publications

2024

  1. npj SBA
    Immune digital twins for complex human pathologies: applications, limitations, and challenges
    A. Niarakis, R. Laubenbacher, G. An, and 6 more authors
    npj Systems Biology and Applications, 2024
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  2. Nucleic Acids Res
    WikiPathways 2024: next generation pathway database
    A. Agrawal, H. Balcı, K. Hanspers, and 10 more authors
    Nucleic Acid Research, 2024
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2022

  1. PLOS Comp Bio
    SyBLaRS: A web service for laying out, rendering and mining biological maps in SBGN, SBML and more
    H. Balci, U. Dogrusoz, YZ. Özgül, and 1 more author
    PLOS Computational Biology, 2022
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2021

  1. IEEE TVCG
    fCoSE: a fast compound graph layout algorithm with constraint support
    H. Balci, and U. Dogrusoz
    IEEE Transactions on Visualization and Computer Graphics, 2021
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  2. Inf Vis
    CoSEP: A compound spring embedder layout algorithm with support for ports
    A. Okka, U. Dogrusoz, and H. Balci
    Information Visualization, 2021
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  3. Bioinformatics
    Newt: a comprehensive web-based tool for viewing, constructing, and analyzing biological maps
    H. Balci, MC. Siper, N. Saleh, and 8 more authors
    Bioinformatics (Oxford, England), May 2021
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2018

  1. PLOS ONE
    Efficient methods and readily customizable libraries for managing complexity of large networks
    U. Dogrusoz, A. Karacelik, I. Safarli, and 3 more authors
    PLOS ONE, May 2018
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2017

  1. SIVP
    Sun position estimation and tracking for virtual object placement in time-lapse videos
    H. Balcı, and U. Güdükbay
    Signal, Image and Video Processing, May 2017
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