Makaleler
56
Tümü (56)
SCI-E, SSCI, AHCI (54)
SCI-E, SSCI, AHCI, ESCI (54)
Scopus (52)
TRDizin (4)
9. Benchmarking the accuracy of structure-based binding affinity predictors on Spike–ACE2 deep mutational interaction set
Proteins: Structure, Function and Bioinformatics
, cilt.92, sa.4, ss.529-539, 2024 (SCI-Expanded, Scopus)
12. Breaking the conformational ensemble barrier: Ensemble structure modeling challenges in CASP15
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
, cilt.91, sa.12, ss.1903-1911, 2023 (SCI-Expanded, Scopus)
13. The impact of AI-based modeling on the accuracy of protein assembly prediction: Insights from CASP15
Proteins: Structure, Function and Bioinformatics
, cilt.91, sa.12, ss.1636-1657, 2023 (SCI-Expanded, Scopus)
15. Molecular Mechanism of Nucleosome Recognition by the Pioneer Transcription Factor Sox
JOURNAL OF CHEMICAL INFORMATION AND MODELING
, cilt.63, sa.12, ss.3839-3853, 2023 (SCI-Expanded, Scopus)
23. A C-term truncated EIF2B gamma protein encoded by an intronically polyadenylated isoform introduces unfavorable EIF2B gamma-EIF2 gamma interactions
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
, cilt.90, sa.3, ss.889-897, 2022 (SCI-Expanded, Scopus)
25. Assessment of the CASP14 assembly predictions
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
, cilt.89, sa.12, ss.1787-1799, 2021 (SCI-Expanded, Scopus)
39. Sense and simplicity in HADDOCK scoring: Lessons from CASP-CAPRI round 1
Vangone A., Rodrigues J. P. G. L. M., Xue L. C., van Zundert G. C. P., Geng C., Kurkcuoglu Z., et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
, cilt.85, sa.3, ss.417-423, 2017 (SCI-Expanded, Scopus)
44. Blind prediction of interfacial water positions in CAPRI
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
, cilt.82, sa.4, ss.620-632, 2014 (SCI-Expanded, Scopus)
45. Defining the limits of homology modeling in information-driven protein docking
Rodrigues J. P. G. L. M., Melquiond A. S. J., KARACA EREK E., Trellet M., van Dijk M., van Zundert G. C. P., et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
, cilt.81, sa.12, ss.2119-2128, 2013 (SCI-Expanded, Scopus)
46. On the usefulness of ion-mobility mass spectrometry and SAXS data in scoring docking decoys
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
, cilt.69, ss.683-694, 2013 (SCI-Expanded, Scopus)
48. Clustering biomolecular complexes by residue contacts similarity
Rodrigues J. P. G. L. M., Trellet M., Schmitz C., Kastritis P., KARACA EREK E., Melquiond A. S. J., et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
, cilt.80, sa.7, ss.1810-1817, 2012 (SCI-Expanded, Scopus)
49. Next challenges in protein-protein docking: from proteome to interactome and beyond
WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE
, cilt.2, sa.4, ss.642-651, 2012 (SCI-Expanded, Scopus)
52. Strengths and weaknesses of data-driven docking in critical assessment of prediction of interactions
de Vries S. J., Melquiond A. S. J., Kastritis P. L., KARACA EREK E., Bordogna A., van Dijk M., et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
, cilt.78, sa.15, ss.3242-3249, 2010 (SCI-Expanded, Scopus)
Hakemli Bilimsel Toplantılarda Yayımlanmış Bildiriler
15
1. Protein truncating mutation occurring in C-terminus of FYR domain of Kabuki Syndrome-Associated KMT2D gene causes major changes in chromatin organization
17th Annual ICORD Meeting, 14 Kasım 2025, (Özet Bildiri)
2. Investigation of the Effects of Mutations in the FYR Module of Kabuki Syndrome-Associated KMT2D Gene on Protein Interactions and Chromatin Organization
Özden Yılmaz G., Yılmazbilek İ., Ölmez Türker A., Ozkan Kucuk N. E., ÖZLÜ SICAKKAN N., KARAKÜLAH G., et al.
9th International Congress of the Molecular Biology Association of Turkey, İzmir, Türkiye, 12 - 14 Eylül 2024, (Özet Bildiri)
3. KDM6A shows distinct profiles in bladder
1st Epigenetics Society International Meeting “Epigenetics of Disease and Development”, Rome, İtalya, 12 - 14 Ekim 2023, ss.209-210, (Özet Bildiri)
7. Molecular specificity of TAM family receptorstowards different ligands
11th International Symposium onHealth Informatics and Bioinformatics, Antalya, Türkiye, 25 - 27 Ekim 2018, (Özet Bildiri)
8. A Structural Insight into DNA Methylation
11th International Symposium onHealth Informatics and Bioinformatics, Antalya, Türkiye, 25 - 27 Ekim 2018, (Özet Bildiri)
9. Investigating Sequence Specificity in Mammalian De novo DNA Methyltransferases through Structural Insight
6thInternational Congress of theMolecular Biology Associationof Turkey, İzmir, Türkiye, 5 - 08 Eylül 2018, (Özet Bildiri)
10. Analysis of Mitotic Functions of Mastl Kinase
6thInternational Congress of theMolecular Biology Associationof Turkey, İzmir, Türkiye, 5 - 08 Eylül 2018, (Özet Bildiri)
11. Integrative Modeling of Biomolecular Interactions
6thInternational Congress of theMolecular Biology Associationof Turkey, İzmir, Türkiye, 5 - 08 Eylül 2018, (Özet Bildiri)
12. Structure Determination of Molecular Machines
Workshop in Applied Structural Bioinformatics, Bergen, Norveç, 16 - 20 Ekim 2017, (Özet Bildiri)
14. Upgrading HADDOCK for the Structure Calculation of Molecular Machines
Haddock Developer’s Meeting, Utrecht, Hollanda, 22 - 23 Ağustos 2017, (Özet Bildiri)
Kitaplar
2
1. Protein Etkileşimlerinin Deneysel ve Hesaplamalı Yaklaşımlarla Bütüncül Olarak Modellenmesi
PROTEİN: Yapısı, mühendisliği, etkileşimleri, dinamiği ve ilaç tasarımındaki yeri, Dr. Öğretim Üyesi Saliha Ece ACUNER, Editör, Ankara Nobel Tıp Kitabevleri, Ankara, ss.223-237, 2022