Yayınlar & Eserler

Yayın Ağı
Makaleler 101
Tümü (101)
SCI-E, SSCI, AHCI (83)
SCI-E, SSCI, AHCI, ESCI (95)
Scopus (101)
TRDizin (1)

1. Deciphering Allosteric Disease Mutations Through Intrinsic Dynamics

Kaskaloglu B., Duman O., Kutlu Y., HALİLOĞLU T.
Journal of Molecular Biology , cilt.437, sa.20, 2025 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

2. Global dynamics behind enzyme catalysis, evolution, and design

Aykac Fas B., Akbas Buz Z. E., HALİLOĞLU T.
Current Opinion in Structural Biology , cilt.94, 2025 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

3. Computational and experimental mapping of the allosteric network of two manganese ABC transporters

Duman O., Kuznetsova A., Levanon N. L., Grupper M., Ersoy A. A., Acar B., et al.
Protein Science , cilt.34, sa.2, 2025 (SCI-Expanded, Scopus)

4. Insights into therapeutic discovery through the Kelch domain structure of Keap1 at ambient temperature

Yilmaz M., SEVER B., Kutlu Y., Gül M., Okuducu C., Tavli S., et al.
Turkish Journal of Biology , cilt.49, sa.3, ss.247-260, 2025 (SCI-Expanded, Scopus, TRDizin)

5. Reused Protein Segments Linked to Functional Dynamics

Kutlu Y., Axel G., Kolodny R., Ben-Tal N., HALİLOĞLU T.
Molecular Biology and Evolution , cilt.41, sa.9, 2024 (SCI-Expanded, Scopus)

6. Dynamic correlations: exact and approximate methods for mutual information

DEMİRTAŞ K., Erman B., HALİLOĞLU T.
Bioinformatics , cilt.40, sa.2, 2024 (SCI-Expanded, Scopus)

7. Deciphering the dynamic codes: Advances in biomolecular modeling and simulation

Voth G. A., HALİLOĞLU T.
Current Opinion in Structural Biology , cilt.81, 2023 (SCI-Expanded, Scopus)

8. Subsets of Slow Dynamic Modes Reveal Global Information Sources as Allosteric Sites

Altintel B., Acar B., Erman B., HALİLOĞLU T.
Journal of Molecular Biology , cilt.434, sa.17, 2022 (SCI-Expanded, Scopus)

9. Prediction of allosteric communication pathways in proteins

HALİLOĞLU T., Hacisuleyman A., Erman B.
Bioinformatics , cilt.38, sa.14, ss.3590-3599, 2022 (SCI-Expanded, Scopus)

10. Structural insight into host plasma membrane association and assembly of HIV-1 matrix protein

Ciftci H., Tateishi H., Koiwai K., Koga R., Anraku K., Monde K., et al.
Scientific Reports , cilt.11, sa.1, 2021 (SCI-Expanded, Scopus) Creative Commons License Sürdürülebilir Kalkınma

11. Protein dynamics analysis identifies candidate cancer driver genes and mutations in TCGA data

Sayılgan J. F., HALİLOĞLU T., Gönen M.
Proteins: Structure, Function and Bioinformatics , cilt.89, sa.6, ss.721-730, 2021 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

12. Global Dynamics Renders Protein Sites with High Functional Response

Kutlu Y., Ben-Tal N., HALİLOĞLU T.
Journal of Physical Chemistry B , cilt.125, sa.18, ss.4734-4745, 2021 (SCI-Expanded, Scopus)

13. Oncogenic mutations on Rac1 affect global intrinsic dynamics underlying GTP and PAK1 binding

Acuner S. E., Sumbul F., Torun H., HALİLOĞLU T.
Biophysical Journal , cilt.120, sa.5, ss.866-876, 2021 (SCI-Expanded, Scopus)

14. Local and Global Motions Underlying Antibiotic Binding in Bacterial Ribosome

Kürkçüoğlu Levitas A. Ö., Gunes M. U., HALİLOĞLU T.
Journal of Chemical Information and Modeling , cilt.60, sa.12, ss.6447-6461, 2020 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

15. Distinct Allosteric Networks Underlie Mechanistic Speciation of ABC Transporters

Acar B., Rose J., Aykac Fas B., Ben-Tal N., Lewinson O., HALİLOĞLU T.
Structure , cilt.28, sa.6, ss.651, 2020 (SCI-Expanded, Scopus)

16. Protein dynamics analysis reveals that missense mutations in cancer-related genes appear frequently on hinge-neighboring residues

Sayılgan J. F., HALİLOĞLU T., Gönen M.
Proteins: Structure, Function and Bioinformatics , cilt.87, sa.6, ss.512-519, 2019 (SCI-Expanded, Scopus)

17. Single-molecule probing of the conformational homogeneity of the ABC transporter BtuCD

Yang M., Livnat Levanon N., Acar B., Aykac Fas B., Masrati G., Rose J., et al.
Nature Chemical Biology , cilt.14, sa.7, ss.715-722, 2018 (SCI-Expanded, Scopus)

18. Cullin neddylation may allosterically tune polyubiquitin chain length and topology

Onel M., Sumbul F., Liu J., Nussinov R., HALİLOĞLU T.
Biochemical Journal , cilt.474, sa.5, ss.781-795, 2017 (SCI-Expanded, Scopus)

19. Adaptability of protein structures to enable functional interactions and evolutionary implications

HALİLOĞLU T., Bahar I.
Current Opinion in Structural Biology , cilt.35, ss.17-23, 2015 (SCI-Expanded, Scopus)

20. NhaA antiporter functions using 10 helices, and an additional 2 contribute to assembly/stability

Padan E., Danieli T., Keren Y., Alkoby D., Masrati G., HALİLOĞLU T., et al.
Proceedings of the National Academy of Sciences of the United States of America , cilt.112, sa.41, 2015 (SCI-Expanded, Scopus)

21. Allosteric Dynamic Control of Binding

Sumbul F., Acuner-Ozbabacan S. E., HALİLOĞLU T.
Biophysical Journal , cilt.109, sa.6, ss.1190-1201, 2015 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

22. Changes to the dynamic nature of hemagglutinin and the emergence of the 2009 pandemic H1N1 influenza virus

Yoon S., Chen N., Ducatez M. F., McBride R., Barman S., Fabrizio T. P., et al.
Scientific Reports , cilt.5, 2015 (SCI-Expanded, Scopus) Creative Commons License

23. Drug-resistant HIV-1 protease regains functional dynamics through cleavage site coevolution

Özer N., Özen A., Schiffer C. A., HALİLOĞLU T.
Evolutionary Applications , cilt.8, sa.2, ss.185-198, 2015 (SCI-Expanded, Scopus)

24. DynaFace: Discrimination between Obligatory and Non-obligatory Protein-Protein Interactions Based on the Complex’s Dynamics

Soner S., ÖZBEK SARICA P., Garzon J. I., Ben-Tal N., HALİLOĞLU T.
PLoS Computational Biology , cilt.11, sa.10, 2015 (SCI-Expanded, Scopus) Creative Commons License

25. Structural and dynamics aspects of ASC speck assembly

Sahillioglu A. C., Sumbul F., Ozoren N., HALİLOĞLU T.
Structure , cilt.22, sa.12, ss.1722-1734, 2014 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

26. Structure, Dynamics and Implied Gating Mechanism of a Human Cyclic Nucleotide-Gated Channel

Gofman Y., Schärfe C., Marks D. S., HALİLOĞLU T., Ben-Tal N.
PLoS Computational Biology , cilt.10, sa.12, 2014 (SCI-Expanded, Scopus) Creative Commons License

27. Features of large hinge-bending conformational transitions. Prediction of closed structure from open state

Uyar A., Kantarci-Carsibasi N., HALİLOĞLU T., Doruker P.
Biophysical Journal , cilt.106, sa.12, ss.2656-2666, 2014 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

28. Emergence and transmission of arbovirus evolutionary intermediates with epidemic potential

Stapleford K. A., Coffey L. L., Lay S., Bordería A. V., Duong V., Isakov O., et al.
Cell Host and Microbe , cilt.15, sa.6, ss.706-716, 2014 (SCI-Expanded, Scopus)

29. Hot spots in a network of functional sites.

ÖZBEK SARICA P., Soner S., HALİLOĞLU T.
PloS one , cilt.8, sa.9, 2013 (SCI-Expanded, Scopus) Creative Commons License

30. MCPath: Monte Carlo path generation approach to predict likely allosteric pathways and functional residues.

Kaya C., Armutlulu A., Ekesan S., HALİLOĞLU T.
Nucleic acids research , cilt.41, sa.Web Server issue, 2013 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

31. Dynamic Fluctuations Provide the Basis of a Conformational Switch Mechanism in Apo Cyclic AMP Receptor Protein

Aykaç Fas B., TUTAR Y., HALİLOĞLU T.
PLoS Computational Biology , cilt.9, sa.7, 2013 (SCI-Expanded, Scopus) Creative Commons License

32. Extreme entropy-enthalpy compensation in a drug-resistant variant of HIV-1 protease

King N. M., Prabu-Jeyabalan M., Bandaranayake R. M., Nalam M. N., Nalivaika E. A., Özen A., et al.
ACS Chemical Biology , cilt.7, sa.9, ss.1536-1546, 2012 (SCI-Expanded, Scopus)

33. The transmembrane helix tilt may be determined by the balance between precession entropy and lipid perturbation

Gofman Y., HALİLOĞLU T., Ben-Tal N.
Journal of Chemical Theory and Computation , cilt.8, sa.8, ss.2896-2904, 2012 (SCI-Expanded, Scopus)

34. How does KCNE1 regulate the Kv7.1 potassium channel? Model-structure, mutations, and dynamics of the Kv7.1-KCNE1 complex

Gofman Y., Shats S., Attali B., HALİLOĞLU T., Ben-Tal N.
Structure , cilt.20, sa.8, ss.1343-1352, 2012 (SCI-Expanded, Scopus)

35. Monte Carlo simulations of peptide-membrane interactions with the MCPep web server

Gofman Y., HALİLOĞLU T., Ben-Tal N.
Nucleic Acids Research , cilt.40, sa.W1, 2012 (SCI-Expanded, Scopus)

36. A model-structure of a periplasm-facing state of the NhaA antiporter suggests the molecular underpinnings of pH-induced conformational changes

Schushan M., Rimon A., HALİLOĞLU T., Forrest L. R., Padan E., Ben-Tal N.
Journal of Biological Chemistry , cilt.287, sa.22, ss.18249-18261, 2012 (SCI-Expanded, Scopus)

37. HIV-1 protease and substrate coevolution validates the substrate envelope as the substrate recognition pattern

Özen A., HALİLOĞLU T., Schiffer C. A.
Journal of Chemical Theory and Computation , cilt.8, sa.2, ss.703-714, 2012 (SCI-Expanded, Scopus)

38. Conformational control of the binding of the transactivation domain of the MLL protein and c-Myb to the KIX domain of CREB

Korkmaz E. N., Nussinov R., HALİLOĞLU T.
PLoS Computational Biology , cilt.8, sa.3, 2012 (SCI-Expanded, Scopus) Creative Commons License

39. Community-wide assessment of protein-interface modeling suggests improvements to design methodology

Fleishman S. J., Whitehead T. A., Strauch E., Corn J. E., Qin S., Zhou H., et al.
Journal of Molecular Biology , cilt.414, sa.2, ss.289-302, 2011 (SCI-Expanded, Scopus)

40. Dynamics of preferential substrate recognition in HIV-1 protease: Redefining the substrate envelope

Özen A., HALİLOĞLU T., Schiffer C. A.
Journal of Molecular Biology , cilt.410, sa.4, ss.726-744, 2011 (SCI-Expanded, Scopus)

41. Dynamic allostery: Linkers are not merely flexible

Ma B., Tsai C., HALİLOĞLU T., Nussinov R.
Structure , cilt.19, sa.7, ss.907-917, 2011 (SCI-Expanded, Scopus)

42. Alternative allosteric mechanisms can regulate the substrate and E2 in SUMO conjugation

KARACA EREK E., Tozluoǧlu M., Nussinov R., HALİLOĞLU T.
Journal of Molecular Biology , cilt.406, sa.4, ss.620-630, 2011 (SCI-Expanded, Scopus)

43. Rationale for more diverse inhibitors in competition with substrates in HIV-1 protease

Ozer N., Schiffer C. A., HALİLOĞLU T.
Biophysical Journal , cilt.99, sa.5, ss.1650-1659, 2010 (SCI-Expanded, Scopus)

44. Cα-trace model of the transmembrane domain of human copper transporter 1, motion and functional implications

Schushan M., Barkan Y., HALİLOĞLU T., Ben-Tal N.
Proceedings of the National Academy of Sciences of the United States of America , cilt.107, sa.24, ss.10908-10913, 2010 (SCI-Expanded, Scopus)

45. MuD: An interactive web server for the prediction of non-neutral substitutions using protein structural data

Wainreb G., Ashkenazy H., Bromberg Y., Starovolsky-Shitrit A., HALİLOĞLU T., Ruppin E., et al.
Nucleic Acids Research , cilt.38, sa.SUPPL. 2, 2010 (SCI-Expanded, Scopus)

46. Independent and cooperative motions of the Kv1.2 channel: Voltage sensing and gating

Yeheskel A., HALİLOĞLU T., Ben-Tai N.
Biophysical Journal , cilt.98, sa.10, ss.2179-2188, 2010 (SCI-Expanded, Scopus)

47. DNABINDPROT: Fluctuation-based predictor of DNA-binding residues within a network of interacting residues

ÖZBEK SARICA P., Soner S., Erman B., HALİLOĞLU T.
Nucleic Acids Research , cilt.38, sa.SUPPL. 2, 2010 (SCI-Expanded, Scopus)

48. Predicting important residues and interaction pathways in proteins using gaussian network model: Binding and stability of HLA proteins

HALİLOĞLU T., GÜL A., Erman B.
PLoS Computational Biology , cilt.6, sa.7, ss.20, 2010 (SCI-Expanded, Scopus) Creative Commons License

49. A mechanistic view of the role of E3 in sumoylation

Tozluoǧlu M., KARACA EREK E., Nussinov R., HALİLOĞLU T.
PLoS Computational Biology , cilt.6, sa.8, 2010 (SCI-Expanded, Scopus) Creative Commons License

50. Machine learning integration for predicting the effect of single amino acid substitutions on protein stability

Özen A., Gönen M., Alpaydn E., HALİLOĞLU T.
BMC Structural Biology , cilt.9, 2009 (Scopus) Creative Commons License Sürdürülebilir Kalkınma

51. Analysis of correlations between energy and residue fluctuations in native proteins and determination of specific sites for binding

HALİLOĞLU T., Erman B.
Physical Review Letters , cilt.102, sa.8, 2009 (SCI-Expanded, Scopus)

52. Folding pathways explored with artificial potential functions

Ulutaş B., HALİLOĞLU T., BOZMA AYDIN H. I.
Physical Biology , cilt.6, sa.3, 2009 (SCI-Expanded, Scopus)

53. Conformational transition pathways explored by Monte Carlo simulation integrated with collective modes

Kantarci-Carsibasi N., HALİLOĞLU T., Doruker P.
Biophysical Journal , cilt.95, sa.12, ss.5862-5873, 2008 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

54. What can we learn from highly connected β-rich structures for structural interface design?

Emekli U., Gunasekaran K., Nussinov R., HALİLOĞLU T.
Methods in Molecular Biology , cilt.474, ss.235-253, 2008 (Scopus)

55. Cataloging and organizing p73 interactions in cell cycle arrest and apoptosis

Tozluoǧlu M., KARACA EREK E., HALİLOĞLU T., Nussinov R.
Nucleic Acids Research , cilt.36, sa.15, ss.5033-5049, 2008 (SCI-Expanded, Scopus)

56. Prediction of binding sites in receptor-ligand complexes with the Gaussian network model

HALİLOĞLU T., Seyrek E., Erman B.
Physical Review Letters , cilt.100, sa.22, 2008 (SCI-Expanded, Scopus)

57. HingeProt: Automated prediction of hinges in protein structures

Emekli U., Schneidman-Duhovny D., Wolfson H. J., Nussinov R., HALİLOĞLU T.
Proteins: Structure, Function and Genetics , cilt.70, sa.4, ss.1219-1227, 2008 (SCI-Expanded, Scopus)

58. Cooperative transition between open and closed conformations in potassium channels

HALİLOĞLU T., Ben-Tal N.
PLoS Computational Biology , cilt.4, sa.8, 2008 (SCI-Expanded, Scopus) Creative Commons License

59. Interactions of cationic-hydrophobic peptides with lipid bilayers: A Monte Carlo simulation method

Shental-Bechor D., HALİLOĞLU T., Ben-Tal N.
Biophysical Journal , cilt.93, sa.6, ss.1858-1871, 2007 (SCI-Expanded, Scopus)

60. Association of putative concave protein-binding sites with the fluctuation behavior of residues

Ertekin A., Nussinov R., HALİLOĞLU T.
Protein Science , cilt.15, sa.10, ss.2265-2277, 2006 (SCI-Expanded, Scopus)

61. Substrate specificity in HIV-1 protease by a biased sequence search method

Ozer N., HALİLOĞLU T., Schiffer C. A.
Proteins: Structure, Function and Genetics , cilt.64, sa.2, ss.444-456, 2006 (SCI-Expanded, Scopus)

62. Coupling of structural fluctuations to deamidation reaction in triosephosphate isomerase by Gaussian network model

Sungur F. A., AVİYENTE V., HALİLOĞLU T.
Proteins: Structure, Function and Genetics , cilt.62, sa.3, ss.715-727, 2006 (SCI-Expanded, Scopus)

63. Cooperative fluctuations point to the dimerization interface of p53 core domain

Kantarci N., Doruker P., HALİLOĞLU T.
Biophysical Journal , cilt.91, sa.2, ss.421-432, 2006 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

64. Molecular dynamics simulations on constraint metal binding peptides

Kantarci N., Tamerler C., Sarikaya M., HALİLOĞLU T., Doruker P.
Polymer , cilt.46, sa.12, ss.4307-4313, 2005 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

65. How similar are protein folding and protein binding nuclei? Examination of vibrational motions of energy hot spots and conserved residues

HALİLOĞLU T., Keskin O., Ma B., Nussinov R.
Biophysical Journal , cilt.88, sa.3, ss.1552-1559, 2005 (SCI-Expanded, Scopus)

66. Monte Carlo studies of folding, dynamics, and stability in α-helices

Shental-Bechor D., Kirca S., Ben-Tal N., HALİLOĞLU T.
Biophysical Journal , cilt.88, sa.4, ss.2391-2402, 2005 (SCI-Expanded, Scopus)

67. Unfolding events of Chymotrypsin Inhibitor 2 (CI2) revealed by Monte Carlo (MC) simulations and their consistency from structure-based analysis of conformations

Ozkan S. B., Dalgýn G. S., HALİLOĞLU T.
Polymer , cilt.45, sa.2, ss.581-595, 2004 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

68. Use of Residual Dipolar Couplings as Restraints in Ab Initio Protein Structure Prediction

HALİLOĞLU T., Kolinski A., Skolnick J.
Biopolymers , cilt.70, sa.4, ss.548-562, 2003 (Scopus)

69. Structure-based prediction of potential binding and nonbinding peptides to HIV-1 protease

Kurt N., HALİLOĞLU T., Schiffer C. A.
Biophysical Journal , cilt.85, sa.2, ss.853-863, 2003 (SCI-Expanded, Scopus)

70. Cooperative fluctuations of unliganded and substrate-bound HIV-1 protease: A structure-based analysis on a variety of conformations from crystallography and molecular dynamics simulations

Kurt N., Scott W. R., Schiffer C. A., HALİLOĞLU T.
Proteins: Structure, Function and Genetics , cilt.51, sa.3, ss.409-422, 2003 (Scopus)

71. Interactions of Hydrophobic Peptides with Lipid Bilayers: Monte Carlo Simulations with M2δ

Kessel A., Shental-Bechor D., HALİLOĞLU T., Ben-Tal N.
Biophysical Journal , cilt.85, sa.6, ss.3431-3444, 2003 (SCI-Expanded, Scopus)

72. Interactions of the M2δ Segment of the Acetylcholine Receptor with Lipid Bilayers: A Continuum-Solvent Model Study

Kessel A., HALİLOĞLU T., Ben-Tal N.
Biophysical Journal , cilt.85, sa.6, ss.3687-3695, 2003 (SCI-Expanded, Scopus)

73. Conformational dynamics of subtilisin-chymotrypsin inhibitor 2 complex by coarse-grained simulations

Kurt N., HALİLOĞLU T.
Journal of Biomolecular Structure and Dynamics , cilt.18, sa.5, ss.713-731, 2001 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

74. Effect of vinyl content on self-diffusion in polybutadiene melts

Jang J. H., HALİLOĞLU T., Von Meerwall E. D., Mattice W. L.
Macromolecules , cilt.33, sa.11, ss.4271-4277, 2000 (Scopus)

75. Tracheal reconstruction with porous high-density polyethylene tracheal prosthesis

HALİLOĞLU T., Onar V., Yildirim G., Sapci T., Savci N., Kahvecioglu O., et al.
Annals of Otology, Rhinology and Laryngology , cilt.109, sa.10 I, ss.981-987, 2000 (SCI-Expanded, Scopus)

76. Structure-based analysis of protein dynamics: Comparison of theoretical results for hen lysozyme with X-ray diffraction and NMR relaxation data

HALİLOĞLU T., Bahar I.
Proteins: Structure, Function and Genetics , cilt.37, sa.4, ss.654-667, 1999 (SCI-Expanded, Scopus)

77. Conformational dynamics of chymotrypsin inhibitor 2 by coarse-grained simulations

Kurt N., HALİLOĞLU T.
Proteins: Structure, Function and Genetics , cilt.37, sa.3, ss.454-464, 1999 (SCI-Expanded, Scopus)

78. Detection of the onset of demixing in simulations of polypropylene melts in which the chains differ only in stereochemical composition

HALİLOĞLU T., Mattice W. L.
Journal of Chemical Physics , cilt.111, sa.9, ss.4327-4333, 1999 (SCI-Expanded, Scopus)

79. Characterization of internal motions of Escherichia coli ribonuclease H by Monte Carlo simulation

HALİLOĞLU T.
Proteins: Structure, Function and Genetics , cilt.34, sa.4, ss.533-539, 1999 (SCI-Expanded, Scopus)

80. Simulation of rotational isomeric state models for polypropylene melts on a high coordination lattice

HALİLOĞLU T., Mattice W. L.
Reviews in Chemical Engineering , cilt.15, sa.4, ss.293-305, 1999 (SCI-Expanded, Scopus)

81. Coarse-grained simulations of the conformational dynamics of proteins

HALİLOĞLU T.
Computational and Theoretical Polymer Science , cilt.9, sa.3-4, ss.255-260, 1999 (SCI-Expanded, Scopus)

82. Coarse-grained simulations of conformational dynamics of proteins: Application to apomyoglobin

HALİLOĞLU T., Bahar I.
Proteins: Structure, Function and Genetics , cilt.31, sa.3, ss.271-281, 1998 (SCI-Expanded, Scopus)

83. Mapping of rotational isomeric state chains with asymmetric torsional potential energy functions on a high coordination lattice: Application to polypropylene

HALİLOĞLU T., Mattice W. L.
Journal of Chemical Physics , cilt.108, sa.16, ss.6989-6995, 1998 (SCI-Expanded, Scopus)

84. Simulations of rotational isomeric state models for poly(propylene) melts on a high coordination lattice

HALİLOĞLU T., Cho J., Mattice W. L.
Macromolecular Theory and Simulations , cilt.7, sa.6, ss.613-617, 1998 (SCI-Expanded, Scopus)

85. Efficient characterization of collective motions and interresidue correlations in proteins by low-resolution simulations

Bahar I., Erman B., HALİLOĞLU T., Jernigan R.
Biochemistry , cilt.36, sa.44, ss.13512-13523, 1997 (SCI-Expanded, Scopus)

86. Monte Carlo simulation of the adsorption from a nonselective solvent of symmetric triblock copolymers with sticky end blocks

HALİLOĞLU T., Stevenson D. C., Mattice W. L.
Journal of Chemical Physics , cilt.106, sa.8, ss.3365-3369, 1997 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

87. Conformational transitions of end-adsorbed triblock copolymers in a nonselective solvent

HALİLOĞLU T., Mattice W. L.
Macromolecular Theory and Simulations , cilt.6, sa.3, ss.667-677, 1997 (SCI-Expanded, Scopus) Sürdürülebilir Kalkınma

88. Gaussian dynamics of folded proteins

HALİLOĞLU T., Bahar I., Erman B.
Physical Review Letters , cilt.79, sa.16, ss.3090-3093, 1997 (SCI-Expanded, Scopus)

89. Response of a single grafted polyethylene chain to simple shear flow: A Brownian dynamics simulation study

HALİLOĞLU T., Bahar I., Erman B.
Journal of Chemical Physics , cilt.105, sa.7, ss.2919-2926, 1996 (Scopus) Sürdürülebilir Kalkınma

90. Mechanisms of the exchange of diblock copolymers between micelles at dynamic equilibrium

HALİLOĞLU T., Bahar I., Erman B., Mattice W. L.
Macromolecules , cilt.29, sa.13, ss.4764-4771, 1996 (Scopus)

91. A dynamic rotational isomeric state approach for extension of the time scale of the local dynamics observed in fully atomistic molecular dynamics simulations: Application to polybutadiene

HALİLOĞLU T., Bahar I., Erman B., Kim E., Mattice W. L.
Journal of Chemical Physics , cilt.104, sa.12, ss.4828-4834, 1996 (Scopus)

92. The molecular dynamics of poly(1,4-trans-butadiene) in the amorphous state and in an inclusion complex

HALİLOĞLU T., Mattice W. L.
Macromolecular Symposia , cilt.101, ss.435-442, 1996 (Scopus)

93. Dependence of segmental orientation on polymer conformational characteristics

HALİLOĞLU T., Erman B., Bahar I.
Polymer , cilt.36, sa.21, ss.4131-4134, 1995 (Scopus)

94. Mobility of Free Ends and Junction Points as a Lamellar Block Copolymer

HALİLOĞLU T., Balaji R., Mattice W. L.
Macromolecules , cilt.27, sa.6, ss.1473-1476, 1994 (Scopus)

95. Role of Structural Heterogeneities on Segmental Orientation in Deformed Chains: Application to Alternating Copolymers

Bahar I., Erman B., HALİLOĞLU T.
Macromolecules , cilt.27, sa.7, ss.1703-1709, 1994 (Scopus)

96. Monte Carlo lattice simulation of the interchange of chains between micelles of diblock copolymers

HALİLOĞLU T., Mattice W. L.
Chemical Engineering Science , cilt.49, sa.17, ss.2851-2857, 1994 (Scopus)

97. Analysis of Orientation Autocorrelation and Cross-Correlation Functions for Polyethylene in the Inclusion Complex with Perhydrotriphenylene

HALİLOĞLU T., Mattice W. L.
Macromolecules , cilt.26, sa.12, ss.3137-3142, 1993 (Scopus)

98. Orientational mobility in uniaxially deformed polymer chains: a Brownian dynamics simulation study

HALİLOĞLU T., Erman B., Bahar I.
Polymer , cilt.34, sa.2, ss.440-442, 1993 (Scopus)

99. Orientational and conformational correlations in deformed polymer chains with fixed end-to-end separation: A Brownian dynamics simulation study

HALİLOĞLU T., Bahar I., Erman B.
The Journal of Chemical Physics , cilt.97, sa.6, ss.4428-4437, 1992 (Scopus)

100. Time-dependent probability distribution functions for orientational motions of segments in polymer chains

HALİLOĞLU T., Erman B., Bahar I.
The Journal of Chemical Physics , cilt.97, sa.6, ss.4438-4444, 1992 (Scopus)

101. Segmental orientation in uniaxially deformed networks. A higher order approximation for finite chains and large deformations

Erman B., HALİLOĞLU T., Bahar I., Mark J. E.
Macromolecules , cilt.24, sa.4, ss.901-907, 1991 (Scopus)
Hakemli Bilimsel Toplantılarda Yayımlanmış Bildiriler 31

1. Decphering Allosteric pathways

HALİLOĞLU T.
Konferans, Selanik, Yunanistan, 12 - 18 Mayıs 2024, (Tam Metin Bildiri)

2. Deciphering Allosteric Dynamics: Insights from Gaussian Network Analysis

HALİLOĞLU T.
American Chemical Society Global İnnovation İmperatives (Acs Gii) Workshop And The 7 th İnternational Conference On Computational Science And Technology (Iccst) 2023, Kuala-Lumpur, Malezya, 9 - 10 Aralık 2023, (Tam Metin Bildiri)

3. Global motions reveal functional sensitive mutational sites with allosteric response

KUTLU Y., Yılmaz D., HALİLOĞLU T.
EMBO Workshop - Computational structural biology, Heidelberg, Almanya, 6 - 09 Aralık 2023, (Özet Bildiri)

4. Unveiling Intrinsic Dynamics of Protein-Protein Binding Events

Akbaş Z. E., Aykac F. B., HALİLOĞLU T.
Embo Workshop: Computational structural biology EMBL, 6 - 12 Aralık 2023, (Özet Bildiri)

5. Signatura Dynamics of Activation Transition Pathways in GPCRs

DUMAN Ö., KUTLU Y., Aykac F. B., HALİLOĞLU T.
EMBO Workshop: Computational structural biology, 6 - 12 Aralık 2023, (Özet Bildiri)

6. ANM-LD Path: A Computational Framework for Predicting Conformational Transition Pathways and Allosteric Interactions

Aykac F. B., Akbaş Z. E., KUTLU Y., Duman Ö., HALİLOĞLU T.
EMBO Lecture Course: Structural biophysics of biomolecular complexes, İstanbul, Türkiye, 4 - 08 Eylül 2023, (Özet Bildiri)

7. Conformational Transition Pathways in GPCR Activation

DUMAN Ö., KUTLU Y., Aykac F. B., HALİLOĞLU T.
EMBO Workshop: Physics of living sytems, 3 - 07 Temmuz 2023, (Özet Bildiri)

8. Low- Resolution Structural Data Guides Prediction of Conformational Transition Pathways in Proteins using ANM-Langevin Dynamics Hybrid Mehodology

KUTLU Y., ACAR B., Fas B. A., DUMAN Ö., HALİLOĞLU T.
EMBO Workshop - Physics of living systems: From physical principles to biological, Dresden, Almanya, 3 - 07 Temmuz 2023, (Özet Bildiri)

9. Dynamic Order in allosteric İnteractions of Proteins

HALİLOĞLU T.
The international Symposium on health İnformatics and Bioinformatics(HIBIT) 2019, 17 - 19 Eylül 2019, (Özet Bildiri)

10. Order in allosteric interactions of Biological macromolecules

HALİLOĞLU T.
ACS Fall 2019 National MeetingExpo, 24 - 27 Ağustos 2019, (Özet Bildiri)

11. Protein Dynamics and allostery in function

HALİLOĞLU T.
EuroQSAR 2018 Symposium, 15 - 21 Eylül 2018, (Özet Bildiri)

12. Vice Chair for FET OPEN RIA- Toplanti sonuç raporu sunumu

HALİLOĞLU T.
FET OPEN RIA CALL HORİZON 2018, 3 - 07 Eylül 2018, (Özet Bildiri)

13. Training on how to prepare for the panel week on 16 th and 17 th July 2018 in Brussels

HALİLOĞLU T.
FET OPEN RIA CALL HORİZON 2018, 15 - 17 Temmuz 2018, (Özet Bildiri)

14. Elastic Network Models in Binding

HALİLOĞLU T.
EMBO Practical Course, İntegrative modelling of biomolecular interactions, 2 - 06 Temmuz 2018, (Özet Bildiri)

15. Causality in Functional motion of proteins

HALİLOĞLU T.
CompAllo: Towards a Unified Approach to the Analysis and Design of Allostery, 8 - 12 Nisan 2018, (Özet Bildiri)

16. CompAllo : Towards a Unified a Approach to the Analysis and Design of Allostery

HALİLOĞLU T.
Centre Européen de Calcul Atomique et Moléculairepromoting, 9 - 11 Nisan 2018, (Özet Bildiri)

17. ” P59- Oncogenic mutations on Rac1 regulate Rac1 - PAK1 binding by shifting the binding state through global mode perturbations”

TORUN H., SÜMBÜL F., BABACAN E., HALİLOĞLU T.
international Symposium on Chemistry VİA Computation Applications on Molecular Nanoscience, 30 Ekim 2017, (Özet Bildiri)

18. Global Dynamics in Seguence Variations

HALİLOĞLU T.
Integrating genomics and biophysics to comprehend functional genetic variation, 8 - 10 Eylül 2017, (Özet Bildiri)

19. Hücre Ölümünde Biyoinformatik Yaklışımlar -Moleküler Modelleme

HALİLOĞLU T.
Hücre ölümü Araştırmalarında Yeni Teknikler Çalıştay Programı, Türkiye, 9 - 11 Şubat 2017, (Özet Bildiri)

20. Global Dynamics in Protein Allostery

HALİLOĞLU T.
Uluslararası Bahçeşehir Üniversitesi İlaç Geliştirme Kongresi ”Novel Methods and Emerging Targets in Drug Discovery Patented Drug Development”, 13 - 15 Ekim 2016, (Özet Bildiri)

21. Global Protein Dynamics in Function and Evolution

HALİLOĞLU T.
The 16th Kias Conference on Protein Structure and Function, 22 Eylül 2016, (Özet Bildiri)

22. Collective Dynamics and Conformational Control of Function uluslararası sempozyum

AYKAÇ FAS B., ACAR B., HALİLOĞLU T.
2nd NGP-NET Symposium: Non-Globular Proteins In Molecular Physiopathology, 15 - 17 Eylül 2016, ss.13, (Özet Bildiri)

23. Collective Dynamics Underlying Gating Mechanism of Repeat Protein FimD

ACAR B., BURCU A. F., HALİLOĞLU T.
2nd NGP-NET Symposium: Non-Globular Proteins In Molecular Physiopathology, 15 - 17 Eylül 2016, ss.21, (Özet Bildiri)

24. Protein Dynamics in Function and Evolution

HALİLOĞLU T.
Enzyme Engineering: Bright strategies from Theory and Experiments, 27 Haziran 2016, (Özet Bildiri)

25. Allosteric Regulation of Rac1 PAK1 Binding Affinity by Mutant Residues through Molecular Simulations and AFM

Acuner Özbabacan S. E., Sumbul F., TORUN H., HALİLOĞLU T.
60th Annual Meeting of the Biophysical-Society Location, 27 Şubat - 02 Mart 2016, cilt.110, ss.383, (Özet Bildiri)

26. Allostery through Collective Dynamics in PapC Usher

HALİLOĞLU T., ACAR B., AYKAÇ FAS B.
1st NGP-NET Symposium on Non-Globular Proteins, 6 - 09 Ekim 2015, (Özet Bildiri)

27. Targeted conformational transitions of large and multimeric proteins by an efficient elastic network based technique

YESILTEPE Y., FINDIK D., UYAR A., TURGUT D., OZISIK R., HALİLOĞLU T., et al.
29th Annual Symposium of the Protein-Society, 22 - 25 Temmuz 2015, (Tam Metin Bildiri)

28. Targeted Conformational Transitions of Multimeric Proteins by Monte Carlo Simulations Combined with Collective Anisotropic Network Model Modes

YEŞİLTEPE Y., UYAR A., TURGUT D., HALİLOĞLU T., DORUKER TURGUT P., ÖZIŞIK R.
59th Annual Meeting of the Biophysical Society, 7 - 11 Şubat 2015, (Tam Metin Bildiri)

29. Sequence Variations and Allosteric Dynamics in Binding

HALİLOĞLU T., ÖZÖREN N., SÜMBÜL F., SAHİLLİOĞLU A. C.
Biohysical Society Thematic Meeting Modeling of Biomolecular Systems Interactions, Dynamics, and Allostery: Bridging Experiments and Computations, 10 Ekim 2014, (Özet Bildiri)

30. MIMTool A Tool for Drawing Molecular Interaction Maps

Edes M., ÖZTURAN C., HALİLOĞLU T., Luna A., Nussinov R.
4th Symposium on Biological Data Visualization, Boston, 11 - 12 Temmuz 2014, (Tam Metin Bildiri)

31. Reconstruction of Wnt/calcium signaling pathway in C. elegans Wnt/kalsiyum sinyal yol i̇zinin C. elegans' ta oluşturulmasi

Alazi F., HALİLOĞLU T., ÜLGEN Ş. K.
2009 14th National Biomedical Engineering Meeting, BIYOMUT 2009, Balcova, Izmir, Türkiye, 20 - 22 Mayıs 2009, (Tam Metin Bildiri)
Metrikler

Yayın

132

Yayın (Scopus)

102

Atıf (Scopus)

3537

H-İndeks (Scopus)

29

Proje

1

Tez Danışmanlığı

50

Açık Erişim

53
BM Sürdürülebilir Kalkınma Amaçları
SDG 3: AMAÇ 3: SAĞLIKLI BİREYLER
SDG 6: AMAÇ 6: TEMİZ SU VE SIHHİ KOŞULLAR