Yifan Peng
Orcid: 0000-0001-9309-8331Affiliations:
- Weill Cornell Medicine, Department of Population Health Sciences, New York City, NY, USA
- National Institutes of Health (NIH), Bethesda, MD, USA
- University of Delaware, Newark, DE, USA (PhD 2016)
According to our database1,
Yifan Peng
authored at least 148 papers
between 2012 and 2025.
Collaborative distances:
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Bibliography
2025
CoRR, August, 2025
Extracting Post-Acute Sequelae of SARS-CoV-2 Infection Symptoms from Clinical Notes via Hybrid Natural Language Processing.
CoRR, August, 2025
A Multi-Stage Large Language Model Framework for Extracting Suicide-Related Social Determinants of Health.
CoRR, August, 2025
CXR-LT 2024: A MICCAI challenge on long-tailed, multi-label, and zero-shot disease classification from chest X-ray.
CoRR, June, 2025
EvidenceOutcomes: a Dataset of Clinical Trial Publications with Clinically Meaningful Outcomes.
CoRR, June, 2025
Seeing Far and Clearly: Mitigating Hallucinations in MLLMs with Attention Causal Decoding.
CoRR, May, 2025
CoRR, April, 2025
CoRR, April, 2025
WatchGuardian: Enabling User-Defined Personalized Just-in-Time Intervention on Smartwatch.
CoRR, February, 2025
CoRR, January, 2025
Leveraging long context in retrieval augmented language models for medical question answering.
npj Digit. Medicine, 2025
CXR-LT 2024: A MICCAI challenge on long-tailed, multi-label, and zero-shot disease classification from chest X-ray.
Medical Image Anal., 2025
Machine learning applications related to suicide in military and Veterans: A scoping literature review.
J. Biomed. Informatics, 2025
J. Biomed. Informatics, 2025
A multimodal approach for few-shot biomedical named entity recognition in low-resource languages.
J. Biomed. Informatics, 2025
Deciphering genomic codes using advanced natural language processing techniques: a scoping review.
J. Am. Medical Informatics Assoc., 2025
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., 2025
Seeing Far and Clearly: Mitigating Hallucinations in MLLMs with Attention Causal Decoding.
Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition, 2025
Proceedings of the Findings of the Association for Computational Linguistics, 2025
2024
Closing the gap between open source and commercial large language models for medical evidence summarization.
npj Digit. Medicine, 2024
A framework for human evaluation of large language models in healthcare derived from literature review.
npj Digit. Medicine, 2024
npj Digit. Medicine, 2024
Author Correction: Harnessing the power of longitudinal medical imaging for eye disease prognosis using Transformer-based sequence modeling.
npj Digit. Medicine, 2024
Harnessing the power of longitudinal medical imaging for eye disease prognosis using Transformer-based sequence modeling.
npj Digit. Medicine, 2024
Towards long-tailed, multi-label disease classification from chest X-ray: Overview of the CXR-LT challenge.
Medical Image Anal., 2024
Leveraging generative AI for clinical evidence synthesis needs to ensure trustworthiness.
J. Biomed. Informatics, 2024
Identifying social determinants of health from clinical narratives: A study of performance, documentation ratio, and potential bias.
J. Biomed. Informatics, 2024
J. Biomed. Informatics, 2024
Demonstration-based learning for few-shot biomedical named entity recognition under machine reading comprehension.
J. Biomed. Informatics, 2024
Call for papers: Special issue on biomedical multimodal large language models - novel approaches and applications.
J. Biomed. Informatics, 2024
A span-based model for extracting overlapping PICO entities from randomized controlled trial publications.
J. Am. Medical Informatics Assoc., 2024
J. Am. Medical Informatics Assoc., 2024
Confidence score: a data-driven measure for inclusive systematic reviews considering unpublished preprints.
J. Am. Medical Informatics Assoc., 2024
Large language models in biomedicine and health: current research landscape and future directions.
J. Am. Medical Informatics Assoc., 2024
Semi-Supervised Learning from Small Annotated Data and Large Unlabeled Data for Fine-grained PICO Entity Recognition.
CoRR, 2024
A MapReduce Approach to Effectively Utilize Long Context Information in Retrieval Augmented Language Models.
CoRR, 2024
CoRR, 2024
DIRI: Adversarial Patient Reidentification with Large Language Models for Evaluating Clinical Text Anonymization.
CoRR, 2024
Environment Scan of Generative AI Infrastructure for Clinical and Translational Science.
CoRR, 2024
Enhancing disease detection in radiology reports through fine-tuning lightweight LLM on weak labels.
CoRR, 2024
SDoH-GPT: Using Large Language Models to Extract Social Determinants of Health (SDoH).
CoRR, 2024
A Literature Review and Framework for Human Evaluation of Generative Large Language Models in Healthcare.
CoRR, 2024
Uncovering Misattributed Suicide Causes through Annotation Inconsistency Detection in Death Investigation Notes.
CoRR, 2024
Evaluating GPT-4 with Vision on Detection of Radiological Findings on Chest Radiographs.
CoRR, 2024
CoRR, 2024
CoRR, 2024
Proceedings of the 12th IEEE International Conference on Healthcare Informatics, 2024
Proceedings of the IEEE International Conference on Big Data, 2024
2023
J. Biomed. Informatics, October, 2023
An NLP approach to identify SDoH-related circumstance and suicide crisis from death investigation narratives.
J. Am. Medical Informatics Assoc., July, 2023
Representing and utilizing clinical textual data for real world studies: An OHDSI approach.
J. Biomed. Informatics, June, 2023
Enhancing thoracic disease detection using chest X-rays from PubMed Central Open Access.
Comput. Biol. Medicine, June, 2023
Radiomics-Guided Global-Local Transformer for Weakly Supervised Pathology Localization in Chest X-Rays.
IEEE Trans. Medical Imaging, March, 2023
Frontiers Digit. Health, March, 2023
npj Digit. Medicine, 2023
Adopting and expanding ethical principles for generative artificial intelligence from military to healthcare.
npj Digit. Medicine, 2023
<i>EvidenceMap</i>: a three-level knowledge representation for medical evidence computation and comprehension.
J. Am. Medical Informatics Assoc., 2023
Leveraging Generative AI for Clinical Evidence Summarization Needs to Achieve Trustworthiness.
CoRR, 2023
Towards long-tailed, multi-label disease classification from chest X-ray: Overview of the CXR-LT challenge.
CoRR, 2023
High-performance Data Management for Whole Slide Image Analysis in Digital Pathology.
CoRR, 2023
CoRR, 2023
Evaluate underdiagnosis and overdiagnosis bias of deep learning model on primary open-angle glaucoma diagnosis in under-served patient populations.
CoRR, 2023
Attend Who is Weak: Pruning-assisted Medical Image Localization under Sophisticated and Implicit Imbalances.
Proceedings of the IEEE/CVF Winter Conference on Applications of Computer Vision, 2023
Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023
Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2023, 2023
Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2023, 2023
Optimizing Embedding Space with Sub-categorical Supervised Pre-training: A Theoretical Approach Towards Improving Sepsis Prediction.
Proceedings of the 11th IEEE International Conference on Healthcare Informatics, 2023
Proceedings of the 11th IEEE International Conference on Healthcare Informatics, 2023
Proceedings of the Findings of the Association for Computational Linguistics: ACL 2023, 2023
2022
Pattern Recognit., 2022
Global-Local attention network with multi-task uncertainty loss for abnormal lymph node detection in MR images.
Medical Image Anal., 2022
J. Am. Medical Informatics Assoc., 2022
SODA: A Natural Language Processing Package to Extract Social Determinants of Health for Cancer Studies.
CoRR, 2022
Knowledge-Augmented Contrastive Learning for Abnormality Classification and Localization in Chest X-rays with Radiomics using a Feedback Loop.
Proceedings of the IEEE/CVF Winter Conference on Applications of Computer Vision, 2022
Proceedings of the Data Augmentation, Labelling, and Imperfections, 2022
Multi-scale Multi-structure Siamese Network (MMSNet) for Primary Open-Angle Glaucoma Prediction.
Proceedings of the Machine Learning in Medical Imaging - 13th International Workshop, 2022
Predicting Age-related Macular Degeneration Progression with Longitudinal Fundus Images Using Deep Learning.
Proceedings of the Machine Learning in Medical Imaging - 13th International Workshop, 2022
Proceedings of the Data Augmentation, Labelling, and Imperfections, 2022
Proceedings of the Medical Imaging 2022: Computer-Aided Diagnosis, San Diego, 2022
Proceedings of the 10th IEEE International Conference on Healthcare Informatics, 2022
RoS-KD: A Robust Stochastic Knowledge Distillation Approach for Noisy Medical Imaging.
Proceedings of the IEEE International Conference on Data Mining, 2022
Proceedings of the 55th Hawaii International Conference on System Sciences, 2022
Proceedings of the 21st Workshop on Biomedical Language Processing, 2022
Supervised pretraining through contrastive categorical positive samplings to improve COVID-19 mortality prediction.
Proceedings of the BCB '22: 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, Northbrook, Illinois, USA, August 7, 2022
Proceedings of the AMIA 2022, 2022
2021
Generalized Zero-Shot Chest X-Ray Diagnosis Through Trait-Guided Multi-View Semantic Embedding With Self-Training.
IEEE Trans. Medical Imaging, 2021
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, 2021
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., 2021
CU-UD: text-mining drug and chemical-protein interactions with ensembles of BERT-based models.
CoRR, 2021
Cross-Modal Contrastive Learning for Abnormality Classification and Localization in Chest X-rays with Radiomics using a Feedback Loop.
CoRR, 2021
Leveraging Deep Representations of Radiology Reports in Survival Analysis for Predicting Heart Failure Patient Mortality.
Proceedings of the 2021 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies, 2021
RadBERT-CL: Factually-Aware Contrastive Learning For Radiology Report Classification.
Proceedings of the Machine Learning for Health, 2021
Proceedings of the Machine Learning in Medical Imaging - 12th International Workshop, 2021
Improving Joint Learning of Chest X-Ray and Radiology Report by Word Region Alignment.
Proceedings of the Machine Learning in Medical Imaging - 12th International Workshop, 2021
Learning Few-Shot Chest X-Ray Diagnosis Using Images From The Published Scientific Literature.
Proceedings of the 18th IEEE International Symposium on Biomedical Imaging, 2021
Proceedings of the 18th IEEE International Symposium on Biomedical Imaging, 2021
An empirical study of using radiology reports and images to improve ICU-mortality prediction.
Proceedings of the 9th IEEE International Conference on Healthcare Informatics, 2021
SCALP - Supervised Contrastive Learning for Cardiopulmonary Disease Classification and Localization in Chest X-rays using Patient Metadata.
Proceedings of the IEEE International Conference on Data Mining, 2021
Proceedings of the 20th Workshop on Biomedical Language Processing, 2021
Using Radiomics as Prior Knowledge for Thorax Disease Classification and Localization in Chest X-rays.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Multi-task deep learning-based survival analysis on the prognosis of late AMD using the longitudinal data in AREDS.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
2020
Automated abnormality classification of chest radiographs using deep convolutional neural networks.
npj Digit. Medicine, 2020
npj Digit. Medicine, 2020
Using Radiomics as Prior Knowledge for Abnormality Classification and Localization in Chest X-rays.
CoRR, 2020
Multi-modal, multi-task, multi-attention (M3) deep learning detection of reticular pseudodrusen: towards automated and accessible classification of age-related macular degeneration.
CoRR, 2020
Navigating the landscape of COVID-19 research through literature analysis: A bird's eye view.
CoRR, 2020
When text simplification is not enough: could a graph-based visualization facilitate consumers' comprehension of dietary supplement information?
CoRR, 2020
COMe-SEE: Cross-modality Semantic Embedding Ensemble for Generalized Zero-Shot Diagnosis of Chest Radiographs.
Proceedings of the Interpretable and Annotation-Efficient Learning for Medical Image Computing, 2020
Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing, 2020
Proceedings of the AMIA 2020, 2020
Proceedings of the 3rd Clinical Natural Language Processing Workshop, 2020
2019
J. Am. Medical Informatics Assoc., 2019
A deep learning approach for automated detection of geographic atrophy from color fundus photographs.
CoRR, 2019
MULAN: Multitask Universal Lesion Analysis Network for Joint Lesion Detection, Tagging, and Segmentation.
Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2019, 2019
Fine-Grained Lesion Annotation in CT Images With Knowledge Mined From Radiology Reports.
Proceedings of the 16th IEEE International Symposium on Biomedical Imaging, 2019
A self-attention based deep learning method for lesion attribute detection from CT reports.
Proceedings of the 2019 IEEE International Conference on Healthcare Informatics, 2019
Proceedings of the 2019 IEEE International Conference on Healthcare Informatics, 2019
Holistic and Comprehensive Annotation of Clinically Significant Findings on Diverse CT Images: Learning From Radiology Reports and Label Ontology.
Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition, 2019
Transfer Learning in Biomedical Natural Language Processing: An Evaluation of BERT and ELMo on Ten Benchmarking Datasets.
Proceedings of the 18th BioNLP Workshop and Shared Task, 2019
A deep learning-based survival model for prediction of progression in late Age-related Macular Degeneration (AMD) from color fundus photographs.
Proceedings of the AMIA 2019, 2019
Automatic Classification and Reporting of Multiple Common Thorax Diseases Using Chest Radiographs.
Proceedings of the Deep Learning and Convolutional Neural Networks for Medical Imaging and Clinical Informatics, 2019
ChestX-ray: Hospital-Scale Chest X-ray Database and Benchmarks on Weakly Supervised Classification and Localization of Common Thorax Diseases.
Proceedings of the Deep Learning and Convolutional Neural Networks for Medical Imaging and Clinical Informatics, 2019
2018
Nucleic Acids Res., 2018
A multi-task deep learning model for the classification of Age-related Macular Degeneration.
CoRR, 2018
DeepSeeNet: A deep learning model for automated classification of patient-based age-related macular degeneration severity from color fundus photographs.
CoRR, 2018
CoRR, 2018
Extracting chemical-protein relations with ensembles of SVM and deep learning models.
Database J. Biol. Databases Curation, 2018
TieNet: Text-Image Embedding Network for Common Thorax Disease Classification and Reporting in Chest X-Rays.
Proceedings of the 2018 IEEE Conference on Computer Vision and Pattern Recognition, 2018
2017
NegBio: a high-performance tool for negation and uncertainty detection in radiology reports.
CoRR, 2017
ChestX-Ray8: Hospital-Scale Chest X-Ray Database and Benchmarks on Weakly-Supervised Classification and Localization of Common Thorax Diseases.
Proceedings of the 2017 IEEE Conference on Computer Vision and Pattern Recognition, 2017
Deep learning for extracting protein-protein interactions from biomedical literature.
Proceedings of the BioNLP 2017, Vancouver, Canada, August 4, 2017, 2017
BioCreative VI Precision Medicine Track: creating a training corpus for mining protein-protein interactions affected by mutations.
Proceedings of the BioNLP 2017, Vancouver, Canada, August 4, 2017, 2017
Proceedings of the AMIA 2017, 2017
2016
Improving chemical disease relation extraction with rich features and weakly labeled data.
J. Cheminformatics, 2016
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
BioC-compatible full-text passage detection for protein-protein interactions using extended dependency graph.
Database J. Biol. Databases Curation, 2016
BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID.
Database J. Biol. Databases Curation, 2016
2015
PLoS Comput. Biol., 2015
Proceedings of the Workshop on Biomedical Natural Language Processing, BioNLP@IJCNLP 2015, 2015
2014
A Generalizable NLP Framework for Fast Development of Pattern-based Biomedical Relation Extraction Systems.
BMC Bioinform., 2014
iSimp in BioC standard format: enhancing the interoperability of a sentence simplification system.
Database J. Biol. Databases Curation, 2014
2013
Database J. Biol. Databases Curation, 2013
2012
Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine, 2012