Ricardo Henao

Biostatistics & Bioinformatics, Division of Translational Biomedical

Associate Professor of Biostatistics & Bioinformatics

Ricardo Henao Profile Photo

Education

Ph.D. Technical University of Denmark (Denmark), 2011

Positions

Associate Professor of Biostatistics & Bioinformatics
Associate Professor in Surgery
Assistant Professor in the Department of Electrical and Computer Engineering
Member in the Duke Clinical Research Institute
Member of Duke Center for Applied Genomics and Precision Medicine

Courses Taught

IDS 793: Independent Study
EGR 393: Research Projects in Engineering
ECE 899: Special Readings in Electrical Engineering
ECE 891: Internship
ECE 391: Projects in Electrical and Computer Engineering

Publications

Chen J, Schmidt F, Henao R. Assessing Scale and Predictive Diversity in Models for Single-Cell Transcriptomics based on Geneformer. Cold Spring Harbor Laboratory. 2025.
Mallya P, Henao R, Hong C, Wojdyla D, Schibler T, Manchanda V, et al. Automated Data Harmonization in Clinical Research: Natural Language Processing Approach. JMIR Form Res. 2025 Aug 27;9:e75608.
Rich-Edwards JW, Rexrode KM, Liu T, Hong C, Quist-Nelson J, Meng M-L, et al. Letter by Rich-Edwards et al Regarding Article, "Assessing the Accuracy of Cardiovascular Disease Prediction Using Female-Specific Risk Factors in Women Aged 45 to 69 Years in the UK Biobank Study". Circ Cardiovasc Qual Outcomes. 2025 Jul;18(7):e011970.
Engelhard M, Wojdyla D, Wang H, Pencina M, Henao R. Exploring trade-offs in equitable stroke risk prediction with parity-constrained and race-free models. Artif Intell Med. 2025 Jun;164:103130.
Zaribafzadeh H, Henson JB, Chan NW, Rogers U, Webster W, Schappe T, et al. Development of a natural language processing algorithm to extract social determinants of health from clinician notes. Am J Transplant. 2025 Jun;25(6):1306u201318.
Vemulapalli S, Alenezi F, Jeong H, Giczewska A, Chiswell K, Douglas P, et al. Machine Learning Computer Vision Point of Care Decision Support of Echocardiographic Identification of Hypertrophic Cardiomyopathy. In: JACC Adv. 2025. p. 101746.
Mallya P, Henao R, Hong C, Wojdyla D, Schibler T, Manchanda V, et al. Automated Data Harmonization in Clinical Research: Natural Language Processing Approach (Preprint). JMIR Publications Inc. 2025.
Henao R, Pencina M. Toward Improving Risk Prediction through Clustering Analysis. Eur J Prev Cardiol. 2025 Mar 20;
Chu Y, Luo G, Zhou L, Cao S, Ma G, Meng X, et al. Deep learning-driven pulmonary artery and vein segmentation reveals demography-associated vasculature anatomical differences. Nat Commun. 2025 Mar 6;16(1):2262.
Hurst JH, Mohan AA, Dalapati T, George IA, Aquino JN, Lugo DJ, et al. Age-associated differences in mucosal and systemic host responses to SARS-CoV-2 infection. Nature communications. 2025 Mar;16(1):2383.
Iglesias-Ussel MD, Ou2019Grady N, Anderson J, Mitsis PG, Burke TW, Henao R, et al. A Rapid Host Response Blood Test for Bacterial/Viral Infection Discrimination Using a Portable Molecular Diagnostic Platform. Open Forum Infect Dis. 2025 Jan;12(1):ofae729.
Wang D, Yang Y, Chen L, Gan Z, Henao R, Carin L. Proactive Pseudo-Intervention: Pre-informed Contrastive Learning For Interpretable Vision Models. Proceedings of Machine Learning Research. 2025 Jan 1;281:20u201334.
Wong A-KI, Wischmeyer PE, Lee H, Gorenshtein L, Sytsma T, Hao S, et al. Enteral and Parenteral Nutrition Timing in eICU Collaborative Research Database by Race: A Retrospective Observational Study. J Surg Res. 2024 Dec;304:181u20139.
Huang WA, Engelhard M, Coffman M, Hill ED, Weng Q, Scheer A, et al. A conditional multi-label model to improve prediction of a rare outcome: An illustration predicting autism diagnosis. J Biomed Inform. 2024 Sep;157:104711.
McCravy M, Ou2019Grady N, Khan K, Betancourt-Quiroz M, Zaas AK, Treece AE, et al. Predictive signature of murine and human host response to typical and atypical pneumonia. BMJ Open Respir Res. 2024 Aug 3;11(1).
Smith ID, Solomon MJ, Mulder H, Sims C, Coles TM, Overton R, et al. Evaluating Factors Associated With Telehealth Appropriateness in Outpatient Rheumatoid Arthritis Encounters Using the Encounter Appropriateness Score for You (EASY). J Rheumatol. 2024 Aug 1;51(8):759u201364.
Richardson A, Kundu A, Henao R, Lee T, Scott BL, Grewal DS, et al. Multimodal Retinal Imaging Classification for Parkinson's Disease Using a Convolutional Neural Network. Transl Vis Sci Technol. 2024 Aug 1;13(8):23.
Xia M, Wilson J, Goldstein B, Henao R. Contrastive Learning for Clinical Outcome Prediction with Partial Data Sources. Proc Mach Learn Res. 2024 Jul;235:54156u201377.
Goldstein BA, Xu C, Wilson J, Henao R, Ephraim PL, Weiner DE, et al. Designing an Implementable Clinical Prediction Model for Near-Term Mortality and Long-Term Survival in Patients on Maintenance Hemodialysis. Am J Kidney Dis. 2024 Jul;84(1):73u201382.
Jeong HK, Park C, Jiang SW, Nicholas M, Chen S, Henao R, et al. Image Quality Assessment Using Convolutional Neural Network in Clinical Skin Images. JID Innov. 2024 Jul;4(4):100285.
Ashhad M, Henao R. Conditioning on Time is All You Need for Synthetic Survival Datan Generation. 2024.
Wang AT, Convertino W, Cheng X, Henao R, Carin L. On Understanding Attention-Based In-Context Learning for Categoricaln Data. 2024.
Zhang H, Cong Y, Wang Z, Zhang L, Zhao M, Chen L, et al. Text Feature Adversarial Learning for Text Generation With Knowledge Transfer From GPT2. IEEE Trans Neural Netw Learn Syst. 2024 May;35(5):6558u201369.
Hickey J, Henao R, Wojdyla D, Pencina M, Engelhard M. Adaptive Discretization for Event PredicTion (ADEPT). Proc Mach Learn Res. 2024 May;238:1351u20139.
Chu Y, Luo G, Zhou L, Cao S, Ma G, Meng X, et al. Deep learning-driven pulmonary artery and vein segmentation revealsn demography-associated vasculature anatomical differences. 2024.
Assaad S, Dov D, Park C, Davis R, Kovalsky SZ, Lee WT, et al. A Preliminary Study Comparing the Performance of Thyroid Molecular Tests to a Deep Learning Algorithm in Predicting Malignancy in Indeterminate Thyroid Fine Needle Aspiration Biopsies. Thyroid. 2024 Apr;34(4):531u20135.
Howe C, Smith ID, Coles TM, Overton R, Economou-Zavlanos N, Solomon MJ, et al. Evaluating Provider Perceptions of Telehealth Utility in Outpatient Rheumatology Telehealth Encounters. J Clin Rheumatol. 2024 Mar 1;30(2):46u201351.
Van Neste L, Henao R, Wojno KJ, Signes J, DeHart J, Busta A, et al. Development and Optimization of a Subtraction-Normalized Immunocyte Profiling Signature for Prostate Cancer Active Surveillance Risk Stratification. J Urol. 2024 Mar;211(3):415u201325.
Economou-Zavlanos NJ, Bessias S, Cary MP, Bedoya AD, Goldstein BA, Jelovsek JE, et al. Translating ethical and quality principles for the effective, safe and fair development, deployment and use of artificial intelligence technologies in healthcare. J Am Med Inform Assoc. 2024 Feb 16;31(3):705u201313.
McClain MT, Zhbannikov I, Satterwhite LL, Henao R, Giroux NS, Ding S, et al. Epigenetic and transcriptional responses in circulating leukocytes are associated with future decompensation during SARS-CoV-2 infection. iScience. 2024 Jan 19;27(1):108288.
Suzuki A, Henao R, Reed MC, Nijhout HF, Tripathi M, Singh BK, et al. Lower hepatic CBS and PEMT expression in advanced NAFLD: inferencing strategies to lower homocysteine with a mathematical model. Metabolism and Target Organ Damage. 2024 Jan 1;4(3).
Wang R, Yu T, Zhang R, Kim S, Rossi R, Zhao H, et al. Personalized Federated Learning for Text Classification with Gradient-Free Prompt Tuning. In: Findings of the Association for Computational Linguistics Naacl 2024 Findings. 2024. p. 4597u2013612.
Gao M, Pejavara K, Balu S, Henao R. Development of a Flexible Chain of Thought Framework for Automated Routing of Patient Portal Messages. AMIA Annu Symp Proc. 2024;2024:443u201352.
Steinbrink JM, Liu Y, Henao R, Tsalik EL, Ginsburg GS, Ramsburg E, et al. Pathogen class-specific transcriptional responses derived from PBMCs accurately discriminate between fungal, bacterial, and viral infections. PLoS One. 2024;19(12):e0311007.
Hong C, Liu M, Wojdyla DM, Hickey J, Pencina M, Henao R. Trans-Balance: Reducing demographic disparity for prediction models in the presence of class imbalance. J Biomed Inform. 2024 Jan;149:104532.
Wisely CE, Richardson A, Henao R, Robbins CB, Ma JP, Wang D, et al. A Convolutional Neural Network Using Multimodal Retinal Imaging for Differentiation of Mild Cognitive Impairment from Normal Cognition. Ophthalmol Sci. 2024;4(1):100355.
Solomon M, Henao R, Economau-Zavlanos N, Smith I, Adagarla B, Overton AJ, et al. Encounter Appropriateness Score for You Model: Development and Pilot Implementation of a Predictive Model to Identify Visits Appropriate for Telehealth in Rheumatology. Arthritis Care Res (Hoboken). 2024 Jan;76(1):63u201371.
Ko ER, Reller ME, Tillekeratne LG, Bodinayake CK, Miller C, Burke TW, et al. Host-response transcriptional biomarkers accurately discriminate bacterial and viral infections of global relevance. Sci Rep. 2023 Dec 18;13(1):22554.
Zaribafzadeh H, Webster WL, Vail CJ, Daigle T, Kirk AD, Allen PJ, et al. Development, Deployment, and Implementation of a Machine Learning Surgical Case Length Prediction Model and Prospective Evaluation. Ann Surg. 2023 Dec 1;278(6):890u20135.
Steinbrink JM, Liu Y, Henao R, Tsalik EL, Ginsburg GS, Ramsburg E, et al. 305. PBMC-Derived Transcriptomic Signatures Accurately Discriminate Between Viral, Bacterial, and Fungal Infections and can be Translated to Real-World Human Infections. Open Forum Infectious Diseases. 2023 Nov 27;10(Supplement_2).
Dow ER, Jeong HK, Katz EA, Toth CA, Wang D, Lee T, et al. A Deep-Learning Algorithm to Predict Short-Term Progression to Geographic Atrophy on Spectral-Domain Optical Coherence Tomography. JAMA Ophthalmol. 2023 Nov 1;141(11):1052u201361.
Mallya P, Stevens LM, Zhao J, Hong C, Henao R, Economou-Zavlanos N, et al. Facilitating Harmonization of Variables in Framingham, MESA, ARIC, and REGARDS Studies Through a Metadata Repository. Circ Cardiovasc Qual Outcomes. 2023 Nov;16(11):e009938.
Dov D, Elliott Range D, Cohen J, Bell J, Rocke DJ, Kahmke RR, et al. Deep-Learning-Based Screening and Ancillary Testing for Thyroid Cytopathology. Am J Pathol. 2023 Sep;193(9):1185u201394.
Pavon JM, Previll L, Woo M, Henao R, Solomon M, Rogers U, et al. Machine learning functional impairment classification with electronic health record data. J Am Geriatr Soc. 2023 Sep;71(9):2822u201333.
Hurst JH, Mohan AA, Dalapati T, George IA, Aquino JN, Lugo DJ, et al. Differential host responses within the upper respiratory tract and peripheral blood of children and adults with SARS-CoV-2 infection. 2023.
Kong F, Li Y, Nassif H, Fiez T, Henao R, Chakrabarti S. Neural Insights for Digital Marketing Content Design. In: Proceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. 2023. p. 4320u201332.
Zhang H, Wang C, Wang Z, Duan Z, Chen B, Zhou M, et al. Learning Hierarchical Document Graphs From Multilevel Sentence Relations. IEEE Trans Neural Netw Learn Syst. 2023 Aug;34(8):4273u201385.
Chen J, Engelhard M, Henao R, Berchuck S, Eichner B, Perrin EM, et al. Enhancing early autism prediction based on electronic records using clinical narratives. J Biomed Inform. 2023 Aug;144:104390.
Wegermann K, Fudim M, Henao R, Howe CF, McGarrah R, Guy C, et al. Serum Metabolites Are Associated With HFpEF in Biopsy-Proven Nonalcoholic Fatty Liver Disease. J Am Heart Assoc. 2023 Jul 18;12(14):e029873.
Tran BV, Moris D, Markovic D, Zaribafzadeh H, Henao R, Lai Q, et al. Development and validation of a REcurrent Liver cAncer Prediction ScorE (RELAPSE) following liver transplantation in patients with hepatocellular carcinoma: Analysis of the US Multicenter HCC Transplant Consortium. Liver transplantationu202f: official publication of the American Association for the Study of Liver Diseases and the International Liver Transplantation Society. 2023 Jul;29(7):683u201397.
Wu J, Wang R, Zhao H, Zhang R, Lu C, Li S, et al. Few-Shot Composition Learning for Image Retrieval with Prompt Tuning. Proceedings of the 37th Aaai Conference on Artificial Intelligence Aaai 2023. 2023 Jun 27;37:4729u201337.
Wu J, Yu T, Wang R, Song Z, Zhang R, Zhao H, et al. InfoPrompt: Information-Theoretic Soft Prompt Tuning for Naturaln Language Understanding. 2023.
Lee T, Rivera A, Brune M, Kundu A, Haystead A, Winslow L, et al. Convolutional Neural Network-Based Automated Quality Assessment of OCT and OCT Angiography Image Maps in Individuals With Neurodegenerative Disease. Transl Vis Sci Technol. 2023 Jun 1;12(6):30.
Assaad S, Dov D, Davis R, Kovalsky S, Lee WT, Kahmke R, et al. Thyroid Cytopathology Cancer Diagnosis from Smartphone Images Using Machine Learning. Mod Pathol. 2023 Jun;36(6):100129.
Qi S-A, Kumar N, Farrokh M, Sun W, Kuan L-H, Ranganath R, et al. An Effective Meaningful Way to Evaluate Survival Models. 2023.
Kong F, Yuan S, Hao W, Henao R. Mitigating Test-Time Bias for Fair Image Retrieval. 2023.
Giroux NS, Ding S, McClain MT, Burke TW, Petzold E, Chung HA, et al. Author Correction: Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion. Sci Rep. 2023 Apr 20;13(1):6462.
Chapfuwa P, Tao C, Li C, Khan I, Chandross KJ, Pencina MJ, et al. Calibration and Uncertainty in Neural Time-to-Event Modeling. IEEE Trans Neural Netw Learn Syst. 2023 Apr;34(4):1666u201380.
Bai K, Wang G, Li J, Park S, Lee S, Xu P, et al. Open World Classification with Adaptive Negative Samples. 2023.
Zhang Z, Sauerwald N, Cappuccio A, Ramos I, Nair VD, Nudelman G, et al. Blood RNA alternative splicing events as diagnostic biomarkers for infectious disease. Cell Rep Methods. 2023 Feb 27;3(2):100395.
Wang R, Cheng P, Henao R. Toward Fairness in Text Generation via Mutual Information Minimizationn based on Importance Sampling. 2023.
Kong F, Li Y, Nassif H, Fiez T, Henao R, Chakrabarti S. Neural Insights for Digital Marketing Content Design. 2023.
Engelhard MM, Henao R, Berchuck SI, Chen J, Eichner B, Herkert D, et al. Predictive Value of Early Autism Detection Models Based on Electronic Health Record Data Collected Before Age 1 Year. JAMA Netw Open. 2023 Feb 1;6(2):e2254303.
Wang R, Yu T, Wu J, Zhao H, Kim S, Zhang R, et al. Federated Domain Adaptation for Named Entity Recognition via Distilling with Heterogeneous Tag Sets. In: Proceedings of the Annual Meeting of the Association for Computational Linguistics. 2023. p. 7449u201363.
Hong C, Pencina MJ, Wojdyla DM, Hall JL, Judd SE, Cary M, et al. Predictive Accuracy of Stroke Risk Prediction Models Across Black and White Race, Sex, and Age Groups. JAMA. 2023 Jan;329(4):306u201317.
Kong F, Yuan S, Hao W, Henao R. Mitigating Test-Time Bias for Fair Image Retrieval. In: Advances in Neural Information Processing Systems. 2023.
Isik Y, Chapfuwa P, Davis C, Henao R. Hawkes Process with Flexible Triggering Kernels. In: Proceedings of Machine Learning Research. 2023. p. 308u201320.
Mariottoni EB, Datta S, Shigueoka LS, Jammal AA, Tavares IM, Henao R, et al. Deep Learning-Assisted Detection of Glaucoma Progression in Spectral-Domain OCT. Ophthalmol Glaucoma. 2023;6(3):228u201338.
Quist-Nelson J, Meng ML, Stuart JJ, Fuller M, Rogers U, Pencina M, et al. Adverse pregnancy outcomes and the development of short-term maternal cardiovascular disease risk factors. In: AMERICAN JOURNAL OF OBSTETRICS AND GYNECOLOGY. 2023. p. S497u2013S497.
Chen T, Dalton G, Oh S-H, Maeso-Diaz R, Du K, Meyers RA, et al. Hepatocyte Smoothened Activity Controls Susceptibility to Insulin Resistance and Nonalcoholic Fatty Liver Disease. In: Cell Mol Gastroenterol Hepatol. 2023. p. 949u201370.
Bai K, Cheng P, Hao W, Henao R, Carin L. Estimating Total Correlation with Mutual Information Estimators. In: Proceedings of Machine Learning Research. 2023. p. 2147u201364.
Jeong HK, Park C, Henao R, Kheterpal M. Deep Learning in Dermatology: A Systematic Review of Current Approaches, Outcomes, and Limitations. JID Innov. 2023 Jan;3(1):100150.
Wang R, Cheng P, Henao R. Toward Fairness in Text Generation via Mutual Information Minimization based on Importance Sampling. In: Proceedings of Machine Learning Research. 2023. p. 4473u201385.
Wu J, Yu T, Wang R, Song Z, Zhang R, Zhao H, et al. InfoPrompt: Information-Theoretic Soft Prompt Tuning for Natural Language Understanding. In: Advances in Neural Information Processing Systems. 2023.
Xia M, Henao R. Reliable Active Learning via Influence Functions. Transactions on Machine Learning Research. 2023 Jan 1;2023.
Verma VK, Mehta N, Si S, Henao R, Carin L. Pushing the Efficiency Limit Using Structured Sparse Convolutions. In: Proceedings 2023 IEEE Winter Conference on Applications of Computer Vision Wacv 2023. 2023. p. 6492u2013502.
Qi SA, Kumar N, Farrokh M, Sun W, Kuan LH, Ranganath R, et al. An Effective Meaningful Way to Evaluate Survival Models. In: Proceedings of Machine Learning Research. 2023. p. 28244u201376.
Cappuccio A, Chawla DG, Chen X, Rubenstein AB, Cheng WS, Mao W, et al. Multi-objective optimization identifies a specific and interpretable COVID-19 host response signature. Cell Syst. 2022 Dec 21;13(12):989-1001.e8.
Moris D, Henao R, Hensman H, Stempora L, Chasse S, Schobel S, et al. Multidimensional machine learning models predicting outcomes after trauma. Surgery. 2022 Dec;172(6):1851u20139.
Fiorino C, Liu Y, Henao R, Ko ER, Burke TW, Ginsburg GS, et al. Host Gene Expression to Predict Sepsis Progression. Crit Care Med. 2022 Dec 1;50(12):1748u201356.
Verma VK, Mehta N, Si S, Henao R, Carin L. Pushing the Efficiency Limit Using Structured Sparse Convolutions. 2022.
Wang S, Choi Y, Chen J, El-Khamy M, Henao R. Toward Sustainable Continual Learning: Detection and Knowledgen Repurposing of Similar Tasks. 2022.
Smith ID, Coles TM, Howe C, Overton R, Economou-Zavlanos N, Solomon MJ, et al. Telehealth Made EASY: Understanding Provider Perceptions of Telehealth Appropriateness in Outpatient Rheumatology Encounters. ACR Open Rheumatol. 2022 Oct;4(10):845u201352.
Xia M, Kheterpal MK, Wong SC, Park C, Ratliff W, Carin L, et al. Lesion identification and malignancy prediction from clinical dermatological images. Sci Rep. 2022 Sep 23;12(1):15836.
Bai K, Zhang A, Li Z, Heano R, Wang C, Carin L. Collaborative Anomaly Detection. 2022.
Richardson A, Robbins CB, Wisely CE, Henao R, Grewal DS, Fekrat S. Artificial intelligence in dementia. Curr Opin Ophthalmol. 2022 Sep 1;33(5):425u201331.
Yang T, Henao R. TAMC: A deep-learning approach to predict motif-centric transcriptional factor binding activity based on ATAC-seq profile. PLoS Comput Biol. 2022 Sep;18(9):e1009921.
Chapfuwa P, Rose S, Carin L, Meeds E, Henao R. Capturing Actionable Dynamics with Structured Latent Ordinary Differential Equations. In: Proc Mach Learn Res. 2022. p. 286u201395.
Giroux NS, Ding S, McClain MT, Burke TW, Petzold E, Chung HA, et al. Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion. Sci Rep. 2022 Jul 9;12(1):11714.
Dov D, Kovalsky SZ, Feng Q, Assaad S, Cohen J, Bell J, et al. Use of Machine Learning-Based Software for the Screening of Thyroid Cytopathology Whole Slide Images. Arch Pathol Lab Med. 2022 Jul 1;146(7):872u20138.
Dov D, Assaad S, Syedibrahim A, Bell J, Huang J, Madden J, et al. A Hybrid Human-Machine Learning Approach for Screening Prostate Biopsies Can Improve Clinical Efficiency Without Compromising Diagnostic Accuracy. Arch Pathol Lab Med. 2022 Jun 1;146(6):727u201334.
Eckhoff AM, Connor AA, Thacker JKM, Blazer DG, Moore HG, Scheri RP, et al. A Multidimensional Bioinformatic Platform for the Study of Human Response to Surgery. Ann Surg. 2022 Jun 1;275(6):1094u2013102.
Park C, Jeong HK, Henao R, Kheterpal M. Current Landscape of Generative Adversarial Networks for Facial Deidentification in Dermatology: Systematic Review and Evaluation. JMIR Dermatol. 2022 May 27;5(2):e35497.
Xu Z, Zhao C, Scales CD, Henao R, Goldstein BA. Predicting in-hospital length of stay: a two-stage modeling approach to account for highly skewed data. BMC Med Inform Decis Mak. 2022 Apr 24;22(1):110.
Ko ER, Henao R, Frankey K, Petzold EA, Isner PD, Jaehne AK, et al. Prospective Validation of a Rapid Host Gene Expression Test to Discriminate Bacterial From Viral Respiratory Infection. JAMA Netw Open. 2022 Apr 1;5(4):e227299.
Draelos RL, Ezekian JE, Zhuang F, Moya-Mendez ME, Zhang Z, Rosamilia MB, et al. GENESIS: Gene-Specific Machine Learning Models for Variants of Uncertain Significance Found in Catecholaminergic Polymorphic Ventricular Tachycardia and Long QT Syndrome-Associated Genes. Circ Arrhythm Electrophysiol. 2022 Apr;15(4):e010326.
Engelhard M, Henao R. Disentangling Whether from When in a Neural Mixture Cure Model for Failure Time Data. Proc Mach Learn Res. 2022 Mar;151:9571u201381.
Wisely CE, Wang D, Henao R, Grewal DS, Thompson AC, Robbins CB, et al. Convolutional neural network to identify symptomatic Alzheimer's disease using multimodal retinal imaging. Br J Ophthalmol. 2022 Mar;106(3):388u201395.
Chapfuwa P, Rose S, Carin L, Meeds E, Henao R. Capturing Actionable Dynamics with Structured Latent Ordinaryn Differential Equations. 2022.
Bodkin N, Ross M, McClain MT, Ko ER, Woods CW, Ginsburg GS, et al. Systematic comparison of published host gene expression signatures for bacterial/viral discrimination. Genome Med. 2022 Feb 21;14(1):18.
Isik YA, Davis C, Chapfuwa P, Henao R. Flexible Triggering Kernels for Hawkes Process Modeling. 2022.
Yang T, Henao R. TAMC: A deep-learning approach to predict motif-centric transcriptional factor binding activity based on ATAC-seq profile. bioRxiv. 2022.
Wong SC, Ratliff W, Xia M, Park C, Sendak M, Balu S, et al. Use of convolutional neural networks in skin lesion analysis using real world image and non-image data. Front Med (Lausanne). 2022;9:946937.
Leverenz D, Solomon M, Economau-Zavlanos N, Adagarla BS, Coles T, Smith I, et al. Development and Pilot Implementation of a Predictive Model to Identify Visits Appropriate for Telehealth. In: ARTHRITIS & RHEUMATOLOGY. 2022. p. 2541u20133.
Wang R, Yu T, Zhao H, Kim S, Mitra S, Zhang R, et al. Few-Shot Class-Incremental Learning for Named Entity Recognition. In: Proceedings of the Annual Meeting of the Association for Computational Linguistics. 2022. p. 571u201382.
Wang R, Zhang R, Henao R. Wasserstein Uncertainty Estimation for Adversarial Domain Matching. Front Big Data. 2022;5:878716.
Wu J, Wang R, Yu T, Zhang R, Zhao H, Li S, et al. Context-aware Information-theoretic Causal De-biasing for Interactive Sequence Labeling. In: Findings of the Association for Computational Linguistics Emnlp 2022. 2022. p. 3436u201348.
Bai K, Wang G, Li J, Park S, Lee S, Xu P, et al. Open World Classification with Adaptive Negative Samples. In: Proceedings of the 2022 Conference on Empirical Methods in Natural Language Processing Emnlp 2022. 2022. p. 4378u201392.
Lad EM, Toth CA, Wang D, Henao R, Carin L. A Deep Learning Algorithm to Predict Short-term Progression to Geographic Atrophy on Spectral Domain-OCT. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2022.
Kong F, Henao R. Efficient Classification of Very Large Images with Tiny Objects. In: Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition. 2022. p. 2374u201384.
Chapfuwa P, Rose S, Carin L, Meeds E, Henao R. Capturing Actionable Dynamics with Structured Latent Ordinary Differential Equations. In: Proceedings of Machine Learning Research. 2022. p. 286u201395.
Wang R, Henao R. WASSERSTEIN CROSS-LINGUAL ALIGNMENT FOR NAMED ENTITY RECOGNITION. In: ICASSP IEEE International Conference on Acoustics Speech and Signal Processing Proceedings. 2022. p. 8342u20136.
Gao Q, Wang D, Amason JD, Yuan S, Tao C, Henao R, et al. GRADIENT IMPORTANCE LEARNING FOR INCOMPLETE OBSERVATIONS. In: Iclr 2022 10th International Conference on Learning Representations. 2022.
Jeong HK, Park C, Henao R, Kheterpal M. Privacy Protection With Facial Deidentification Machine Learning Methods: Can Current Methods Be Applied to Dermatology? Iproceedings. 2021 Dec 17;6(1):e35431u2013e35431.
Park C, Jeong HK, Henao R, Kheterpal M. Current Landscape of Generative Adversarial Networks for Facial Deidentification in Dermatology: Systematic Review and Evaluation (Preprint). JMIR Publications Inc. 2021.
Jeong HK, Park C, Henao R, Kheterpal M. Privacy Protection With Facial Deidentification Machine Learning Methods: Can Current Methods Be Applied to Dermatology? (Preprint). 2021 Dec 3;
Pagidipati NJ, Phelan M, Page C, Clowse M, Henao R, Peterson ED, et al. The importance of weight stabilization amongst those with overweight or obesity: Results from a large health care system. Prev Med Rep. 2021 Dec;24:101615.
Chen J, Xiu Z, Goldstein BA, Henao R, Carin L, Tao C. Supercharging Imbalanced Data Learning With Energy-based Contrastive Representation Transfer. In: Adv Neural Inf Process Syst. 2021. p. 21229u201343.
Tsalik EL, Henao R, Montgomery JL, Nawrocki JW, Aydin M, Lydon EC, et al. Discriminating Bacterial and Viral Infection Using a Rapid Host Gene Expression Test. Crit Care Med. 2021 Oct 1;49(10):1651u201363.
Van Neste L, Wojno KJ, Henao R, Mane S, Korman H, Hafron J, et al. Evaluation of an RNAseq-Based Immunogenomic Liquid Biopsy Approach in Early-Stage Prostate Cancer. Cells. 2021 Sep 28;10(10).
Markwalter CF, Nyunt MH, Han ZY, Henao R, Jain A, Taghavian O, et al. Antibody signatures of asymptomatic Plasmodium falciparum malaria infections measured from dried blood spots. Malar J. 2021 Sep 23;20(1):378.
Meireles OR, Rosman G, Altieri MS, Carin L, Hager G, Madani A, et al. SAGES consensus recommendations on an annotation framework for surgical video. Surg Endosc. 2021 Sep;35(9):4918u201329.
Alexopoulos A-S, Crowley MJ, Wang Y, Moylan CA, Guy CD, Henao R, et al. Glycemic Control Predicts Severity of Hepatocyte Ballooning and Hepatic Fibrosis in Nonalcoholic Fatty Liver Disease. Hepatology. 2021 Sep;74(3):1220u201333.
Grzesiak E, Bent B, McClain MT, Woods CW, Tsalik EL, Nicholson BP, et al. Assessment of the Feasibility of Using Noninvasive Wearable Biometric Monitoring Sensors to Detect Influenza and the Common Cold Before Symptom Onset. JAMA Netw Open. 2021 Sep 1;4(9):e2128534.
Mahle RE, Suchindran S, Henao R, Steinbrink JM, Burke TW, McClain MT, et al. Validation of a Host Gene Expression Test for Bacterial/Viral Discrimination in Immunocompromised Hosts. Clin Infect Dis. 2021 Aug 16;73(4):605u201313.
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Burke TW, Henao R, Soderblom E, Tsalik EL, Thompson JW, McClain MT, et al. Nasopharyngeal Protein Biomarkers of Acute Respiratory Virus Infection. EBioMedicine. 2017 Mar;17:172u201381.
Zhang Y, Shen D, Wang G, Gan Z, Henao R, Carin L. Deconvolutional paragraph representation learning. Advances in Neural Information Processing Systems. 2017 Jan 1;2017-December:4170u201380.
Pu Y, Gan Z, Henao R, Li C, Han S, Carin L. Stein Variational Autoencoder. CoRR. 2017;abs/1704.05155.
Zhang Y, Chen C, Gan Z, Henao R, Carin L. Stochastic gradient monomial gamma sampler. 34th International Conference on Machine Learning Icml 2017. 2017 Jan 1;8:6083u201392.
Pu Y, Wang W, Henao R, Chen L, Gan Z, Li C, et al. Adversarial Symmetric Variational Autoencoder. In: Guyon I, Luxburg UV, Bengio S, Wallach H, Fergus R, Vishwanathan S, et al., editors. ADVANCES IN NEURAL INFORMATION PROCESSING SYSTEMS 30 (NIPS 2017). NEURAL INFORMATION PROCESSING SYSTEMS (NIPS); 2017.
Zhang Y, Gan Z, Fan K, Chen Z, Henao R, Shen D, et al. Adversarial Feature Matching for Text Generation. In: Precup D, Teh YW, editors. ICML. PMLR; 2017. p. 4006u201315.
Pu Y, Gan Z, Henao R, Li C, Han S, Carin L. VAE learning via Stein variational gradient descent. In: Advances in Neural Information Processing Systems. 2017. p. 4237u201346.
Li C, Liu H, Chen C, Pu Y, Chen L, Henao R, et al. ALICE: Towards Understanding Adversarial Learning for Joint Distribution Matching. In: Guyon I, Luxburg UV, Bengio S, Wallach H, Fergus R, Vishwanathan S, et al., editors. ADVANCES IN NEURAL INFORMATION PROCESSING SYSTEMS 30 (NIPS 2017). NEURAL INFORMATION PROCESSING SYSTEMS (NIPS); 2017.
Zhang Y, Gan Z, Fan K, Chen Z, Henao R, Shen D, et al. Adversarial feature matching for text generation. 34th International Conference on Machine Learning Icml 2017. 2017 Jan 1;8:6093u2013102.
Gan Z, Pu Y, Henao R, Li C, He X, Carin L. Learning generic sentence representations using convolutional neural networks. In: Emnlp 2017 Conference on Empirical Methods in Natural Language Processing Proceedings. 2017. p. 2390u2013400.
Zhang Y, Shen D, Wang G, Gan Z, Henao R, Carin L. Deconvolutional Paragraph Representation Learning. In: Guyon I, Luxburg UV, Bengio S, Wallach HM, Fergus R, Vishwanathan SVN, et al., editors. NIPS. 2017. p. 4169u201379.
Li C, Liu H, Chen C, Pu Y, Chen L, Henao R, et al. ALICE: Towards understanding adversarial learning for joint distribution matching. In: Advances in Neural Information Processing Systems. 2017. p. 5496u2013504.
Komives E, Rusincovitch SA, Paat J, Carin L, Costello D, Gao M, et al. Guiding Principles for the Duke Connected Care Predictive Modeling Pilot. In: AMIA. AMIA; 2017.
Pu Y, Wang W, Henao R, Chen L, Gan Z, Li C, et al. Adversarial symmetric variational autoencoder. Advances in Neural Information Processing Systems. 2017 Jan 1;2017-December:4331u201340.
Rusincovitch SA, Henao R, Gao M, Carin L, Rogers U, Neely NB, et al. Rationale and Design for the Duke Connected Care Predictive Modeling Pilot with a Medicare Shared Savings Program Population. In: AMIA. AMIA; 2017.
Zhang Y, Chen C, Gan Z, Henao R, Carin L. Stochastic Gradient Monomial Gamma Sampler. In: INTERNATIONAL CONFERENCE ON MACHINE LEARNING, VOL 70. 2017.
Li C, Liu H, Chen C, Pu Y, Chen L, Henao R, et al. Towards Understanding Adversarial Learning for Joint Distribution Matching. CoRR. 2017;abs/1709.01215.
Pu Y, Gan Z, Henao R, Li C, Han S, Carin L. VAE Learning via Stein Variational Gradient Descent. In: Guyon I, Luxburg UV, Bengio S, Wallach H, Fergus R, Vishwanathan S, et al., editors. ADVANCES IN NEURAL INFORMATION PROCESSING SYSTEMS 30 (NIPS 2017). NEURAL INFORMATION PROCESSING SYSTEMS (NIPS); 2017.
Patel YA, Henao R, Moylan CA, Guy CD, Piercy DL, Diehl AM, et al. Vitamin D is Not Associated With Severity in NAFLD: Results of a Paired Clinical and Gene Expression Profile Analysis. Am J Gastroenterol. 2016 Nov;111(11):1591u20138.
Moylan CA, Wegermann KJ, Henao RG, Murphy SK, Diehl AM, Abdelmalek MF. BCAT1 Is Associated with Clinical Decompensation in Nonalcoholic Fatty Liver Disease: a Pilot Study. In: American Journal of Gastroenterology. Ovid Technologies (Wolters Kluwer Health); 2016. p. S381u2013S381.
Patel YA, Henao R, Moylan CA, Guy CD, Piercy DL, Diehl AM, et al. Vitamin D is Not Associated with Histologic Severity in NAFLD: Results of a Paired Clinical and Hepatic Gene Expression Profile Analysis. In: HEPATOLOGY. WILEY; 2016. p. 577A-577A.
Wegermann K, Henao R, Pan Y, Diehl AM, Abdelmalek MF, Moylan CA. BCAT1 is Associated with Clinical Decompensation in NAFLD: A Pilot Study. In: HEPATOLOGY. WILEY; 2016. p. 577A-577A.
Fan K, Zhang Y, Henao R, Heller K. Triply stochastic variational inference for non-linear beta process factor analysis. In: Proceedings IEEE International Conference on Data Mining Icdm. 2016. p. 121u201330.
Zhang Y, Zhao Y, David L, Henao R, Carin L. Dynamic poisson factor analysis. In: Proceedings IEEE International Conference on Data Mining Icdm. 2016. p. 1359u201364.
Henao R, Lu JT, Lucas JE, Ferranti J, Carin L. Electronic health record analysis via deep poisson factor models. Journal of Machine Learning Research. 2016 Apr 1;17.
McClain MT, Henao R, Williams J, Nicholson B, Veldman T, Hudson L, et al. Differential evolution of peripheral cytokine levels in symptomatic and asymptomatic responses to experimental influenza virus challenge. Clin Exp Immunol. 2016 Mar;183(3):441u201351.
Tsalik EL, Henao R, Nichols M, Burke T, Ko ER, McClain MT, et al. Host gene expression classifiers diagnose acute respiratory illness etiology. Sci Transl Med. 2016 Jan 20;8(322):322ra11.
Gan Z, Yuan X, Henao R, Tsalik EL, Carin L. Inference of gene networks associated with the host response to infectious disease. In: Big Data over Networks. Cambridge University Press; 2016. p. 365u201390.
Pu Y, Gan Z, Henao R, Yuan X, Li C, Stevens A, et al. Variational autoencoder for deep learning of images, labels and captions. In: Advances in Neural Information Processing Systems. 2016. p. 2360u20138.
Zhang Y, Wang X, Chen C, Henao R, Fan K, Carin L. Towards unifying hamiltonian Monte Carlo and Slice sampling. In: Advances in Neural Information Processing Systems. 2016. p. 1749u201357.
Song Z, Henao R, Carlson D, Carin L. Learning sigmoid belief networks via Monte Carlo expectation maximization. In: Artificial Intelligence and Statistics. 2016. p. 1347u201355.
Zhang Y, Henao R, Carin L, Zhong J, Hartemink AJ. Learning a Hybrid Architecture for Sequence Regression and Annotation. In: Schuurmans D, Wellman MP, editors. AAAI. AAAI Press; 2016. p. 1415u201321.
Gan Z, Pu Y, Henao R, Li C, He X, Carin L. Unsupervised Learning of Sentence Representations using Convolutional Neural Networks. CoRR. 2016;abs/1611.07897.
Pu Y, Gan Z, Henao R, Yuan X, Li C, Stevens A, et al. Variational Autoencoder for Deep Learning of Images, Labels and Captions. In: Lee DD, Sugiyama M, Luxburg UV, Guyon I, Garnett R, editors. NIPS. 2016. p. 2352u201360.
Zhang Y, Chen C, Henao R, Carin L. Laplacian Hamiltonian Monte Carlo. In: Lecture Notes in Computer Science Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics. 2016. p. 98u2013114.
Zhang Y, Wang X, Chen C, Henao R, Fan K, Carin L. Towards Unifying Hamiltonian Monte Carlo and Slice Sampling. In: Lee DD, Sugiyama M, Luxburg UV, Guyon I, Garnett R, editors. NIPS. 2016. p. 1741u20139.
Yizhe Z, Henao R, Li C, Carin L. Bayesian dictionary learning with Gaussian processes and sigmoid belief networks. In: Ijcai International Joint Conference on Artificial Intelligence. 2016. p. 2364u201370.
Henao R, Hasanaliyeva N, Bell LN, Wulff J, Perichon R, Moylan CA, et al. Plasma Metabolomic Profiles Predict Advanced Hepatic Fibrosis in Patients with Nonalcoholic Fatty Liver Disease. In: HEPATOLOGY. WILEY-BLACKWELL; 2015. p. 290A-291A.
Vikesu00e5 J, Mu00f8ller AKH, Kaczkowski B, Borup R, Winther O, Henao R, et al. Cancers of unknown primary origin (CUP) are characterized by chromosomal instability (CIN) compared to metastasis of know origin. BMC Cancer. 2015 Mar 19;15:151.
Gan Z, Chen C, Henao R, Carlson D, Carin L. Scalable Deep Poisson Factor Analysis for Topic Modeling. In: ICML. 2015.
Gan Z, Henao R, Carlson D, Carin L. Learning deep sigmoid belief networks with data augmentation. In: Artificial Intelligence and Statistics. 2015. p. 268u201376.
Raiy P, Hu C, Henao R, Carin L. Large-scale Bayesian multi-label learning via topic-based label embeddings. In: Advances in Neural Information Processing Systems. 2015. p. 3222u201330.
Gan Z, Li C, Henao R, Carlson DE, Carin L. Deep temporal sigmoid belief networks for sequence modeling. Advances in Neural Information Processing Systems. 2015;2467u201375.
Henao R, Gan Z, Lu J, Carin L. Deep poisson factor modeling. In: Advances in Neural Information Processing Systems. 2015. p. 2800u20138.
Yuan X, Henao R, Tsalik EL, Langley RJ, Carin L. Non-Gaussian discriminative factor models via the max-margin rank-likelihood. 32nd International Conference on Machine Learning Icml 2015. 2015 Jan 1;2:1254u201363.
Gan Z, Li C, Henao R, Carlson DE, Carin L. Deep Temporal Sigmoid Belief Networks for Sequence Modeling. In: Cortes C, Lawrence ND, Lee DD, Sugiyama M, Garnett R, editors. NIPS. 2015. p. 2467u201375.
Lian W, Henao R, Rao V, Lucas J, Carin L. A multitask point process predictive model. In: 32nd International Conference on Machine Learning Icml 2015. 2015. p. 2030u20138.
Quinones QJ, Ma Q, Zhang Z, Henao R, Soderblom E, Moseley MA, et al. Proteomic Profiling Reveals Reduction in Electron Transport Chain Proteins in the Hearts of Hibernating Arctic Ground Squirrels Compared with Rats after Surgical Ischemia and Reperfusion: A Convergence of Mammalian Cardio-protective Strategies. In: CIRCULATION. LIPPINCOTT WILLIAMS & WILKINS; 2014.
Henao R, Yuan X, Carin L. Bayesian nonlinear support vector machines and discriminative factor modeling. In: Advances in Neural Information Processing Systems. 2014. p. 1754u201362.
Tsalik EL, Langley RJ, Dinwiddie DL, Miller NA, Yoo B, van Velkinburgh JC, et al. An integrated transcriptome and expressed variant analysis of sepsis survival and death. Genome Med. 2014;6(11):111.
Benjamin AM, Thompson JW, Soderblom EJ, Geromanos SJ, Henao R, Kraus VB, et al. A flexible statistical model for alignment of label-free proteomics data--incorporating ion mobility and product ion information. BMC Bioinformatics. 2013 Dec 16;14:364.
Ouinones QJ, Ma Q, Henao R, Lucas J, Riess ML, Bain J, et al. Proteomnic and Metabolomic Profiling After Isehemia-Reperfusion Injury Reveals Bottlenecks That Underlie Cardioprotection in Hibernating Mammals. In: CIRCULATION. LIPPINCOTT WILLIAMS & WILKINS; 2013.
Henao R, Thompson JW, Moseley MA, Ginsburg GS, Carin L, Lucas JE. Latent protein trees. Annals of Applied Statistics. 2013 Jun 1;7(2):691u2013713.
Kurokawa M, Kim J, Geradts J, Matsuura K, Liu L, Ran X, et al. A network of substrates of the E3 ubiquitin ligases MDM2 and HUWE1 control apoptosis independently of p53. Sci Signal. 2013 May 7;6(274):ra32.
Henao R, Murray J, Ginsburg G, Carin L, Lucas JE. Patient clustering with uncoded text in electronic medical records. AMIA Annu Symp Proc. 2013;2013:592u20139.
Henao R, Thompson JW, Moseley MA, Ginsburg GS, Carin L, Lucas JE. Hierarchical factor modeling of proteomics data. 2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences Iccabs 2012. 2012 May 8;
Henao R, Lucas JE. Efficient hierarchical clustering for continuous data. 2012 Apr 20;
Henao R, Winther O. Predictive active set selection methods for Gaussian processes. Neurocomputing. 2012 Mar 15;80:10u20138.
Rossing M, Borup R, Henao R, Winther O, Vikesaa J, Niazi O, et al. Down-regulation of microRNAs controlling tumourigenic factors in follicular thyroid carcinoma. J Mol Endocrinol. 2012 Feb;48(1):11u201323.
Carin L, Hero A, Lucas J, Dunson D, Chen M, Heu00f1ao R, et al. High-Dimensional Longitudinal Genomic Data: An analysis used for monitoring viral infections. IEEE Signal Process Mag. 2012 Jan 1;29(1):108u201323.
Friis M, Martin-Bertelsen T, Friis-Hansen L, Winther O, Henao R, Su00f8rensen MS, et al. Gene expression of the endolymphatic sac. Acta Otolaryngol. 2011 Dec;131(12):1257u201363.
Henao R, Winther O. Sparse linear identifiable multivariate modeling. Journal of Machine Learning Research. 2011 Mar 1;12:863u2013905.
Henao R, Winther O. PASS-GP: Predictive active set selection for Gaussian processes. Proceedings of the 2010 IEEE International Workshop on Machine Learning for Signal Processing Mlsp 2010. 2010 Nov 24;148u201353.
Borup R, Rossing M, Henao R, Yamamoto Y, Krogdahl A, Godballe C, et al. Molecular signatures of thyroid follicular neoplasia. Endocr Relat Cancer. 2010 Sep;17(3):691u2013708.
Walder C, Henao R, Mu00f8rup M, Hansen LK. Semi-Supervised Kernel PCA. CoRR. 2010;abs/1008.1398.
Henao R, Winther O. Bayesian sparse factor models and DAGs inference and comparison. In: Advances in Neural Information Processing Systems 22 Proceedings of the 2009 Conference. 2009. p. 736u201344.
Alvarez Lu00f3pez MA, Henao R, Orozco A. Myocardial ischemia detection using Hidden Markov principal component analysis. Ifmbe Proceedings. 2008 Jan 1;18:99u2013103.
Alvarez M, Henao R. Probabilistic kernel principal component analysis through time. In: Lecture Notes in Computer Science Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics. 2006. p. 747u201354.
Alvarez M, Henao R, Castellanos G, Godino JI, Orozco A. Kernel Principal Component analysis through time for voice disorder classification. Conf Proc IEEE Eng Med Biol Soc. 2006;2006:5511u20134.
Alvarez M, Henao R, Castellanos G, Godino JI, Orozco A. Kernel Principal Component analysis through time for voice disorder classification. Conference proceedingsu202f: . Annual International Conference of the IEEE Engineering in Medicine and Biology Society IEEE Engineering in Medicine and Biology Society Conference. 2006;5511u20134.
Alvarez M, Henao R, Castellanos G, Godino JI, Orozco A. Kernel principal component analysis through time for voice disorder classification. In: 2006 28TH ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY, VOLS 1-15. IEEE; 2006. p. 2620-+.
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