Gene Regulation Info

• Teif V.B., Ettig R. and Rippe K. (2010). A lattice model for transcription factor access to nucleosomal DNA. Biophys. J. (Accepted).
• Teif V. B. (2010). Predicting gene-regulation functions: Lessons from temperate bacteriophages. Biophys. J. 98, 1247-1256 | PDF (0.7 MB) | Medline | ScienceDirect |

Highlited in the interview in Genome Technology Magazine

• Teif V. B. and Bohinc K. (2010). Condensed DNA: condensing the concepts. Progr. Biophys. Mol. Biol. (In press) | ScienceDirect | PDF (1.2 MB) |
• Teif V.B. and Rippe K. (2010). Statistical-mechanical lattice models for protein-DNA binding in chromatin. J. Phys.: Cond. Mat. (In press) | PDF (1 MB) | arXiv:1004.5514v1 |
• Längst G., Teif V.B. and Rippe K. (2010). Chromatin remodeling by translocation of nucleosomes. In “Genome organization and function in the cell nucleus”, Ed. K. Rippe, Wiley-VCH, Weinheim (In press).
• Teif V. B. and Rippe K. (2009). Predicting nucleosome positions on the DNA: combining intrinsic affinities and remodeler activities. Nucleic Acids Res. 37, 5641-5655. | Medline | Free full text | Print PDF (6 MB) | Screen PDF (1 MB) | Supplementary Materials |
• Teif V. B., Harries D., Lando D.Y. and Ben-Shaul A. (2009). Matrix formalism for sequence-specific polymer binding to multicomponent lipid membranes. In “Membrane-active peptides: methods and results on structure and function", Ed. M. Castanho, International University Line, La Jolla. | PDF |
• Teif V. B., Harries D., Lando D. Y. and Ben-Shaul A. (2008). Matrix formalism for site-specific binding of unstructured proteins to multicomponent lipid membranes. J. Pept. Sci. 14, 368-373. | Medline | PDF | Supplementary computer program
• Teif V. B. (2007). General transfer matrix formalism to calculate DNA-protein-drug binding in gene regulation: Application to O_R operator of phage lambda. Nucleic Acids Res. 35, e80. | Medline | Free full text | Print PDF (7 MB) | Screen PDF (1 MB) | Supplementary computer program
• Andrianov A.M. and Teif V.B. (2007). 3D Structure model for a peptide presenting the immunogenic crown of the HIV-1 GP120 V3 loop. J. Biomol. Struct. Dynam. 24, 669. | Abstract
• Teif V. B. (2005). Ligand-induced DNA condensation: choosing the model. Biophys. J. 89, 2574-2587. | Free full text | PDF | Supplementary computer program
• Teif V. B., Lando D. Y. On the cooperativity of metal ion binding to the bases of single-stranded DNA. Europ. J. Biochem. 271(1), 19 (2004). | Abstract
• Teif V. B. (2003). On the cooperativity of metal ion binding to DNA. J. Biomol. Struct. Dynam. 20, 897-898. | Abstract
• Teif V. B. and Lando D. Y. (2003) DNA condensation caused by ligand binding. In “Bioregulators: investigation and application”, Minsk, “Technoprint”. P. 116-128. | PDF (Rus)
• Lando D. Y. and Teif V. B. (2002) Modeling of DNA condensation and decondensation caused by ligand binding. J. Biomol. Struct. Dynam. 20, 215-222. | PDF
• Teif V. B., Haroutunian S. H., Vorob'ev V. I. and Lando D. Y. (2002) Short-range interactions and size of ligands bound to DNA strongly influence adsorptive phase transition caused by long-range interactions. J. Biomol. Struct. Dynam. 19, 1103-1110.| PDF
• Teif V. B. and Lando D. Y. (2001) Calculation of DNA condensation caused by ligand adsorption. Molecular Biology 35, 117-119. | PDF
• Teif V. B. and Lando D. Y. (2001) DNA condensation caused by ligand binding may serve as a sensor. Sensor Technology 2001, ed. M. Elwenspoek, Kluver, Dordrecht, P. 155-160. | PDF
• Teif V. B., Vorob’ev V. I., Lando D. Y. (2001). Calculation of DNA condensation caused by ligand binding using a two-state model. J. Biomol. Struct. Dynam. 18, 908-909. | Abstract |
• Teif V. B., Vorob’ev V. I. and Lando D. Y. (2002). A Single DNA chemical modification by cisplatin may cause long-range changes in protein binding to DNA. Results of computer modeling. Europ. J. Human Genet. 10, suppl. 1, 104.
• Teif V. B. and Lando D. Y. Conditions for DNA phase transition induced by ligand binding. Europ. J. Human Genet. 9 suppl. 1, 241 (2001).
• Lando D. Y. and Teif V. B. (2000) Long-range interactions between ligands bound to a DNA molecule give rise to adsorption with the character of phase transition of the first kind. J. Biomol. Struct. Dynam. 17, 903-911. | PDF