• Ben Abacha A, Gayen S, Lau JJ, Rajaraman S, Demner-Fushman D. NLM at ImageCLEF 2018 Visual Question Answering in the Medical Domain. CLEF2018 Working Notes. CEUR Workshop Proceedings, Avignon, France, CEUR-WS.org (September 10-14 2018).

  Abstract | pub9812.pdf

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• 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.

  Abstract | PMID:  29959539

  Abstract
• 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. Imag. 5(3), 034501 (2018), doi: 10.1117/1.JMI.5.3.034501.

  Abstract | pub9809.pdf

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• Rajaraman S, Candemir S, Xue Z, Alderson P, Kohli M, Abuya J, Thoma GR, Antani SK. A novel stacked generalization of models for improved TB detection in chest radiographs. Proc. IEEE Engineering in Medicine and Biology Conference (EMBC 2018), Honolulu, Hawaii, 2018. pp. 718-721.

  Abstract | pub9810.pdf

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• Xue Z, Long LR, Jaeger S, Folio L, Thoma GR. Extraction of Aortic Knuckle Contour in Chest Radiographs Using Deep Learning. EMBC 2018.

  Abstract | pub9818.pdf

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• 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

  Abstract | pub9811.pdf

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• Xue Z, Rajaraman S, Long LR, Antani SK, Thoma GR. Gender Detection from Spine X-ray Images Using Deep Learning. Proc. IEEE International Symposium on Computer-Based Medical Systems (CBMS), Karlstad, Sweden, 2018. pp. 54-58, DOI:10.1109/CBMS.2018.00017.

  Abstract | pub9781.pdf

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• Kim J, Candemir S, Chew E, Thoma GR. Region of Interest Detection in Fundus Images Using Deep Learning and Blood Vessel Information. The 31th IEEE International Symposium on Computer-Based Medical Systems. (IEEE CBMS 2018), pp. 357-362, Karlstad, Sweden, June 2018.

  Abstract | pub9808.pdf

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• Gartrell K, Brennan CW, Wallen GR, Liu F, Smith KG, Fontelo P. Clinicians' perceptions of usefulness of the PubMed4Hh mobile device application for clinical decision making at the point of care: a pilot study. BMC Med Inform Decis Mak. 2018 May 8;18(1):27. doi: 10.1186/s12911-018-0607-9.

  Abstract | PMID:  29739392 | PMCID:  PMC5941474

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• 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.

  Abstract | PMID:  29619277 | PMCID:  PMC5869967

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• Fernandez-Repollet E, Locatis CN, De Jesus-Monge WE, Maisiak R, Lie WL. Effects of summer internship and follow-up distance mentoring programs on middle and high school student perceptions and interest in health careers. BMC Med Educ. 2018 May 2;18(1):84. doi: 10.1186/s12909-018-1205-3.

  Abstract | PMID:  29716582 | PMCID:  PMC5930500

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• Vreeman DJ, Abhyankar S, McDonald CJ. Re: Unit conversions between LOINC codes Published June 19, 2017 [Letter]. J Am Med Inform Assoc. 2018 May 1;25(5):614-615. doi: 10.1093/jamia/ocx087.

  Abstract | PMID:  29025119

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• 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 Apr 28. doi: 10.1093/jamia/ocy038. [Epub ahead of print]

  Abstract | PMID:  29718377

  Abstract
• Misra D, Gill MJ. FaceMatch: A System for Dynamic Search and Retrieval of Faces. Proc. Archiving 2018. Washington DC. pp. 53-57. DOI: 10.2352/issn.2168-3204.2018.1.0.12.

  Abstract | pub9805.pdf

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• 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.

  Abstract | pub9752.pdf | PMID:  29682411 | PMCID:  PMC5907772

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• Rodriguez L, Morrison SM, Greenberg K, Demner-Fushman D. Mining the literature for genes associated with placenta-mediated maternal diseases. AMIA Annu Symp Proc. 2018 Apr 16;2017:1498-1506. eCollection 2017.

  Abstract | pub9572.pdf | PMID:  29854219 | PMCID:  PMC5977710

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• Bodenreider O. Evaluating the Quality and Interoperability of Biomedical Terminologies Technical Report to the LHNCBC Board of Scientific Counselors April 2018

  Abstract | pub9754.pdf

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• 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]

  Abstract | PMID:  29676586

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• Gimbel RW, Pirrallo RG, Lowe SC, Wright DW, Zhang L, Woo MJ, Fontelo P, Liu F, Connor Z. Effect of clinical decision rules, patient cost and malpractice information on clinician brain CT image ordering: a randomized controlled trial. BMC Med Inform Decis Mak. 2018 Mar 12;18(1):20. doi: 10.1186/s12911-018-0602-1.

  Abstract | PMID:  29530029 | PMCID:  PMC5848437

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• Zhang Y, Baik SH, Zuvekas SH. Simulating Variation in Families’ Spending across Marketplace Plans. Health Serv Res. 2018 Feb 14. doi: 10.1111/1475-6773.12831.

  Abstract | URL:  https://doi.org/10.1111/1475-6773.12831

  AbstractExternal link
• Zohora FT, Antani SK, Santosh KC. Circle-like foreign element detection in chest x-rays using normalized cross-correlation and unsupervised clustering. Proc. SPIE 10574, Medical Imaging 2018: Image Processing, 105741V (2 March 2018); doi: 10.1117/12.2293739; doi.org/10.1117/12.2293739.

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• 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).

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• 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.

  Abstract | pub9718.pdf

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• Rajaraman S, Antani SK, Candemir S, Xue Z, Abuya J, Kohli M, Alderson P, Thoma GR. Comparing deep learning models for population screening using chest radiography. Proc. SPIE 10575, Medical Imaging 2018: Computer-Aided Diagnosis, 105751E (27 February 2018).

  Abstract | pub9745.pdf

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• 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

  Abstract | pub9746.pdf

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• Zhang Y, Baik SH, Zuvekas SH. Simulating Variation in Families' Spending across Marketplace Plans. Health Serv Res. 2018 Feb 14. doi: 10.1111/1475-6773.12831. [Epub ahead of print]

  Abstract | PMID:  29446065

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• Xue Z, Jaeger S, Antani SK, Long LR, Karargyris A, Siegelman J, Folio LR, Thoma GR. Localizing tuberculosis in chest radiographs with deep learning. SPIE Medical Imaging 2018

  Abstract | SPIE_2018_tb_fullpaper_final_2.pdf

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• Xue Z, Antani SK, Long LR, Thoma GR. Using deep learning for detecting gender in adult chest radiographs. SPIE Medical Imaging 2018

  Abstract | SPIE_2018_gender_fullpaper_final.pdf

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• 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.

  Abstract | PMID:  29409442 | PMCID:  PMC5802048

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• Cui L, Bodenreider O, Shi J, Zhang GQ. Auditing SNOMED CT hierarchical relations based on lexical features of concepts in non-lattice subgraphs. J Biomed Inform. 2017 Dec 20. pii: S1532-0464(17)30280-0. doi: 10.1016/j.jbi.2017.12.010.

  Abstract | PMID:  29274386 | PMCID:  PMC5835197

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• Lynch P, Wang Y, Kanduru A, Luan X, Mericle L, Lu S, McDonald CJ. On-the-Fly Data Capture Tooling for FHIR/HL7 V2 HL7 January 2018 Working Group Meeting, New Orleans, LA

  Abstract | pub9749.pdf

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• McDonald CJ. FHIR Overview Presentation by Clement J. McDonald, MD

  Abstract | pub9747.pdf

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• Zweigenbaum P, Demner-Fushman D. Advanced Literature-Mining Tools. In Edwards D, Stajich J, and Hansen D. (Editors). Bioinformatics: Tools and Applications. Springer 2009.

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• Dangi S, Linte C, Yaniv Z. Cine cardiac MRI slice misalignment correction towards full 3D left ventricle segmentation SPIE Medical Imaging: Image-Guided Procedures, Robotic Interventions, and Modeling, Houston, Texas, in press.

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• Demner-Fushman D. A dataset of 200 structured product labels annotated for adverse drug reactions. Sci Data. 2018 Jan 30;5:180001. doi: 10.1038/sdata.2018.1.

  Abstract | PMID:  29381145 | PMCID:  PMC5789866

  Abstract
• McDonald CJ. Top LOINC Codes – Orders and Observations

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• Poostchi M, Silamut K, Maude RJ, Jaeger S, Thoma GR. Image analysis and machine learning for detecting malaria. Transl Res. 2018 Apr;194:36-55. doi: 10.1016/j.trsl.2017.12.004. Epub 2018 Jan 12.

  Abstract | pub9624.pdf | PMID:  29360430 | PMCID:  PMC5840030

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• Kayaalp M. Patient Privacy in the Era of Big Data. Balkan Med J. 2018 Jan 20;35(1):8-17. doi: 10.4274/balkanmedj.2017.0966. Epub 2017 Sep 13.

  Abstract | PMID:  28903886 | PMCID:  PMC5820452

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• Huser V, Kahn MG, Brown JS, Gouripeddi R. Methods for examining data quality in healthcare integrated data repositories. Pac Symp Biocomput. 2018;23:628-633.

  Abstract | PMID:  29218922

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• Bryant B, Sari-Sarraf H, Long LR, Antani SK. A Kernel Support Vector Machine Trained Using Approximate Global and Exhaustive Local Sampling. Proceedings of the 4th IEEE/ACM International Conference on Big Data Computing, Applications and Technologies (BDCAT) 2017, Austin, Texas, USA, December 2017. Pp. 267-8 DOI: https://doi.org/10.1145/3148055.3149206

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• de Herrera G, Long LR, Antani SK. Graph Representation for Content–based fMRI Activation Map Retrieval. Proceedings of 1st Life Sciences Conference, Sydney, Australia, December 2017 pp. 129-32 DOI: https://doi.org/10.1109/LSC.2017.8268160.

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• Goss FR, Lai KH, Topaz M, Acker WW, Kowalski L, Plasek JM, Blumenthal KG, Seger DL, Slight SP, Fung KW, Chang FY, Bates DW, Zhou L. A value set for documenting adverse reactions in electronic health records. J Am Med Inform Assoc. 2017 Dec 14. doi: 10.1093/jamia/ocx139. [Epub ahead of print]

  Abstract | PMID:  29253169

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• Rajaraman S, Antani SK, Xue Z, Candemir S, Jaeger S, Thoma GR. Visualizing abnormalities in chest radiographs through salient network activations in Deep Learning. Proc. IEEE Life Sciences Conference (LSC), Sydney, Australia, 2017. pp. 71-74, DOI:10.1109/LSC.2017.8268146.

  Abstract | pub9645.pdf

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• Harpaz R, DuMouchel W, Schuemie M, Bodenreider O, Friedman C, Horvitz E, Ripple A, Sorbello A, White RW, Winnenburg R, Shah NH. Toward multimodal signal detection of adverse drug reactions. J Biomed Inform. 2017 Dec;76:41-49. doi: 10.1016/j.jbi.2017.10.013. Epub 2017 Nov 1.

  Abstract | PMID:  29081385

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• Yaniv Z, Lowekamp B, Johnson HJ, Beare R. SimpleITK Image-Analysis Notebooks: a Collaborative Environment for Education and Reproducible Research. J Digit Imaging. 2017 Nov 27. doi: 10.1007/s10278-017-0037-8.

  Abstract | PMID:  29181613

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• Zou J, Antani SK, Thoma GR. Localizing and Recognizing Labels for Multi-Panel Figures in Biomedical Journals. Proceedings of International Conference on Document Analysis and Recognition, November 13, 2017

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• Kayaalp M. Modes of De-identification. AMIA Annu Symp Proc. 2018 Apr 16;2017:1044-1050. eCollection 2017.

  Abstract | pub9526.pdf | PMID:  29854172 | PMCID:  PMC5977668

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• Moallem G, Poostchi M, Yu H, Palaniappan N, Silamut K, Maude RJ, Hossain Md Amir, Jaeger S, Antani SK, Thoma GR. Detecting and Segmenting White Blood Cells in Microscopy Images of Thin Blood Smears [Poster]. Annual Meeting of the American Society of Tropical Medicine & Hygiene (ASTMH), Poster, 2017

  Abstract | pub9621.pdf

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• Abhyankar S, Schluter P, Bennett K, Vreeman D, McDonald CJ. Enabling Interoperability between Healthcare Devices and EHR Systems. In 2017 AMIA Symposium. Wasington DC: IEEE.

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• Lu C, Tormey D, McCreedy L, Browne AC. Enhancing LexSynonym Features in the Lexical Tools AMIA 2017 Annual Symposium, Washington, DC, November 04-08, 2017, p. 2090

  Abstract | pub9775.pdf

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