User profiles for V. B. Teif

Teif, VB

University of Essex
Verified email at essex.ac.uk
Cited by 2014

Condensed DNA: condensing the concepts

VB Teif, K Bohinc - Progress in biophysics and molecular biology, 2011 - Elsevier
DNA is stored in vivo in a highly compact, so-called condensed phase, where gene
regulatory processes are governed by the intricate interplay between different states of DNA …

Nucleosome positioning: resources and tools online

VB Teif - Briefings in bioinformatics, 2016 - academic.oup.com
Teif has been working on DNA-centred biological systems since 1998. A decade later he
entered the nucleosome positioning field, and since then enjoys modelling epigenetic …

Genome-wide nucleosome positioning during embryonic stem cell development

VB Teif, Y Vainshtein, M Caudron-Herger… - Nature structural & …, 2012 - nature.com
We determined genome-wide nucleosome occupancies in mouse embryonic stem cells and
their neural progenitor and embryonic fibroblast counterparts to assess features associated …

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

VB Teif, DA Beshnova, Y Vainshtein, C Marth… - Genome …, 2014 - genome.cshlp.org
During differentiation of embryonic stem cells, chromatin reorganizes to establish cell type-specific
expression programs. Here, we have dissected the linkages between DNA …

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

VB Teif, K Rippe - Nucleic acids research, 2009 - academic.oup.com
Nucleosome positions on the DNA are determined by the intrinsic affinities of histone proteins
to a given DNA sequence and by the ATP-dependent activities of chromatin remodeling …

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

…, K Rippe, F Lyko, A Breiling, VB Teif - Genome …, 2019 - genome.cshlp.org
Coordinated changes of DNA (de)methylation, nucleosome positioning, and chromatin
binding of the architectural protein CTCF play an important role for establishing cell-type–specific …

[HTML][HTML] Regulation of the Nucleosome Repeat Length In Vivo by the DNA Sequence, Protein Concentrations and Long-Range Interactions

…, AG Cherstvy, Y Vainshtein, VB Teif - PLoS computational …, 2014 - journals.plos.org
The nucleosome repeat length (NRL) is an integral chromatin property important for its
biological functions. Recent experiments revealed several conflicting trends of the NRL …

CTCF-dependent chromatin boundaries formed by asymmetric nucleosome arrays with decreased linker length

…, H Mamayusupova, VB Zhurkin, VB Teif - Nucleic acids …, 2019 - academic.oup.com
The CCCTC-binding factor (CTCF) organises the genome in 3D through DNA loops and in
1D by setting boundaries isolating different chromatin states, but these processes are not well …

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

…, LC Klett, SJ Kugler, JM Muino, VB Teif… - Molecular systems …, 2019 - embopress.org
In chronic lymphocytic leukemia ( CLL ), a diverse set of genetic mutations is embedded in a
deregulated epigenetic landscape that drives cancerogenesis. To elucidate the role of …

[HTML][HTML] NucPosDB: a database of nucleosome positioning in vivo and nucleosomics of cell-free DNA

M Shtumpf, KV Piroeva, SP Agrawal, DR Jacob, VB Teif - Chromosoma, 2022 - Springer
Nucleosome positioning is involved in many gene regulatory processes happening in the cell,
and it may change as cells differentiate or respond to the changing microenvironment in a …