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  • Mork JG, Aronson A, Demner-Fushman D. 12 years on - Is the NLM medical text indexer still useful and relevant? J Biomed Semantics. 2017 Feb 23;8(1):8. doi: 10.1186/s13326-017-0113-5.
  • Locatis C, Gaines C, Liu W, Gill MJ, Carney J, Foster J, McCall V, Woods M. A Blended Training Approach Using Videoconferencing for Distance Education. J Med Libr Assoc. 2006 Oct;94(4):464-8.
  • Marcelo A, Gavino A, Isip-Tan IT, Apostol-Nicodemus L, Mesa-Gaerlan FJ, Firaza PN, Faustorilla JF Jr., Callaghan FM, Fontelo P. A comparison of the accuracy of clinical decisions based on full-text articles and on journal abstracts alone: a study among residents in a tertiary care hospital. Evid Based Med. 2013 Apr;18(2):48-53. doi: 10.1136/eb-2012-100537. Epub 2012 Jul 10.
  • 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.
  • 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.
  • Demner-Fushman D, Antani S, Kalpathy-Cramer J, Müller H. A decade of community-wide efforts in advancing medical image understanding and retrieval. Comput Med Imaging Graph. 2015 Jan;39:1-2. doi: 10.1016/j.compmedimag.2014.12.002.
  • Rahman MM, Antani SK, Thoma GR. A learning-based similarity fusion and filtering approach for biomedical image retrieval using SVM classification and relevance feedback. IEEE Trans Inf Technol Biomed. 2011 Jul;15(4):640-6. doi: 10.1109/TITB.2011.2151258. Epub 2011 Jun 16.
  • Rance B, Doughty E, Demner-Fushman D, Kann MG, Bodenreider O. A mutation-centric approach to identifying pharmacogenomic relations in text. J Biomed Inform. 2012 Oct;45(5):835-41. doi: 10.1016/j.jbi.2012.05.003. Epub 2012 Jun 7.
  • Jimeno-Yepes A, Mork J, Demner-Fushman D, Aronson AR. A one-size-fits-all indexing method does not exist: automatic selection based on meta-learning. JCSE, vol. 6, no. 2, pp.151-160, 2012.
  • Deardorff A, Masterton K, Roberts K, Kilicoglu H, Demner-Fushman D. A protocol-driven approach to automatically finding authoritative answers to consumer health questions in online resources. JASIST, 68(7): 1724-1736. doi: 10.1002/asi.23806.
  • Cohen T, Roberts K, Gururaj AE, Chen X, Pournejati S, Alter G, Hersh WR, Demner-Fushman D, Ohno-Machado L, Lu H. A publicly available benchmark for biomedical dataset retrieval: the reference standard for the 2016 bioCADDIE dataset retrieval challenge. Database (Oxford). 2017 Jan 1;2017. doi: 10.1093/database/bax061.
  • Rahman MM, Antani SK, Thoma GR. A Query Expansion Framework in Image Retrieval Domain Based on Local and Global Analysis. Inf Process Manag. 2011 Sep 1;47(5):676-691.
  • Névéol A, Shooshan SE, Humphrey SM, Mork JG, Aronson AR. A recent advance in the automatic indexing of the biomedical literature. J Biomed Inform. 2009 Oct;42(5):814-23. doi: 10.1016/j.jbi.2008.12.007. Epub 2008 Dec 30.
  • 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.
  • KC S, Alam M, Roy P, Wendling L, Antani SK, Thoma GR. A simple and efficient arrowhead detection in biomedical images. International J Pattern Recognition and Artificial Intelligence (IJPRAI), 30(5), 1657002, 2016, DOI: 10.1142/S0218001416570020.
  • Xu X, Lee DJ, Antani S, Long LR. A Spine X-ray Image Retrieval System using Partial Shape Matching IEEE Trans Inf Technol Biomed. 2008 Jan;12(1):100-8.
  • Zhang X, Zou J, Le DX, Thoma GR. A structural SVM approach for reference parsing. BMC Bioinformatics. 2011 Jun 9;12 Suppl 3:S7. doi: 10.1186/1471-2105-12-S3-S7.
  • Zolnoori M, Fung K, Patrick TB, Fontelo P, Kharrazi H, Faiola A, Wu YSS, Eldredge CE, Luo J, Conway M, Zhu J, Park SK, Xu K, Moayyed H, Goudarzvand S. A systematic approach for developing a corpus of patient reported adverse drug events: A case study for SSRI and SNRI medications. NCBINCBI Logo Skip to main content Skip to navigation Resources How To About NCBI Accesskeys PubMed US National Library of Medicine National Institutes of Health Search databaseSearch term 30611893[uid] Clear inputSearch Create RSSCreate alertAdvancedHelp Result Filters Format: AbstractSend to J Biomed Inform. 2019 Feb;90:103091. doi: 10.1016/j.jbi.2018.12.005. Epub 2019 Jan 4.
  • Xue Z, Long LR, Antani SK, Neve L, Zhu Y, Thoma GR. A unified set of analysis tools for uterine cervix image segmentation. Comput Med Imaging Graph. 2010 Dec;34(8):593-604. doi: 10.1016/j.compmedimag.2010.04.002. Epub 2010 May 26.
  • Alexander GL, Hauser S, Steely K, Ford G, Demner-Fushman D. A Usability Study of the PubMed on Tap User Interface for PDAs Medinfo. 2004 Sept.;2004: 1411-1415.
  • 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. 2018 Jun 1;25(6):661-669. doi: 10.1093/jamia/ocx139.
  • Castle PE, Jeronimo J, Schiffman M, Herroro R, Rodriguez AC, Bratti MC, Hildesheim A, Wacholder S, Long LR, Neve L, Pfeiffer R, Burk RD. Age-related changes of the cervix influence human papillomavirus type distribution Cancer Res. 2006 Jan 15;66(2):1218-24.
  • Fung KW, Xu J. An exploration of the properties of the CORE problem list subset and how it facilitates the implementation of SNOMED CT. J Am Med Inform Assoc. 2015 May;22(3):649-58. doi: 10.1093/jamia/ocu022. Epub 2015 Feb 26.
  • Stanley RJ, De S, Demner-Fushman D, Antani SK, Thoma GR. An image feature-based approach to automatically find images for application to clinical decision support. Comput Med Imaging Graph. 2011 Jul;35(5):365-72. doi: 10.1016/j.compmedimag.2010.11.008. Epub 2010 Dec 8.
  • 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
  • Demner-Fushman D, Simpson M, Antani S, Thoma GR. Annotation and retrieval of clinically relevant images. Int J Med Inform. 2009 Dec;78(12):e59-67. doi: 10.1016/j.ijmedinf.2009.05.003. Epub 2009 Jul 9.
  • Demner-Fushman D, Lin J. Answering Clinical Questions with Knowledge-based and Statistical Techniques Computational Linguistics. 2007 Jan;33(1):63-103
  • Antani SK, Long RL, Thoma GR. Applying Vertebral Boundary Semantics to CBIR of Digitized Spine X-Ray Images Proc SPIE Electronic Imaging Science and Technology, Conference on Storage and Retrieval Methods and Applications for Multimedia. 2005;5682:98-107.
  • Candemir S, Jaeger S, Antani S, Bagci U, Folio LR, Xu Z, Thoma G. Atlas-based rib-bone detection in chest X-rays. Comput Med Imaging Graph. 2016 Jul;51:32-9. doi: 10.1016/j.compmedimag.2016.04.002. Epub 2016 Apr 13.
  • Wang Y, Halper M, Wei D, Gu H, Perl Y, Xu J, Elhanan G, Chen Y, Spackman KA, Case JT, Hripcsak G. Auditing complex concepts of SNOMED using a refined hierarchical abstraction network. J Biomed Inform. 2012 Feb;45(1):1-14. doi: 10.1016/j.jbi.2011.08.016. Epub 2011 Sep 1.
  • KC S, Antani SK. Automated chest X-ray screening: Can lung region symmetry help detect pulmonary abnormalities? IEEE Transactions on Medical Imaging. doi: https://doi.org/10.1109/TMI.2017.2775636.
  • 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.
  • Zhang, K, Demner-Fushman D. Automated classification of eligibility criteria in clinical trials to facilitate patient-trial matching for specific patient populations. J Am Med Inform Assoc. 2017 Jul 1;24(4):781-787. doi: 10.1093/jamia/ocw176.
  • Kim I, Le DX, Thoma GR. Automated method for extracting "citation sentences" from online biomedical articles using SVM-based text summarization technique. Proc. the 2014 IEEE Int'l Conf. on Systems, Man, and Cybernetics (SMC 2014), pp. 2006-2011, San Diego, October, 2014
  • Lure F, Jaeger S, Antani SK. Automated Systems for microscopic and radiographic tuberculosis screening. Electronic Journal of Emerging Infectious Diseases, Vol. 2, No. 1, pp. 5-9, February 2017. [In Chinese]
  • Greenspan H, Gordon S, Zimmerman G, Lotenberg S, Jeronimo J, Antani S, Long LR. Automatic Detection of Anatomical Landmarks In Uterine Cervix Images IEEE Trans Med Imaging. 2009 Mar;28(3):454-68
  • Neveol A, Shooshan SE, Claveau V. Automatic Inference of Indexing Rules for MEDLINE BMC Bioinformatics. 2008 Nov 19;9 Suppl 11:S11
  • Jaeger S, Karargyris A, Candemir S, Siegelman J, Folio L, Antani S, Thoma G. Automatic screening for tuberculosis in chest radiographs: a survey. Quant Imaging Med Surg. 2013 Apr;3(2):89-99. doi: 10.3978/j.issn.2223-4292.2013.04.03.
  • Fiszman M, Demner-Fushman D, Kilicoglu H, Rindflesch TC. Automatic summarization of MEDLINE citations for evidence-based medical treatment: a topic-oriented evaluation. J Biomed Inform. 2009 Oct;42(5):801-13. doi: 10.1016/j.jbi.2008.10.002. Epub 2008 Nov 5.
  • Antani SK. Automatic x-ray screening for tuberculosis. SPIE Newsroom. October 2015. DOI: 10.1117/2.1201509.006128
  • KC S, Candemir S, Jaeger S, Folio L, Karargyris A, Antani SK, Thoma GR. Automatically detecting rotation in chest radiographs using principal rib-orientation measure for quality control. Int. J. Patt. Recogn. Artif. Intell, Vol 29 No. 2. DOI: 10.1142/S021800141.5570013
  • Demner-Fushman D, Few B, Hauser SE, Thoma GR. Automatically Identifying Health Outcome Information in MEDLINE Records J Am Med Inform Assoc. 2006 Jan-Feb;13(1):52-60. Epub 2005 Oct 12.
  • Zhu Y, Huang X, Wang W, Lopresti D, Long LR, Antani SA, Xue Z, Thoma GR. Balancing the Role of Priors in Multi-Observer Segmentation Evaluation J Signal Process Syst. 2008 May 28;55(1-3):185-207
  • Kilicoglu H, Demner-Fushman D. Bio-SCoRes: A Smorgasbord Architecture for Coreference Resolution in Biomedical Text. PLoS One. 2016 Mar 2;11(3):e0148538. doi: 10.1371/journal.pone.0148538. eCollection 2016.
  • Rahman MM, Antani SK, Demner-Fushman D, Thoma GR. Biomedical image representation approach using visualness and spatial information in a concept feature space for interactive region-of-interest-based retrieval. J Med Imaging (Bellingham). 2015 Oct;2(4):046502. doi: 10.1117/1.JMI.2.4.046502. Epub 2015 Dec 30.
  • Roberts K, Boland MR, Pruinelli L, Dcruz J, Berry A, Georgsson M, Hazen R, Sarmiento RF, Backonja U, Yu K-H, Jiang Y, Brennan PF. Biomedical informatics advancing the national health agenda: the AMIA 2015 year-in-review in clinical and consumer informatics. J Am Med Inform Assoc. 2017 Apr 1;24(e1):e185-e190. doi: 10.1093/jamia/ocw103.
  • Karargyris A, Koulaouzidis A. Capsule-odometer: a concept to improve accurate lesion localisation. World J Gastroenterol. 2013 Sep 21;19(35):5943-6. doi: 10.3748/wjg.v19.i35.5943.
  • Lee DJ, Antani S, Chang Y, Long LR, Christensen P, Jeronimo J. CBIR of Spine X-ray Images On Inter-vertebral Disc Space and Shape Profiles Using Feature Ranking and Voting Consensus. Data & Knowledge Engineering, Special Issue on Knowledge Discovery in Medicine. 2009.
  • Karargyris A, Siegelman J, Tzortzis D, Jaeger S, Candemir S, Xue Z, KC S, Vajda S, Antani SK, Folio L, Thoma GR. Combination of texture and shape features to detect pulmonary abnormalities in digital chest X-rays. Int J Comput Assist Radiol Surg. 2016 Jan;11(1):99-106. doi: 10.1007/s11548-015-1242-x. Epub 2015 Jun 20.
  • Abhyankar S, Demner-Fushman D, Callaghan FM, McDonald CJ. Combining structured and unstructured data to identify a cohort of ICU patients who received dialysis. J Am Med Inform Assoc. 2014 Sep-Oct;21(5):801-7. doi: 10.1136/amiajnl-2013-001915. Epub 2014 Jan 2.

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