Items where Author is "Adiyaman, Mr Recep"

Article

Fadini, A., Adiyaman, R., Alhaddad, S. N., Behzadi, B., Cheng, J., Cui, X., Edmunds, N. S., Freddolino, L., Genc, A. G., Liang, F., Liu, D., Liu, J., Liu, Q., McGuffin, L. ORCID: https://orcid.org/0000-0003-4501-4767, Neupane, P., Peng, C., Shortle, D. R., Sun, M., Wang, H., Wuyun, Q., Zhang, G., Zhao, X., Zheng, W. and Read, R. J. (2026) Highlights of model quality assessment in CASP16. Proteins: Structure, Function, and Bioinformatics, 94 (1). pp. 314-329. ISSN 0887-3585 doi: 10.1002/prot.70035

McGuffin, L. J. ORCID: https://orcid.org/0000-0003-4501-4767, Edmunds, N. S., Genc, A. G., Alharbi, S. M. A., Salehe, B. R. and Adiyaman, R. (2023) Prediction of protein structures, functions and interactions using the IntFOLD7, MultiFOLD and ModFOLDdock servers. Nucleic Acids Research, 51 (W1). W274-W280. ISSN 1362-4962 doi: 10.1093/nar/gkad297

Adiyaman, R., Edmunds, N. S., Genc, A. G., Alharbi, S. M. A. and McGuffin, L. ORCID: https://orcid.org/0000-0003-4501-4767 (2023) Improvement of protein tertiary and quaternary structure predictions using the ReFOLD refinement method and the AlphaFold2 recycling process. Bioinformatics Advances, 3 (1). vbad078. ISSN 2635-0041 doi: 10.1093/bioadv/vbad078

Kryshtafovych, A., Moult, J., Billings, W. M., Della Corte, D., Fidelis, K., Kwon, S., Olechnovič, K., Seok, C., Venclovas, Č., Won, J., Adiyaman, R. and McGuffin, L. ORCID: https://orcid.org/0000-0003-4501-4767 (2021) Modeling SARS‐CoV2 proteins in the CASP ‐commons experiment. Proteins: Structure, Function, and Bioinformatics, 89 (12). pp. 1987-1996. ISSN 0887-3585 doi: 10.1002/prot.26231

Adiyaman, R. and McGuffin, L. ORCID: https://orcid.org/0000-0003-4501-4767 (2021) ReFOLD3: refinement of 3D protein models with gradual restraints based on predicted local quality and residue contacts. Nucleic Acids Research, 49 (W1). W589-W596. ISSN 0305-1048 doi: 10.1093/nar/gkab300

Book or Report Section

Adiyaman, R. and McGuffin, L. J. ORCID: https://orcid.org/0000-0003-4501-4767 (2023) Using local protein model quality estimates to guide a molecular dynamics-based refinement strategy. In: Filipek, S. (ed.) Homology Modeling: Methods and Protocols. Methods in Molecular Biology. Springer Nature, New York, pp. 119-140. ISBN 9781071629734 doi: 10.1007/978-1-0716-2974-1_7

Adiyaman, R. and McGuffin, L. J. ORCID: https://orcid.org/0000-0003-4501-4767 (2023) Using local protein model quality estimates to guide a molecular dynamics-based refinement strategy. In: Filipek, S. (ed.) Homology Modeling: Methods and Protocols:. Methods in Molecular Biology. Springer Nature, New York, pp. 119-140. ISBN 9781071629734 doi: 10.1007/978-1-0716-2974-1_7

Thesis

Adiyaman, R. (2021) Improvement of MD-based protocols for the refinement of 3D protein models. PhD thesis, University of Reading. doi: 10.48683/1926.00104643