A hybrid hierarchical neural network-fuzzy expert system approach to chemical process fault diagnosis. - I. Burak Özyurt; Abraham Kandel (Fuzzy Sets Syst., 1996)

Chemical Process Fault Diagnosis Using Kernel Retrofitted Fuzzy Genetic Algorithm Based Learner (FGAL) with a Hidden Markov Model. - Ibrahim Burak Özyurt; Aydin K. Sunol; Lawrence O. Hall (IEA/AIE (Vol. 1), 1998)

Clustering with a genetically optimized approach. - Lawrence O. Hall; Ibrahim Burak Özyurt; James C. Bezdek (IEEE Trans. Evol. Comput., 1999)

SQFDiag: semi-quantitative model-based fault monitoring and diagnosis via episodic fuzzy rules. - Ibrahim Burak Özyurt; Lawrence O. Hall; Aydin K. Sunol (IEEE Trans. Syst. Man Cybern. Part A, 1999)

Search Result Refinement via Machine Learning from Labeled-Unlabeled Data for Meta-search. - I. Burak Özyurt; Greg G. Brown (CIDM, 2007)

A Semantic Parser for Neuro-Degenerative Disease Knowledge Discovery. - I. Burak Özyurt (FLAIRS, 2008)

A National Human Neuroimaging Collaboratory Enabled by the Biomedical Informatics Research Network (BIRN). - David B. Keator; Jeffrey S. Grethe; Daniel S. Marcus; I. Burak Özyurt; Syam Gadde; Shawn N. Murphy; Steve Pieper 001; Douglas N. Greve; R. Notestine; Henry Jeremy Bockholt; Philip M. Papadopoulos (IEEE Trans. Inf. Technol. Biomed., 2008)

A Large Margin Approach to Anaphora Resolution for Neuroscience Knowledge Discovery. - I. Burak Özyurt (FLAIRS, 2009)

Derived data storage and exchange workflow for large-scale neuroimaging analyses on the BIRN grid. - David B. Keator; Dingying Wei; Syam Gadde; Henry Jeremy Bockholt; Jeffrey S. Grethe; Daniel S. Marcus; Nicole Aucoin; Ibrahim Burak Özyurt (Frontiers Neuroinformatics, 2009)

Semi-supervised Methods for Biomedical Hedge Classification. - I. Burak Özyurt (ICSC, 2010)

Federated Web-accessible Clinical Data Management within an Extensible NeuroImaging Database. - I. Burak Özyurt; David B. Keator; Dingying Wei; Christine Fennema-Notestine; Karen R. Pease; Henry Jeremy Bockholt; Jeffrey S. Grethe (Neuroinformatics, 2010)

Multisite reliability of cognitive BOLD data. - Greg G. Brown; Daniel H. Mathalon; Hal S. Stern; Judith M. Ford; Bryon A. Mueller; Douglas N. Greve; Gregory McCarthy; James Voyvodic; Gary Glover; Michele T. Diaz; Elizabeth Yetter; I. Burak Özyurt; et al. (NeuroImage, 2011)

Processing Semantic Keyword Queries for Scientific Literature. - Ibrahim Burak Özyurt; Christopher Condit; Amarnath Gupta (NLDB, 2012)

Automatic Identification and Classification of Noun Argument Structures in Biomedical Literature. - Ibrahim Burak Özyurt (IEEE ACM Trans. Comput. Biol. Bioinform., 2012)

The Cerebral Blood Flow Biomedical Informatics Research Network (CBFBIRN) database and analysis pipeline for arterial spin labeling MRI data. - David Shin; I. Burak Özyurt; Thomas T. Liu (Frontiers Neuroinformatics, 2013)

A Scalable Dataset Indexing Infrastructure for the bioCADDIE Data Discovery System. - Jeffrey S. Grethe; Ibrahim Burak Özyurt; Hua Xu 001; Xiaoling Chen; Ruiling Liu; Ergin Soysal; Anupama E. Gururaj; Hyeon-Eui Kim; Trevor Cohen; Todd R. Johnson; Mandana Salimi; Saeid Pournejati; et al. (AMIA, 2016)

Development of DataMed, a Data Discovery Index Prototype by bioCADDIE: Laying the Groundwork for Biomedical Data Discovery. - Hua Xu 001; Jeffrey S. Grethe; Xiaoling Chen; Ruiling Liu; Ergin Soysal; Anupama E. Gururaj; Yueling Li; Ibrahim Burak Özyurt; Hyeon-Eui Kim; Trevor Cohen; Todd R. Johnson; Mandana Salimi; et al. (AMIA, 2016)

The Function Biomedical Informatics Research Network Data Repository. - David B. Keator; Theo G. M. van Erp; Jessica A. Turner; Gary H. Glover; Bryon A. Mueller; Thomas T. Liu; James T. Voyvodic; Jerod Rasmussen; Vince D. Calhoun; Hyo Jong Lee; Arthur W. Toga; Sarah C. McEwen; et al. (NeuroImage, 2016)

The Cerebral Blood Flow Biomedical Informatics Research Network (CBFBIRN) data repository. - David Shin; Ibrahim Burak Özyurt; Greg G. Brown; Christine Fennema-Notestine; Thomas T. Liu (NeuroImage, 2016)

Foundry: a message-oriented, horizontally scalable ETL system for scientific data integration and enhancement. - Ibrahim Burak Özyurt; Jeffrey S. Grethe (Database J. Biol. Databases Curation, 2018)

DataMed - an open source discovery index for finding biomedical datasets. - Xiaoling Chen; Anupama E. Gururaj; Ibrahim Burak Özyurt; Ruiling Liu; Ergin Soysal; Trevor Cohen; Firat Tiryaki; Yueling Li; Nansu Zong; Min Jiang 007; Deevakar Rogith; Mandana Salimi; et al. (J. Am. Medical Informatics Assoc., 2018)

Iterative Document Retrieval via Deep Learning Approaches for Biomedical Question Answering. - Ibrahim Burak Özyurt; Jeffrey S. Grethe (eScience, 2019)

On the effectiveness of small, discriminatively pre-trained language representation models for biomedical text mining. - Ibrahim Burak Özyurt (SDP@EMNLP, 2020)

Bio-AnswerFinder: a system to find answers to questions from biomedical texts. - Ibrahim Burak Özyurt; Anita E. Bandrowski; Jeffrey S. Grethe (Database J. Biol. Databases Curation, 2020)

Comparing the Use of Research Resource Identifiers and Natural Language Processing for Citation of Databases, Software, and Other Digital Artifacts. - Chun-Nan Hsu; Anita E. Bandrowski; Tom Gillespie; Jon Udell; Ko-Wei Lin; Ibrahim Burak Özyurt; Jeffrey S. Grethe; Maryann E. Martone (Comput. Sci. Eng., 2020)

End-to-end Biomedical Question Answering via Bio-AnswerFinder and Discriminative Language Representation Models. - Ibrahim Burak Özyurt (CLEF (Working Notes), 2021)

Antibody Watch: Text mining antibody specificity from the literature. - Chun-Nan Hsu; Chia-Hui Chang; Thamolwan Poopradubsil; Amanda Lo; Karen A. William; Ko-Wei Lin; Anita E. Bandrowski; Ibrahim Burak Özyurt; Jeffrey S. Grethe; Maryann E. Martone (PLoS Comput. Biol., 2021)

Automatic detection and extraction of key resources from tables in biomedical papers. - Ibrahim Burak Özyurt; Anita E. Bandrowski (BioData Min., 2025)

Developing a multiscale neural connectivity knowledgebase of the autonomic nervous system. - Fahim T. Imam; Thomas H. Gillespie; Ilias Ziogas; Monique Surles-Zeigler; Susan J. Tappan; Ibrahim Burak Özyurt; Jyl Boline; Bernard de Bono; Jeffrey S. Grethe; Maryann E. Martone (Frontiers Neuroinformatics, 2025)