Author
Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.
6 papers
Recent·Most cited
Z. Mielko, Y. Zhang, Y. Liu, M. A. Schaich, B. Schnable, D. Burdinski, S. Adar, M. Pufall, B. Van Houten, R. Gordan, A. Afek
This study investigates how UV irradiation affects transcription factor DNA-binding specificity using UV-Bind, finding reduced specificity and unexpected increased binding at non-consensus sites.
bioRxiv · Oct 7, 2022Biophysics
C. A. Horton, A. M. Alexandari, M. G. B. Hayes, E. Marklund, J. M. Schaepe, A. K. Aditham, N. Shah, A. A. Shrikumar, A. Afek, W. J. Greenleaf, R. Gordan, J. Zeitlinger, A. Kundaje, P. M. Fordyce
This study shows STRs modulate TF-DNA interactions by altering binding affinities and on rates, impacting gene expression through increased TF density near target sites.
bioRxiv · May 24, 2022Biophysics
A. Soffer, M. Ifrach, S. Ilic, A. Afek, H. Schussheim, D. Vilenchik, B. Akabayov
The paper uses a machine learning approach to analyze DNA-protein binding data and identifies DNA sequences recognized by T7 primase.
bioRxiv · Sep 29, 2020 · PreprintBiochemistry
A. Afek, H. Shi, A. Rangadurai, H. Sahay, H. M. Al-Hashimi, R. Gordan
The paper uses a novel assay to show that DNA mismatches can increase TF binding, revealing conformational penalties as a key factor in protein-DNA recognition.
bioRxiv · Jul 17, 2019Biophysics
Y. Belo, Z. Mielko, H. Nudelman, A. Afek, O. Ben-David, A. Shahar, R. Zarivach, R. Gordan, E. Arbely
This study genetically encodes acetyl-lysine into STAT3 to investigate its effects on structure and DNA binding, revealing that acetylation does not directly alter these properties but may require additional factors for transcriptional regulation.
bioRxiv · May 30, 2019Biochemistry