Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 30

1.

Linking aberrant chromatin features in chronic lymphocytic leukemia to transcription factor networks.

Mallm JP, Iskar M, Ishaque N, Klett LC, Kugler SJ, Muino JM, Teif VB, Poos AM, Großmann S, Erdel F, Tavernari D, Koser SD, Schumacher S, Brors B, König R, Remondini D, Vingron M, Stilgenbauer S, Lichter P, Zapatka M, Mertens D, Rippe K.

Mol Syst Biol. 2019 May 22;15(5):e8339. doi: 10.15252/msb.20188339.

2.

DNA (de)methylation in embryonic stem cells controls CTCF-dependent chromatin boundaries.

Wiehle L, Thorn GJ, Raddatz G, Clarkson CT, Rippe K, Lyko F, Breiling A, Teif VB.

Genome Res. 2019 May;29(5):750-761. doi: 10.1101/gr.239707.118. Epub 2019 Apr 4.

3.

Poly(ADP-ribosyl)ation associated changes in CTCF-chromatin binding and gene expression in breast cells.

Pavlaki I, Docquier F, Chernukhin I, Kita G, Gretton S, Clarkson CT, Teif VB, Klenova E.

Biochim Biophys Acta Gene Regul Mech. 2018 Aug;1861(8):718-730. doi: 10.1016/j.bbagrm.2018.06.010. Epub 2018 Jul 5.

4.

Nucleosome repositioning during differentiation of a human myeloid leukemia cell line.

Teif VB, Mallm JP, Sharma T, Mark Welch DB, Rippe K, Eils R, Langowski J, Olins AL, Olins DE.

Nucleus. 2017 Mar 4;8(2):188-204. doi: 10.1080/19491034.2017.1295201.

5.

NucTools: analysis of chromatin feature occupancy profiles from high-throughput sequencing data.

Vainshtein Y, Rippe K, Teif VB.

BMC Genomics. 2017 Feb 14;18(1):158. doi: 10.1186/s12864-017-3580-2.

6.

Nucleosome positioning: resources and tools online.

Teif VB.

Brief Bioinform. 2016 Sep;17(5):745-57. doi: 10.1093/bib/bbv086. Epub 2015 Sep 26. Review.

PMID:
26411474
7.

Affinity, stoichiometry and cooperativity of heterochromatin protein 1 (HP1) binding to nucleosomal arrays.

Teif VB, Kepper N, Yserentant K, Wedemann G, Rippe K.

J Phys Condens Matter. 2015 Feb 18;27(6):064110. doi: 10.1088/0953-8984/27/6/064110. Epub 2015 Jan 7.

PMID:
25563825
8.

Electrostatic effect of H1-histone protein binding on nucleosome repeat length.

Cherstvy AG, Teif VB.

Phys Biol. 2014 Aug;11(4):044001. doi: 10.1088/1478-3975/11/4/044001. Epub 2014 Jul 31.

PMID:
25078656
9.

Strong nucleosomes of mouse genome including recovered centromeric sequences.

Salih BF, Teif VB, Tripathi V, Trifonov EN.

J Biomol Struct Dyn. 2015;33(6):1164-75. doi: 10.1080/07391102.2014.938700. Epub 2014 Jul 28.

PMID:
24998943
10.

Regulation of the nucleosome repeat length in vivo by the DNA sequence, protein concentrations and long-range interactions.

Beshnova DA, Cherstvy AG, Vainshtein Y, Teif VB.

PLoS Comput Biol. 2014 Jul 3;10(7):e1003698. doi: 10.1371/journal.pcbi.1003698. eCollection 2014 Jul.

11.

Nucleosome repositioning links DNA (de)methylation and differential CTCF binding during stem cell development.

Teif VB, Beshnova DA, Vainshtein Y, Marth C, Mallm JP, Höfer T, Rippe K.

Genome Res. 2014 Aug;24(8):1285-95. doi: 10.1101/gr.164418.113. Epub 2014 May 8.

12.

Structure-driven homology pairing of chromatin fibers: the role of electrostatics and protein-induced bridging.

Cherstvy AG, Teif VB.

J Biol Phys. 2013 Jun;39(3):363-85. doi: 10.1007/s10867-012-9294-4. Epub 2013 Jan 17.

13.

Modeling nucleosome position distributions from experimental nucleosome positioning maps.

Schöpflin R, Teif VB, Müller O, Weinberg C, Rippe K, Wedemann G.

Bioinformatics. 2013 Oct 1;29(19):2380-6. doi: 10.1093/bioinformatics/btt404. Epub 2013 Jul 11.

PMID:
23846748
14.

Taking into account nucleosomes for predicting gene expression.

Teif VB, Erdel F, Beshnova DA, Vainshtein Y, Mallm JP, Rippe K.

Methods. 2013 Jul 15;62(1):26-38. doi: 10.1016/j.ymeth.2013.03.011. Epub 2013 Mar 21. Review.

PMID:
23523656
15.

Genome-wide nucleosome positioning during embryonic stem cell development.

Teif VB, Vainshtein Y, Caudron-Herger M, Mallm JP, Marth C, Höfer T, Rippe K.

Nat Struct Mol Biol. 2012 Nov;19(11):1185-92. doi: 10.1038/nsmb.2419. Epub 2012 Oct 21.

PMID:
23085715
16.

[Nucleosomes in gene regulation: theoretical approaches].

Teĭf VB, Shkrobkov AV, Egorova VP, Krot VI.

Mol Biol (Mosk). 2012 Jan-Feb;46(1):3-13. Review. Russian.

PMID:
22642097
17.

Calculating transcription factor binding maps for chromatin.

Teif VB, Rippe K.

Brief Bioinform. 2012 Mar;13(2):187-201. doi: 10.1093/bib/bbr037. Epub 2011 Jul 6.

PMID:
21737419
18.

Nucleosome mediated crosstalk between transcription factors at eukaryotic enhancers.

Teif VB, Rippe K.

Phys Biol. 2011 Aug;8(4):044001. doi: 10.1088/1478-3975/8/4/044001. Epub 2011 Jun 10.

PMID:
21666293
19.

Statistical-mechanical lattice models for protein-DNA binding in chromatin.

Teif VB, Rippe K.

J Phys Condens Matter. 2010 Oct 20;22(41):414105. doi: 10.1088/0953-8984/22/41/414105. Epub 2010 Sep 30.

PMID:
21386588
20.

A lattice model for transcription factor access to nucleosomal DNA.

Teif VB, Ettig R, Rippe K.

Biophys J. 2010 Oct 20;99(8):2597-607. doi: 10.1016/j.bpj.2010.08.019.

21.

Condensed DNA: condensing the concepts.

Teif VB, Bohinc K.

Prog Biophys Mol Biol. 2011 May;105(3):208-22. doi: 10.1016/j.pbiomolbio.2010.07.002. Epub 2010 Jul 16. Review.

PMID:
20638406
22.

Predicting gene-regulation functions: lessons from temperate bacteriophages.

Teif VB.

Biophys J. 2010 Apr 7;98(7):1247-56. doi: 10.1016/j.bpj.2009.11.046.

23.

Predicting nucleosome positions on the DNA: combining intrinsic sequence preferences and remodeler activities.

Teif VB, Rippe K.

Nucleic Acids Res. 2009 Sep;37(17):5641-55. doi: 10.1093/nar/gkp610. Epub 2009 Jul 22.

24.

Matrix formalism for site-specific binding of unstructured proteins to multicomponent lipid membranes.

Teif VB, Harries D, Lando DY, Ben-Shaul A.

J Pept Sci. 2008 Apr;14(4):368-73. doi: 10.1002/psc.994.

PMID:
18186025
26.

Ligand-induced DNA condensation: choosing the model.

Teif VB.

Biophys J. 2005 Oct;89(4):2574-87. Epub 2005 Aug 5.

27.

Modeling of DNA condensation and decondensation caused by ligand binding.

Lando DY, Teif VB.

J Biomol Struct Dyn. 2002 Oct;20(2):215-22.

PMID:
12354073
28.

Short-range interactions and size of ligands bound to DNA strongly influence adsorptive phase transition caused by long-range interactions.

Teif VB, Haroutiunian SG, Vorob'ev VI, Lando DY.

J Biomol Struct Dyn. 2002 Jun;19(6):1093-100.

PMID:
12023811
29.

[Calculation of DNA condensation, caused by adsorption of ligands].

Teĭf VB, Lando DIu.

Mol Biol (Mosk). 2001 Jan-Feb;35(1):117-9. Russian.

PMID:
11234369

Supplemental Content

Support Center