Single-Base Resolution Sequence-Directed Nucleosome Mapping

J 2013

Single-Base Resolution Sequence-Directed Nucleosome Mapping

TRIFONOV, Eduard Nikolajevič and Jan HAPALA

Basic information

Original name

Single-Base Resolution Sequence-Directed Nucleosome Mapping

Authors

TRIFONOV, Eduard Nikolajevič (376 Israel, guarantor, belonging to the institution) and Jan HAPALA (203 Czech Republic, belonging to the institution)

Edition

Israel Journal of Chemistry, WEINHEIM, WILEY-V C H VERLAG GMBH, 2013, 0021-2148

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

Genetics and molecular biology

Country of publisher

Germany

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 2.561

RIV identification code

RIV/00216224:14740/13:00069571

Organization unit

Central European Institute of Technology

DOI

http://dx.doi.org/10.1002/ijch.201200074

UT WoS

000317859800003

Keywords in English

DNA; ucleobases; nucleosome positioning; regulation of transcription; TATA box

Abstract

V originále

Frequently used nucleosome mapping techniques, both experimental and computational ones, pursue a rather simple task to determine whether a given sequence segment is likely to belong to a nucleosome, thus measuring the nucleosome occupancy along the sequence. A more ambitious task is to determine the position with high resolution, so that not only the approximate translational position of the nucleosome on DNA would be known, but also the rotational setting of the DNA. The rotational setting is important to know since the binding of various transcription factors to the nucleosome DNA crucially depends on the accessibility of the respective recognition sequences. The only experimental technique that provides the highest possible accuracy of the positioning is crystallization of the nucleosomes reconstituted on specific sequences, with subsequent solving of their structures from x-ray diffraction data. Two computational approaches to the accurate positioning of nucleosomes, based on energy calculations and on sequence patterndirected mapping, are currently in different stages of progress.

Links

MSM0021622415, plan (intention)

Name: Molekulární podstata buněčných a tkáňových regulací

Investor: Ministry of Education, Youth and Sports of the CR, Molecular basis of cell and tissue regulations

Citovat

TRIFONOV, Eduard Nikolajevič and Jan HAPALA. Single-Base Resolution Sequence-Directed Nucleosome Mapping. Israel Journal of Chemistry. WEINHEIM: WILEY-V C H VERLAG GMBH, 2013, vol. 53, 3-4, p. 144-146. ISSN 0021-2148. Available from: https://dx.doi.org/10.1002/ijch.201200074.

@article{1124392,
   author = {Trifonov, Eduard Nikolajevič and Hapala, Jan},
   article_location = {WEINHEIM},
   article_number = {3-4},
   doi = {http://dx.doi.org/10.1002/ijch.201200074},
   keywords = {DNA; ucleobases; nucleosome positioning; regulation of transcription; TATA box},
   language = {eng},
   issn = {0021-2148},
   journal = {Israel Journal of Chemistry},
   title = {Single-Base Resolution Sequence-Directed Nucleosome Mapping},
   url = {http://onlinelibrary.wiley.com/doi/10.1002/ijch.201200074/abstract},
   volume = {53},
   year = {2013}
}

TY  - JOUR
ID  - 1124392
AU  - Trifonov, Eduard Nikolajevič - Hapala, Jan
PY  - 2013
TI  - Single-Base Resolution Sequence-Directed Nucleosome Mapping
JF  - Israel Journal of Chemistry
VL  - 53
IS  - 3-4
SP  - 144-146
EP  - 144-146
PB  - WILEY-V C H VERLAG GMBH
SN  - 00212148
KW  - DNA
KW  - ucleobases
KW  - nucleosome positioning
KW  - regulation of transcription
KW  - TATA box
UR  - http://onlinelibrary.wiley.com/doi/10.1002/ijch.201200074/abstract
L2  - http://onlinelibrary.wiley.com/doi/10.1002/ijch.201200074/abstract
N2  - Frequently used nucleosome mapping techniques, both experimental and computational ones, pursue a rather simple task to determine whether a given sequence segment is likely to belong to a nucleosome, thus measuring the nucleosome occupancy along the sequence. A more ambitious task is to determine the position with high resolution, so that not only the approximate translational position of the nucleosome on DNA would be known, but also the rotational setting of the DNA. The rotational setting is important to know since the binding of various transcription factors to the nucleosome DNA crucially depends on the accessibility of the respective recognition sequences. The only experimental technique that provides the highest possible accuracy of the positioning is crystallization of the nucleosomes reconstituted on specific sequences, with subsequent solving of their structures from x-ray diffraction data. Two computational approaches to the accurate positioning of nucleosomes, based on energy calculations and on sequence patterndirected mapping, are currently in different stages of progress.
ER  -

TRIFONOV, Eduard Nikolajevič and Jan HAPALA. Single-Base Resolution Sequence-Directed Nucleosome Mapping. \textit{Israel Journal of Chemistry}. WEINHEIM: WILEY-V C H VERLAG GMBH, 2013, vol.~53, 3-4, p.~144-146. ISSN~0021-2148. Available from: https://dx.doi.org/10.1002/ijch.201200074.

Detailed Information on Publication Record