Ibrahim Ozyurt • UCSD Profiles (original) (raw)

  1. Automatic detection and extraction of key resources from tables in biomedical papers. BioData Min. 2025 Mar 20; 18(1):23. Ozyurt IB, Bandrowski A. PMID: 40114222; PMCID: PMC11924859.
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  2. Automatic Detection and Extraction of Key Resources from Tables in Biomedical Papers. bioRxiv. 2024 Oct 17. Ozyurt IB, Bandrowski A. PMID: 39464155; PMCID: PMC11507667.
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  3. Establishing Institutional Scores With the Rigor and Transparency Index: Large-scale Analysis of Scientific Reporting Quality. J Med Internet Res. 2022 06 27; 24(6):e37324. Menke J, Eckmann P, Ozyurt IB, Roelandse M, Anderson N, Grethe J, Gamst A, Bandrowski A. PMID: 35759334; PMCID: PMC9274430.
    View in: PubMed Mentions: 15 Fields:
    Translation:Humans
  4. Antibody Watch: Text mining antibody specificity from the literature. PLoS Comput Biol. 2021 05; 17(5):e1008967. Hsu CN, Chang CH, Poopradubsil T, Lo A, William KA, Lin KW, Bandrowski A, Ozyurt IB, Grethe JS, Martone ME. PMID: 34043624; PMCID: PMC8189493.
    View in: PubMed Mentions: 2 Fields:
    Translation:HumansAnimals
  5. Bio-AnswerFinder: a system to find answers to questions from biomedical texts. Database (Oxford). 2020 01 01; 2020. Ozyurt IB, Bandrowski A, Grethe JS. PMID: 31925435; PMCID: PMC7053013.
    View in: PubMed Mentions: 2 Fields:
    Translation:Humans
  6. Comparing the Use of Research Resource Identifiers and Natural Language Processing for Citation of Databases, Software, and Other Digital Artifacts. Comput Sci Eng. 2020 Mar-Apr; 22(2):22-32. Hsu CN, Bandrowski AE, Gillespie TH, Udell J, Lin KW, Ozyurt IB, Grethe JS, Martone ME. PMID: 40791297; PMCID: PMC12338378.
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  7. Incidences of problematic cell lines are lower in papers that use RRIDs to identify cell lines. Elife. 2019 01 29; 8. Babic Z, Capes-Davis A, Martone ME, Bairoch A, Ozyurt IB, Gillespie TH, Bandrowski AE. PMID: 30693867; PMCID: PMC6351100.
    View in: PubMed Mentions: 22 Fields:
    Translation:HumansCells
  8. Foundry: a message-oriented, horizontally scalable ETL system for scientific data integration and enhancement. Database (Oxford). 2018 01 01; 2018. Ozyurt IB, Grethe JS. PMID: 30576493; PMCID: PMC6301337.
    View in: PubMed Mentions: 4 Fields:
  9. DATS, the data tag suite to enable discoverability of datasets. Sci Data. 2017 06 06; 4:170059. Sansone SA, Gonzalez-Beltran A, Rocca-Serra P, Alter G, Grethe JS, Xu H, Fore IM, Lyle J, Gururaj AE, Chen X, Kim HE, Zong N, Li Y, Liu R, Ozyurt IB, Ohno-Machado L. PMID: 28585923; PMCID: PMC5460592.
    View in: PubMed Mentions: 41 Fields:
  10. Resource Disambiguator for the Web: Extracting Biomedical Resources and Their Citations from the Scientific Literature. PLoS One. 2016; 11(1):e0146300. Ozyurt IB, Grethe JS, Martone ME, Bandrowski AE. PMID: 26730820; PMCID: PMC5156472.
    View in: PubMed Mentions: 15 Fields:
    Translation:Humans
  11. The Cerebral Blood Flow Biomedical Informatics Research Network (CBFBIRN) data repository. Neuroimage. 2016 Jan 01; 124(Pt B):1202-1207. Shin DD, Ozyurt IB, Brown GG, Fennema-Notestine C, Liu TT. PMID: 26032887; PMCID: PMC4651708.
    View in: PubMed Mentions: 3 Fields:
    Translation:Humans
  12. The Cerebral Blood Flow Biomedical Informatics Research Network (CBFBIRN) database and analysis pipeline for arterial spin labeling MRI data. Front Neuroinform. 2013; 7:21. Shin DD, Ozyurt IB, Liu TT. PMID: 24151465; PMCID: PMC3798866.
    View in: PubMed Mentions: 15
  13. Automatic identification and classification of noun argument structures in biomedical literature. IEEE/ACM Trans Comput Biol Bioinform. 2012 Nov-Dec; 9(6):1639-48. Ozyurt IB. PMID: 22868678.
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  14. Federated web-accessible clinical data management within an extensible neuroimaging database. Neuroinformatics. 2010 Dec; 8(4):231-49. Ozyurt IB, Keator DB, Wei D, Fennema-Notestine C, Pease KR, Bockholt J, Grethe JS. PMID: 20567938; PMCID: PMC2974931.
    View in: PubMed Mentions: 30 Fields:
    Translation:Humans
  15. Multisite reliability of cognitive BOLD data. Neuroimage. 2011 Feb 01; 54(3):2163-75. Brown GG, Mathalon DH, Stern H, Ford J, Mueller B, Greve DN, McCarthy G, Voyvodic J, Glover G, Diaz M, Yetter E, Ozyurt IB, Jorgensen KW, Wible CG, Turner JA, Thompson WK, Potkin SG, Function Biomedical Informatics Research Network. PMID: 20932915; PMCID: PMC3009557.
    View in: PubMed Mentions: 49 Fields:
    Translation:Humans
  16. Derived Data Storage and Exchange Workflow for Large-Scale Neuroimaging Analyses on the BIRN Grid. Front Neuroinform. 2009; 3:30. Keator DB, Wei D, Gadde S, Bockholt J, Grethe JS, Marcus D, Aucoin N, Ozyurt IB. PMID: 19826494; PMCID: PMC2759340.
    View in: PubMed Mentions: 20
  17. Knowledge discovery via machine learning for neurodegenerative disease researchers. Methods Mol Biol. 2009; 569:173-96. Ozyurt IB, Brown GG. PMID: 19623491.
    View in: PubMed Mentions: Fields:
    Translation:Humans
  18. A technique for the deidentification of structural brain MR images. Hum Brain Mapp. 2007 Sep; 28(9):892-903. Bischoff-Grethe A, Ozyurt IB, Busa E, Quinn BT, Fennema-Notestine C, Clark CP, Morris S, Bondi MW, Jernigan TL, Dale AM, Brown GG, Fischl B. PMID: 17295313; PMCID: PMC2408762.
    View in: PubMed Mentions: 84 Fields:
    Translation:Humans
  19. Quantitative evaluation of automated skull-stripping methods applied to contemporary and legacy images: effects of diagnosis, bias correction, and slice location. Hum Brain Mapp. 2006 Feb; 27(2):99-113. Fennema-Notestine C, Ozyurt IB, Clark CP, Morris S, Bischoff-Grethe A, Bondi MW, Jernigan TL, Fischl B, Segonne F, Shattuck DW, Leahy RM, Rex DE, Toga AW, Zou KH, Brown GG. PMID: 15986433; PMCID: PMC2408865.
    View in: PubMed Mentions: 66 Fields:
    Translation:Humans

This graph shows the number and percent of publications by field. Fields are based on how the National Library of Medicine (NLM) classifies the publications' journals and might not represent the specific topics of the publications. Note that an individual publication can be assigned to more than one field. As a result, the publication counts in this graph might add up to more than the number of publications the person has written. To see the data as text, click here.

This graph shows the number and percent of publications by field. Fields are based on how the National Library of Medicine (NLM) classifies the publications' journals and might not represent the specific topics of the publications. Note that an individual publication can be assigned to more than one field. As a result, the publication counts in this graph might add up to more than the number of publications the person has written. To see the data as text, click here.

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