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  • Sarrouti M, Quatik EL, Alaoui S. SemBioNLQA: A semantic biomedical question answering system for retrieving exact and ideal answers to natural language questions. Artif Intell Med. 2020 Jan;102:101767. doi: 10.1016/j.artmed.2019.101767. Epub 2019 Nov 28.
  • Zeiss CJ, Donwook S, Vander Wyk B, Beck AP, Zatz N, Sneiderman CA, Kilicoglu H. Menagerie: A text-mining tool to support animal-human translation in neurodegeneration research. PLoS One. 2019 Dec 17;14(12):e0226176. doi: 10.1371/journal.pone.0226176. eCollection 2019.
  • Yu H, Yang F, Silamut R, Maude S, Jaeger S, Antani SK. Automatic Blood Smear Analysis with Artificial Intelligence and Smartphones. ASTMH 68th Annual Meeting, Washington DC, Nov. 20-24, 2019.
  • Lu C, Payne A, Demner-Fushman D. Classification Types: A New Feature in the SPECIALIST Lexicon. AMIA Fall Symposium, 2019.
  • Mao Y, Fung K, Demner-Fushman D. Drug-drug Interaction Extraction via Transfer Learning. AMIA Fall Symposium, 2019.
  • Savery M, Huston M, Mork JG, Printseva O, Rae A, Schmidt S, Demner-Fushman D. Evaluation of System for Selective Indexing Classification. AMIA Fall Symposium, 2019.
  • Lure F, Jaeger S, Cheng G, Li H, Lu P, Yu W, Kung J, Guan Y. Applying Multi-modality Artificial Intelligence for Screening of Tuberculosis in a TB High-burden Large Rural Region in China TBScience, 50th Union World Conference on Lung Health, Hyderabad, India.
  • Yang F, Poostchi M, Silamut K, Maude RJ, Jaeger S, Thoma G. Automated Parasite Classification of Malaria on Thick Blood Smears. ASTMH 67th Annual Meeting, New Orleans, LA, Oct. 28 – Nov. 1, 2018.
  • Yang F, Yu H, Silamut K, Maude RJ, Jaeger S, Antani SK. Smartphone-Supported Malaria Diagnosis Based on Deep Learning. In: Suk HI., Liu M., Yan P., Lian C. (eds) Machine Learning in Medical Imaging. MLMI 2019. Lecture Notes in Computer Science, vol 11861. Springer, Cham.
  • Zou J. Unified Deep Neural Network for Segmentation and Labeling of Multi-Panel Biomedical Figures Journal of the Association for Information Science and Technology (JASIST), 2019
  • Rosemblat G, Fiszman, M, Shin D, Kilicoglu H. Towards a characterization of apparent contradictions in the biomedical literature using context analysis. Journal of Biomedical Informatics. 2019. In Press. https://doi.org/10.1016/j.jbi.2019.103275.
  • Kho SU, Sheth A, Bodenreider O. Automatic Identification of Individual Drugs in Death Certificates. Stud Health Technol Inform. 2019 Aug 21;264:183-187. doi: 10.3233/SHTI190208.
  • Vasilakes J, Fan Y, Rizvi R, Bompelli A, Bodenreider O, Zhang R. Normalizing Dietary Supplement Product Names Using the RxNorm Model. Stud Health Technol Inform. 2019 Aug 21;264:408-412. doi: 10.3233/SHTI190253.
  • Rajaraman S, Candemir S, Xue Z, Alderson P, Thoma G, Antani SK. A Novel Stacked Model Ensemble for Improved TB Detection in Chest Radiographs. In Santosh KC et al. (Eds.). Medical Imaging: Artificial Intelligence, Image Recognition, and Machine Learning Techniques. (pp. 1-26). New York, NY: CRC Press, Taylor & Francis Group.
  • Allam A, Magy M, Thoma G, Krauthammer M. Neural networks versus Logistic regression for 30 days all-cause readmission prediction. Sci Rep. 2019 Jun 26;9(1):9277. doi: 10.1038/s41598-019-45685-z.
  • Kesav N, Yang Q, Losert W, Kim J, Jaeger S, Sen HN. Novel automated processing techniques of fluorescein angiography (FA) images in patients with Uveitis. Annual Meeting of the Association for Research in Vision and Ophthalmology (ARVO).
  • Ionescu B, Muller H, Peteri R, Dang-Nguyen DT, Piras L, Riegler M, Tran MT, Lux M, Gurrin C, Cid YD, Liauchuk V, Kovalev V, Ben Abacha A, Hasan SA, Datla V, Liu J, Demner-Fushman D, Pelka O, Friedrich CM, Chamberlain J, Clark C, de Herrera AGS, Garcia N, Kavallieratou E, del Blanco CR, Rodriguez CC, Vasillopoulos N, Karampidis K. Multimedia retrieval in medicine, lifelogging, security and nature. International Conference of the Cross-Language Evaluation Forum for European Languages, Springer, Cham, 358-386, 2019
  • Kim I, Rajaraman S, Antani SK. Visual Interpretation of Convolutional Neural Network Predictions in Classifying Medical Image Modalities. Diagnostics (Basel). 2019 Apr 3;9(2). pii: E38. doi: 10.3390/diagnostics9020038.
  • Rodriguez L, Demner-Fushman D. Finding Understudied Disorders Potentially Associated withMaternal Morbidity and Mortality AMIA Informatics Summit, March 2019.
  • Kilicoglu H, Peng Z, Tafreshi S, Tran T, Rosemblat G, Schneider J. Confirm or Refute?: A Comparative Study on Citation Sentiment Classification in Clinical Research Publications. J Biomed Inform. 2019 Feb 9:103123. doi: 10.1016/j.jbi.2019.103123.
  • Demner-Fushman D. Clinical, Consumer Health, and Visual Question Answering. Springer Nature Switzerland AG 2019. J. A. Lossio-Ventura et al. (Eds.): SIMBig 2018, CCIS 898, pp. 1–6, 2019.
  • Candemir S, Antani SK. A review on lung boundary detection in chest X-rays. Int J Comput Assist Radiol Surg. 2019 Feb 7. doi: 10.1007/s11548-019-01917-1.
  • Lu C, Aronson, AR, Shooshan SE, Demner-Fushman D. Spell checker for consumer language (CSpell). J Am Med Inform Assoc. 2019 Jan 21. doi: 10.1093/jamia/ocy171. [Epub ahead of print]
  • Hu L, Bell D, Antani SK, Xue Z, Yu K, Horning MP, Gachuhi N, Wilson B, Jaiswal MS, Befano B, Long LR, Herrero R, Einstein MH, Burk RD, Demarco M, Gage JC, Wentzensen N, Schiffman M. An Observational Study of Deep Learning and Automated Evaluation of Cervical Images for Cancer Screening. J Natl Cancer Inst. 2019 Jan 10. doi: 10.1093/jnci/djy225
  • Scarton LA, Wang L, Kilicoglu H, Jahries M, Del Fiol M. Expanding vocabularies for complementary and alternative medicine therapies. Int J Med Inform. 2019 Jan;121:64-74. doi: 10.1016/j.ijmedinf.2018.11.009. Epub 2018 Nov 22.
  • Rindflesch TC, Blake CL, Cairelli MJ, Fiszman M, Zeiss CJ, Kilicoglu H. Investigating the role of interleukin-1 beta and glutamate in inflammatory bowel disease and epilepsy using discovery browsing. J Biomed Semantics. 2018 Dec 27;9(1):25. doi: 10.1186/s13326-018-0192-y.
  • Jaeger S, Juarez-Espinosa OH, Candemir S, Poostchi M, Yang F, Kim L, Ding M, Folio LR, Antani SK, Gabrielian A, Hurt D, Rosenthal A, Thoma GR. Detecting drug-resistant tuberculosis in chest radiographs. Int J Comput Assist Radiol Surg. 2018 Dec;13(12):1915-1925. doi: 10.1007/s11548-018-1857-9. Epub 2018 Oct 3.
  • Lau JJ, Gayen S, Ben Abacha A, Demner-Fushman D. A dataset of clinically generated visual questions and answers about radiology images. Sci Data. 2018 Nov 20;5:180251. doi: 10.1038/sdata.2018.251.
  • Dhoot R, Humphrey JM, O'Meara P, Gardner A, McDonald CJ, Ogot K, Antani SK, Abuya J, Kohli M. Implementing a mobile diagnostic unit to increase access to imaging and laboratory services in western Kenya. BMJ Glob Health. 2018 Oct 8;3(5):e000947. doi: 10.1136/bmjgh-2018-000947. eCollection 2018.
  • Poostchi M, Ilker E, McMenamin K, Gordon E, Palaniappan N, Pierce S, Maude RJ, Bansal A, Srinivasan P, Miller L, Palaniappan K, Thoma GR, Jaeger S. Malaria parasite detection and cell counting for human and mouse using thin blood smear microscopy. J Med Imaging (Bellingham). 2018 Oct;5(4):044506. doi: 10.1117/1.JMI.5.4.044506. Epub 2018 Dec 12.
  • McDonald CJ, Maglott D, Abhyankar S, Goodwin RM, Kanduru A, Lu S, Lynch P, Vreeman D, Wang Y, Wood G. US Realm, Chapter 14, Use Case – Clinical Genomics Code Systems. in HL7 Version 2.5.1 Implementation Guide: Lab Results Interface (LRI), DTSU3. HL7 International (Ann Arbor).
  • McDonald CJ, Maglott D, Abhyankar S, Goodwin RM, Kanduru A, Lu S, Lynch P, Vreeman D, Wang Y, Wood G. US Realm, Chapter 5, Use Case – Clinical Genomics Results Reporting in HL7 Version 2.5.1 Implementation Guide: Lab Results Interface (LRI), DTSU3. HL7 International (Ann Arbor).
  • Vajda S, Karargyris A, Jaeger S, Santosh KC, Candemir S, Xue Z, Antani SK, Thoma GR. Feature Selection for Automatic Tuberculosis Screening in Frontal Chest Radiographs. J Med Syst. 2018 Jun 29;42(8):146. doi: 10.1007/s10916-018-0991-9.
  • Bodenreider O, Cornet R, Vreeman DJ. Recent Developments in Clinical Terminologies - SNOMED CT, LOINC, and RxNorm. Yearb Med Inform. 2018 Aug;27(1):129-139. doi: 10.1055/s-0038-1667077. Epub 2018 Aug 29.
  • Rajaraman S, Silamut K, Hossain MA, Ersoy I, Maude RJ, Jaeger S, Thoma GR, Antani SK. Understanding the learned behavior of customized convolutional neural networks toward malaria parasite detection in thin blood smear images. J Med Imaging (Bellingham). 2018 Jul;5(3):034501. doi: 10.1117/1.JMI.5.3.034501. Epub 2018 Jul 18.
  • Thamizhvani TR, Lakshmanan S, Rajaraman S. Mobile application-based computer-aided diagnosis of skin tumours from dermal images. The Imaging Science Journal, 66:6, 382-391, 2018, DOI: 10.1080/13682199.2018.1492682
  • Kilicoglu H, Rosemblat G, Malicki M, Ter Riet G. Automatic recognition of self-acknowledged limitations in clinical research literature. J Am Med Inform Assoc. 2018 Jul 1;25(7):855-861. doi: 10.1093/jamia/ocy038.
  • McDonald CJ. Logical Observation Identifiers Names and Codes for In Vitro Diagnostic Test; Guidance for Industry and Food and Drug Administration Staff. Silver Spring, Md: Center for Devices and Radiological Health, FDA, 2018.
  • Yao S, Yu H, AliAkbarpour H, Seetharaman G, Palaniappan K. EpiX: A 3D Measurement Tool for Heritage, Archeology, and Aerial Photogrammetry Heritage Preservation, pp. 47-66, 2018.
  • Sornapudi S, Stanley RJ, Stoecker WV, Almubarak H, Long LR, Antani SK, Thoma GR, Zuna R, Frazier SR. Deep Learning Nuclei Detection in Digitized Histology Images by Superpixels. J Pathol Inform. 2018 Mar 5;9:5. doi: 10.4103/jpi.jpi_74_17. eCollection 2018.
  • Santosh KC, Antani SK. Automated chest x-ray screening: Can lung region symmetry help detect pulmonary abnormalities? doi: 10.1109/TMI.2017.2775636 vol. 37, no. 5, 1168-1177.
  • Rajaraman S, Antani SK, Poostchi Mohammadabadi M, Silamut K, Hossain MA, Maude RJ, Jaeger S, Thoma GR. Pre-trained convolutional neural networks as feature extractors toward improved malaria parasite detection in thin blood smear images. PeerJ. 2018 Apr 16;6:e4568. doi: 10.7717/peerj.4568. eCollection 2018.
  • Huser V, Shmueli-Blumberg D. Data sharing platforms for de-identified data from human clinical trials. Clin Trials. 2018 Apr 1:1740774518769655. doi: 10.1177/1740774518769655. [Epub ahead of print]
  • Almubarak H, Guo P, Stanley RJ, Long LR, Antani SK, Thoma GR. Algorithm Enhancements for Improvement of Localized Classification of Uterine Cervical Cancer Digital Histology Images. in Handbook of Research on Emerging Perspectives on Healthcare Information Systems and Informatics,. IGI Global (Hershey, PA).
  • Tang P, McDonald CJ. Computer-Based Patient-Record Systems - Chapter 9. In Shortliffe E, Perreault L, eds. Medical Informatics. New York: springer. 2001:327-358. DOI: 10.1007/978-0-387-21721-5_9.
  • Thamizhvani TR, Lakshmanan S, Rajaraman S. Computer Aided Diagnosis of Skin Tumours from Dermal Images. Hemanth D., Smys S. (eds) Computational Vision and Bio Inspired Computing. Lecture Notes in Computational Vision and Biomechanics, vol 28. Springer, Cham
  • Kilicoglu H, Ben Abacha A, Mrabet Y, Shooshan SE, Rodriguez L, Masterton K, Demner-Fushman D. Semantic annotation of consumer health questions. BMC Bioinformatics. 2018 Feb 6;19(1):34. doi: 10.1186/s12859-018-2045-1.
  • Cui L, Bodenreider O, Shi J, Zhang GQ. Auditing SNOMED CT hierarchical relations based on lexical features of concepts in non-lattice subgraphs. Biomed Inform. 2018 Feb;78:177-184. doi: 10.1016/j.jbi.2017.12.010. Epub 2017 Dec 20.
  • Zweigenbaum P, Demner-Fushman D. Advanced Literature-Mining Tools. In Edwards D, Stajich J, and Hansen D. (Editors). Bioinformatics: Tools and Applications. Springer 2009.
  • Janakiram C, Chalmers NI, Fontelo P, Huser V, Lopez Mitnik GL, Iafolla TJ, Brow AR, Dye BA. Gender and Race/ethnic Disparities in Opioid Prescriptions for Dental Diagnoses among Patients with Medicaid. J Am Dent Assoc, 2018. 149(4): p. 246-255.

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