Author

Burcu Ozden

Dokuz Eylül UniversityORCID 0000-0001-9338-2199Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 3 Assay:protein structure· 3 Organism:human· 2 Research Focus:protein structure prediction· 2 Approach:statistical model· 2 Approach:benchmark study· 1 Approach:deep learning· 1 Approach:experimental assay· 1

Frequent Co-Authors

Ezgi KaracaiD· 3 shared Andriy KryshtafovychiD· 1 shared Atakan ÖzsaniD· 1 shared Ayşe Berçin BarlasiD· 1 shared Buse Şahin· 1 shared Büşra SavaşiD· 1 shared Can YükrükiD· 1 shared Eda ŞamiloğluiD· 1 shared

Activity by Year

2023-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 30 mutual co-author links

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3 shared papersBioinformatics

Ezgi KaracaORCID

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Author profile →

3 papers

Recent·Most cited

AlphaFold2 and AlphaFold3 leads to significantly different results in human-parasite interaction prediction

Burcu Ozden, Buse Şahin, Ezgi Karaca

The paper compares AlphaFold2 and AlphaFold3 predictions for human-parasite domain-domain interactions, finding significant differences in confidence scores.

bioRxiv · Sep 19, 2024 · PreprintBioinformatics

Benchmarking the accuracy of structure-based binding affinity predictors on Spike-ACE2 Deep Mutational Interaction Set

Burcu Ozden, Eda Şamiloğlu, Atakan Özsan, Mehmet Erguven, Can Yükrük, Mehdi Koşaca, Melis Oktayoğlu, Muratcan Menteş, Nazmiye Arslan, Gökhan Karakülah, Ayşe Berçin Barlas, Büşra Savaş, Ezgi Karaca

The paper benchmarks six structure-based binding affinity predictors on Spike-ACE2 mutations, finding FoldX performs best with R = -0.51 and 64% accuracy in binary classification.

Proteins Structure Function and Bioinformatics · Nov 22, 2023Peer-reviewedBioinformatics

The Impact of AI-Based Modeling on the Accuracy of Protein Assembly Prediction: Insights from CASP15

Burcu Ozden, Andriy Kryshtafovych, Ezgi Karaca

The paper evaluates AI-based protein assembly prediction in CASP15, showing improved performance over CASP14, with community models outperforming the baseline AF2-Multimer in many cases.

Proteins Structure Function and Bioinformatics · Oct 20, 2023Peer-reviewedBioinformatics