People

Dr Vladimir Teif

Lecturer
School of Biological Sciences
Dr Vladimir Teif
  • Email

  • Telephone

    +44 (0) 1206 872121

  • Location

    3SW.6.18, Colchester Campus

Profile

Appointments

University of Essex

  • Lecturer, School of Biological Sciences University of Essex ( 1/5/2015 - present )

Other academic

  • Researcher, German Cancer Research Center (DKFZ) ( 1/9/2009 - present )

  • Senior Researcher, National Academy of Sciences of Belarus ( 1/6/2009 - 1/6/2010 )

  • Visiting Scientist, University of California, San Diego ( 1/2/2008 - 1/6/2008 )

  • Visiting Scientist, Hebrew University of Jerusalem ( 1/11/2005 - 29/5/2007 )

  • Researcher, National Academy of Sciences of Belarus ( 1/6/2004 - 1/6/2009 )

Research and professional activities

Research interests

Modelling epigenetic regulation

Next Generation Sequencing

Biophysics of chromatin

DNA-protein binding

Cell differentiation

Cancer transition

Lattice models

AR/VR tools for education

Teaching and supervision

  • Scientific and Transferable Skills for Biosciences (BS141)

  • Genome Science (BS222)

  • Genome Bioinformatics (BS312)

  • Human Molecular Genetics (BS320)

  • Research Project in Biomolecular Science (BS831)

  • Advanced Cancer Biology (BS932)

  • Practical Skills in Cancer Research (BS933)

Publications

Journals (35)

Teif, VB., Mallm, J-P., Sharma, T., Mark Welch, DB., Rippe, K., Eils, R., Langowski, J., Olins, AL. and Olins, DE., (2017). Nucleosome repositioning during differentiation of a human myeloid leukemia cell line. Nucleus. 8 (2)

Vainshtein, Y., Rippe, K. and Teif, VB., (2017). NucTools: analysis of chromatin feature occupancy profiles from high-throughput sequencing data. BMC Genomics. 18 (1)

Teif, VB., (2016). Nucleosome positioning: resources and tools online. Briefings in Bioinformatics. 17 (5)

B. Teif, V. and G. Cherstvy, A., (2016). Chromatin and epigenetics: current biophysical views. AIMS Biophysics. 3 (1)

Teif, VB., Kepper, N., Yserentant, K., Wedemann, G. and Rippe, K., (2015). Affinity, stoichiometry and cooperativity of heterochromatin protein 1 (HP1) binding to nucleosomal arrays. Journal of Physics: Condensed Matter. 27 (6)

Salih, BF., Teif, VB., Tripathi, V. and Trifonov, EN., (2015). Strong nucleosomes of mouse genome including recovered centromeric sequences. Journal of Biomolecular Structure and Dynamics. 33 (6)

Teif, VB. and Rippe, K., (2015). 8 Interplay of nucleosome repositioning, DNA methylation and transcription factor binding during stem cell development. Journal of Biomolecular Structure and Dynamics. 33 (sup1)

Cherstvy, AG. and Teif, VB., (2014). Electrostatic effect of H1-histone protein binding on nucleosome repeat length. Physical Biology. 11 (4)

Beshnova, DA., Cherstvy, AG., Vainshtein, Y. and Teif, VB., (2014). Regulation of the Nucleosome Repeat Length In Vivo by the DNA Sequence, Protein Concentrations and Long-Range Interactions. PLoS Computational Biology. 10 (7)

Teif, VB., Beshnova, DA., Vainshtein, Y., Marth, C., Mallm, J-P., Höfer, T. and Rippe, K., (2014). Nucleosome repositioning links DNA (de)methylation and differential CTCF binding during stem cell development. Genome Research. 24 (8)

Schöpflin, R., Müller, O., Weinberg, C., Teif, VB., Rippe, K. and Wedemann, G., (2014). Modeling Effects of Nucleosome Positioning in Short and Long Chromatin Fibers. Biophysical Journal. 106 (2)

Teif, VB., Erdel, F., Beshnova, DA., Vainshtein, Y., Mallm, JP. and Rippe, K., (2013). Taking into account nucleosomes for predicting gene expression. Methods. 62 (1)

Cherstvy, AG. and Teif, VB., (2013). Structure-driven homology pairing of chromatin fibers: the role of electrostatics and protein-induced bridging. Journal of Biological Physics. 39 (3)

Schöpflin, R., Teif, VB., Müller, O., Weinberg, C., Rippe, K. and Wedemann, G., (2013). Modeling nucleosome position distributions from experimental nucleosome positioning maps. Bioinformatics. 29 (19)

Schöpflin, R., Teif, VB., Müller, O., Weinberg, C., Rippe, K. and Wedemann, G., (2013). Modeling Long Chromatin Fibers based on In-Vivo Nucleosome Positioning Maps. Biophysical Journal. 104 (2)

Teif, VB., Beshnova, DA., Vainshtein, Y., Höfer, T. and Rippe, K., (2013). Developing a software suite to analyze the interplay between nucleosome arrangement, DNA methylation and transcription factor binding. EMBnet.journal. 19 (A)

Teif, VB., Vainshtein, Y., Caudron-Herger, M., Mallm, J-P., Marth, C., Höfer, T. and Rippe, K., (2012). Genome-wide nucleosome positioning during embryonic stem cell development. Nature Structural & Molecular Biology. 19 (11)

Teif, VB. and Rippe, K., (2012). Calculating transcription factor binding maps for chromatin. Briefings in Bioinformatics. 13 (2)

Teif, VB., Shkrabkou, AV., Egorova, VP. and Krot, VI., (2012). Nucleosomes in gene regulation: Theoretical approaches. Molecular Biology. 46 (1)

Teǐf, VB., Shkrobkov, AV., Egorova, VP. and Krot, VI., (2012). [Nucleosomes in gene regulation: theoretical approaches].. Molekuliarnaia biologiia. 46 (1)

Teif, VB. and Rippe, K., (2011). Nucleosome mediated crosstalk between transcription factors at eukaryotic enhancers. Physical Biology. 8 (4)

Teif, VB. and Bohinc, K., (2011). Condensed DNA: Condensing the concepts. Progress in Biophysics and Molecular Biology. 105 (3)

Teif, VB., Ettig, R. and Rippe, K., (2010). A Lattice Model for Transcription Factor Access to Nucleosomal DNA. Biophysical Journal. 99 (8)

Teif, VB., (2010). Predicting Gene-Regulation Functions: Lessons from Temperate Bacteriophages. Biophysical Journal. 98 (7)

Teif, VB. and Rippe, K., (2010). Statistical-mechanical lattice models for protein-DNA binding in chromatin. Journal of Physics: Condensed Matter. 22 (41)

Teif, VB. and Rippe, K., (2009). Predicting nucleosome positions on the DNA: combining intrinsic sequence preferences and remodeler activities. Nucleic Acids Research. 37 (17)

Teif, VB., Harries, D., Lando, DY. and Ben-Shaul, A., (2008). Matrix formalism for site-specific binding of unstructured proteins to multicomponent lipid membranes. Journal of Peptide Science. 14 (4)

Teif, VB., (2007). General transfer matrix formalism to calculate DNA–protein–drug binding in gene regulation: application to O R operator of phage λ. Nucleic Acids Research. 35 (11)

Teif, VB., (2005). Ligand-Induced DNA Condensation: Choosing the Model. Biophysical Journal. 89 (4)

Lando, DY. and Teif, VB., (2002). Modeling of DNA Condensation and Decondensation Caused by Ligand Binding. Journal of Biomolecular Structure and Dynamics. 20 (2)

Teif, VB., Haroutiunian, SG., Vorob'ev, VI., Lando, DY. and Ivanov, V., (2002). Short-Range Interactions and Size of Ligands Bound to DNA Strongly Influence Adsorptive Phase Transition Caused by Long-Range Interactions. Journal of Biomolecular Structure and Dynamics. 19 (6)

Teif, VB. and Yu Lando, D., (2001). Calculations of DNA condensation caused by ligand adsorption. Molekulyarnaya Biologiya. 35 (1)

Teif, VB. and Lando, DY., (2001). Calculations of DNA condensation caused by ligand adsorption. Molecular Biology. 35 (1)

Lando, DY. and Teif, VB., (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. Journal of Biomolecular Structure and Dynamics. 17 (5)

Teif, V., Pavlaki, I., Docquier, F., Chernukhin, I., Klenova, E., Kita, G. and Gretton, S., Poly(ADP-ribosyl)ation associated changes in CTCF-chromatin binding and gene expression in breast cells. BioRxiv

Chapters (2)

Teif, VB. and Clarkson, CT., (2017). Nucleosome positioning. In: Encyclopedia of Bioinformatics and Computational Biology

Längst, G., Teif, VB. and Rippe, R., (2011). Chromatin Remodeling and Nucleosome Positioning. In: Genome Organization and Function in the Cell Nucleus. 111- 138. 9783527326983

Conferences (4)

Teif, V., Beshnova, DA., Vainshtein, Y., Marth, C., Mallm, J-P., Hoefer, T. and Rippe, K., (2014). Nucleosome rearrangement as a feedback mechanism between DNA methylation and transcription factor binding

Beshnova, DA., Rippe, K. and Teif, VB., (2013). A novel method to calculate transcription factor binding in chromatin

Teif, VB., Harries, D., Lando, DY. and Ben-Shaul, A., (2008). Matrix formalism for site-specific binding of unstructured proteins to multicomponent lipid membranes

Teif, V., (2005). Ligand-induced DNA condensation: Theory and experiments

Grants and funding

2016

Nucleosome repositioning as a mechanism for cell memory in cancer transitions

Wellcome Trust

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