Author

Ariel Kaplan

Technion – Israel Institute of TechnologyORCID 0000-0002-9731-6962Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Biophysics· 4 Bioengineering· 1

Signature Assays, Organisms & Methods

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Research Focus:chromatin & epigenetic regulation· 3 Approach:experimental assay· 3 Approach:statistical model· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Assay:DNA methylation· 1 Organism:yeast· 1

Frequent Co-Authors

Sergei RudnizkyiD· 3 shared Carmit Burstein· 2 shared Hadeel KhamisiD· 2 shared Moshe GoldsmithiD· 2 shared Nir StrugoiD· 2 shared Noam NagoiD· 2 shared Arnon Henn· 1 shared Ben Shirt‐EdissiD· 1 shared

Activity by Year

2017-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

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3 shared papersBiophysics

Sergei RudnizkyORCID

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

Tunable kinetic destabilization governs RNA polymerase passage through a DNA-bound transcription factor

Noam Nago, Sergei Rudnizky, Nir Strugo, Moshe Goldsmith, Carmit Burstein, Philippa Melamed, Ariel Kaplan

The paper shows DNA-bound Egr-1 delays RNA polymerase elongation through kinetic destabilization, with CpG methylation reducing this delay.

bioRxiv · Jul 30, 2026 · PreprintBiophysics

Intrinsically disordered regions facilitate Msn2 target search to drive promoter selectivity

Nir Strugo, Carmit Burstein, Sk Saddam Hossain, Noam Nago, Moshe Goldsmith, Hadeel Khamis, Ariel Kaplan

This study shows that intrinsically disordered regions in Msn2 enhance DNA binding and promoter selectivity through non-specific association and one-dimensional diffusion.

bioRxiv · May 23, 2025 · PreprintBiophysics

Optimizing DNA origami assembly through selection of scaffold sequences that minimise off-target interactions

Ben Shirt‐Ediss, Emanuela Torelli, Silvia Adriana Navarro, Hadeel Khamis, Ariel Kaplan, William Trewby, Juan Elezgaray, Nima Moradzadeh, Michael W. Haydell, Daniel Keppner, Michael Famulok, Natalio Krasnogor

This paper develops a computational method to select DNA origami scaffold sequences that minimize off-target interactions, validated through AFM and optical tweezers experiments.

bioRxiv · Jan 29, 2025 · PreprintBioengineering

Auxiliary ATP binding sites power rapid unwinding by RecBCD

Rani Zananiri, Vera Gaydar, Dan Yahalom, Omri Malik, Sergei Rudnizky, Ariel Kaplan, Arnon Henn

This study identifies auxiliary ATP binding sites in RecBCD that modulate its unwinding rate by affecting ATP flux to catalytic sites.

bioRxiv · Mar 22, 2018 · PreprintBiophysics

Mobile nucleosomes and the accessibility of transcription factors to DNA: a modified dynamic equilibrium model

Hadeel Khamis, Sergei Rudnizky, Ariel Kaplan

The paper presents a dynamic equilibrium model to quantify how nucleosome mobility affects transcription factor DNA accessibility.

bioRxiv · Sep 12, 2017 · PreprintBiophysics