (2017) - 2016
- [j9]Sun Kim, Rezarta Islamaj Dogan, Andrew Chatr-aryamontri, Christie S. Chang, Rose Oughtred, Jennifer M. Rust, Riza Batista-Navarro, Jacob Carter, Sophia Ananiadou, Sérgio Matos, André Santos, David Campos, José Luís Oliveira, Onkar Singh, Jitendra Jonnagaddala, Hong-Jie Dai, Emily Chia-Yu Su, Yung-Chun Chang, Yu-Chen Su, Chun-Han Chu, Chien Chin Chen, Wen-Lian Hsu, Yifan Peng, Cecilia N. Arighi, Cathy H. Wu, K. Vijay-Shanker, Ferhat Aydin, Zehra Melce Hüsünbeyi, Arzucan Özgür, Soo-Yong Shin, Dongseop Kwon, Kara Dolinski, Mike Tyers, W. John Wilbur, Donald C. Comeau:
BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID. Database J. Biol. Databases Curation 2016 (2016) - [j8]Yifan Peng, Cecilia N. Arighi, Cathy H. Wu, K. Vijay-Shanker:
BioC-compatible full-text passage detection for protein-protein interactions using extended dependency graph. Database J. Biol. Databases Curation 2016 (2016) - [j7]Chih-Hsuan Wei, Yifan Peng, Robert Leaman, Allan Peter Davis, Carolyn J. Mattingly, Jiao Li, Thomas C. Wiegers, Zhiyong Lu:
Assessing the state of the art in biomedical relation extraction: overview of the BioCreative V chemical-disease relation (CDR) task. Database J. Biol. Databases Curation 2016 (2016) - [j6]Yifan Peng, Chih-Hsuan Wei, Zhiyong Lu:
Improving chemical disease relation extraction with rich features and weakly labeled data. J. Cheminformatics 8(1): 53:1-53:12 (2016) - 2015
- [j5]Gang Li, Karen E. Ross, Cecilia N. Arighi, Yifan Peng, Cathy H. Wu, K. Vijay-Shanker:
miRTex: A Text Mining System for miRNA-Gene Relation Extraction. PLoS Comput. Biol. 11(9) (2015) - [c2]Yifan Peng, Samir Gupta, Cathy H. Wu, K. Vijay-Shanker:
An extended dependency graph for relation extraction in biomedical texts. BioNLP@IJCNLP 2015: 21-30 - 2014
- [j4]Donald C. Comeau, Riza Theresa Batista-Navarro, Hong-Jie Dai, Rezarta Islamaj Dogan, Antonio Jimeno-Yepes, Ritu Khare, Zhiyong Lu, Hernani Marques, Carolyn J. Mattingly, Mariana L. Neves, Yifan Peng, Rafal Rak, Fabio Rinaldi, Richard Tzong-Han Tsai, Karin Verspoor, Thomas C. Wiegers, Cathy H. Wu, W. John Wilbur:
BioC interoperability track overview. Database J. Biol. Databases Curation 2014 (2014) - [j3]Yifan Peng, Catalina O. Tudor, Manabu Torii, Cathy H. Wu, K. Vijay-Shanker:
iSimp in BioC standard format: enhancing the interoperability of a sentence simplification system. Database J. Biol. Databases Curation 2014 (2014) - [j2]Yifan Peng, Manabu Torii, Cathy H. Wu, K. Vijay-Shanker:
A Generalizable NLP Framework for Fast Development of Pattern-based Biomedical Relation Extraction Systems. BMC Bioinform. 15: 285 (2014) - 2013
- [j1]Donald C. Comeau, Rezarta Islamaj Dogan, Paolo Ciccarese, Kevin Bretonnel Cohen, Martin Krallinger, Florian Leitner, Zhiyong Lu, Yifan Peng, Fabio Rinaldi, Manabu Torii, Alfonso Valencia, Karin Verspoor, Thomas C. Wiegers, Cathy H. Wu, W. John Wilbur:
BioC: a minimalist approach to interoperability for biomedical text processing. Database J. Biol. Databases Curation 2013 (2013) - 2012
- [c1]Yifan Peng, Catalina O. Tudor, Manabu Torii, Cathy H. Wu, K. Vijay-Shanker:
iSimp: A sentence simplification system for biomedicail text. BIBM 2012: 1-6
Coauthor Index
Tiarnan D. Keenan
aka: Tiarnan D. L. Keenan
aka: Tiarnan D. L. Keenan
Mingquan Lin
aka: Minquan Lin
aka: Minquan Lin
[j48] [j47] [i84] [i76] [j42] [j41] [j39] [j36] [j35] [j34] [j33] [j31] [i68] [i66] [i61] [i59] [i57] [i55] [i52] [j25] [c45] [i47] [i46] [i41] [i40] [j19] [j18] [c36] [c35] [c34] [i37] [j17] [j16] [j15] [c29] [c23] [c21] [i24] [j14] [j13] [c18] [c17] [c16] [c15] [i22] [i21] [i19] [i18] [i17] [j12] [c14] [c13] [c12] [c11] [c10] [c9] [c8] [p2] [p1] [i15] [i14] [i13] [i12] [i11] [i10] [j11] [j10] [c7] [i9] [i8] [i7] [i6] [i5] [i4] [c6] [c5] [c4] [c3] [i3] [i2] [i1] [j7] [j6] [j4] [j1]
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