M.S., Computer Science, University of Delaware, 2013
M.Eng., Signal and Information Processing, Peking University, China, 2010
B.S.E., Computer Science and Technology, Beijing University of Technology, China, 2007
Academic Editor: PLoS ONE
Program Committee: The IEEE International Conference on Biomedical and Health Informatics, 2016-Present
ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB), 2015
Reviewer: Bioinformatics, BMC Bioinformatics, IEEE/ACM Transactions on Computational Biology and Bioinformatics, Journal of Biomedical Semantics, Database (Oxford), PLoS One, IEEE Transactions on Knowledge and Data Engineering, Journal of Biomedical Informatics, Journal of Digital Imaging, AMIA Annual Symposium, AMIA Informatics Summit, Computer Methods and Programs in Biomedicine, Knowledge-Based Systems
Joint Reviewer: Nature Medicine
Poster judge: Annual Graudate Student Research Symposium, NIH, 2017-Present
Research Fellow, NCBI, NIH, Bethesda, MD, 2017-Present
Opportunities and obstacles for deep learning in biology and medicine.
Ching T, Himmelstein DS, Beaulieu-Jones BK, Kalinin AA, Do BT, Way GP, Ferrero E, Agapow P-M, Zietz M, Hoffman MM, Xie W, Rosen GL, Lengerich BJ, Israeli J, Lanchantin J, Woloszynek S, Carpenter AE, Shrikumar A, Xu J, Cofer EM, Lavender CA, Turaga SC, Alexandari AM, Lu Z, Harris DJ, DeCaprio D, Qi Y, Kundaje A,
Peng Y, Wiley LK, Segler MHS, Boca SM, Swamidass SJ, Huang A, Gitter A. Greene CS. Journal of The Royal Society Interface. 2018, 15(141), 20170387.
Holistic and Comprehensive Annotation of Clinically Significant Findings on Diverse CT Images: Learning from Radiology Reports and Label Ontology.
Yan K, Peng Y, Standfort V, Bagheri M, Lu Z, Summers RM. IEEE Conference on Computer Vision and Pattern Recognition (CVPR). 2019.
A Deep Learning Approach for Automated Detection and Quantification of Geographic Atrophy from Color Fundus Photographs.
Dharssi S*, Peng Y*, Chen Q, Agron E, Wong W, Chew E, Lu Z. In AAO 2018. 2018. (talk)
Literature Mining to Improve the Prioritization, Curation, and Integration of Knowledge for Clinically Relevant Variants.
Wei CH, Phan L, Allot A, Peng Y, Lee K, Maiti R, Hefferon T, Feltz J, Lu Z. In ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB). 2018. (talk)
A semantic search engine for linking genomic variant data in PubMed and PMC.
Allot A, Peng Y, Wei CH, Lee K, Phan L, Lu Z. In International Society for Computational Biology. 2018. (poster)
Text mining tools for biocuration in iProLINK web portal.
Arighi C, Ding R, Gupta S, Li G, Mahmood AA, Peng Y, Ren J, Ross K, Tudor CO, Huang H, Schimidt C, Wu CH, Vijay-Shanker K. In Biocuration. 2015. (poster)
WO2018176035A1, US Application No. 62/476,029, filed 03/24/2017
Method and system of building hospital-scale chest x-ray database for entity extraction and weakly-supervised classification and localization of common thorax diseases.
Wang X, Peng Y, Lu L, Bagheri M, Lu Z, Summers R.
Overview of natural language processing in biomedical and cancer research. Invited talk at NCI Center for Biomedical Informatics and Information Technology (CBIIT) Cancer Data Science workshop. 01/24/2019.
Clinical NLP and deep learning for disease classification and reporting in Chest X-rays. Invited talk at ICSA 2018 Applied Statistics Symposium. 06/17/2018.
Clinical NLP and deep learning for disease classification and reporting in Chest X-rays. Invited talk at Computer and Information Science Department, University of Delaware. 06/25/2018.
Deep learning for extracting protein-protein interactions from biomedical literature. NIH-CSSA Symposium. 06/02/2017.
Text Mining Radiology Reports for Deep Learning Radiology Images. Invited talk at ABCC-Imaging and Visualization Group, Frederick National Laboratory for Cancer Research. 06/23/2017.
Honors and Awards
NIH NIH Summer Research Mentor Award, NIH, 2019
NIH National Library of Medicine Honor Awards, NIH, 2018
NIH Clinical Center CEO Awards, NIH, 2017
NIH Employee Awards, NIH, 2016-2017
CHEMPROT-Elsevier Prize, BioCreative VI, 2017
BioCreative Workshop Travel Award, 2015
Professional Development Award, University of Delaware, 2015