publications

2024

  1. Nucleic Acids Res
    WikiPathways 2024: next generation pathway database
    Agrawal, A., Balcı, H., Hanspers, K., Coort, SL., Martens, M., Slenter, DN., Ehrhart, F., Digles, D., Waagmeester, A., Wassink, I., Abbassi-Daloii, T. ..., Kutmon, M., and Pico, A.
    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
    Balci, H., Dogrusoz, U., Özgül, YZ., and Atayev, P.
    PLOS Computational Biology , 2022
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2021

  1. IEEE TVCG
    fCoSE: a fast compound graph layout algorithm with constraint support
    Balci, H., and Dogrusoz, U.
    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
    Okka, A., Dogrusoz, U., and Balci, H.
    Information Visualization , 2021
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  3. Bioinformatics
    Newt: a comprehensive web-based tool for viewing, constructing, and analyzing biological maps
    Balci, H., Siper, MC., Saleh, N., Safarli, I., Roy, M., Ozaydin, R., Mazein, A., Auffray, C., Babur, Ö., Demir, E., and Dogrusoz, U.
    Bioinformatics (Oxford, England) , 2021
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2018

  1. PLOS ONE
    Efficient methods and readily customizable libraries for managing complexity of large networks
    Dogrusoz, U., Karacelik, A., Safarli, I., Balci, H., Dervishi, L., and Siper, MC.
    PLOS ONE , 2018
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2017

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