Prediction of significant cruciform structures from sequence in topologically constrained DNA - a probabilistic modelling approach

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14330%2F12%3A00065912" target="_blank" >RIV/00216224:14330/12:00065912 - isvavai.cz</a>

Výsledek na webu

<a href="http://dx.doi.org/10.5220/0003705701240130" target="_blank" >http://dx.doi.org/10.5220/0003705701240130</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.5220/0003705701240130" target="_blank" >10.5220/0003705701240130</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Prediction of significant cruciform structures from sequence in topologically constrained DNA - a probabilistic modelling approach

Popis výsledku v původním jazyce

Sequence-dependent secondary DNA structures, such as cruciform or triplex DNA, are implicated in regulation of gene transcription and other important biological processes at the molecular level. Sequences capable of forming these structures can readily be identified in entire genomes by appropriate searching techniques. However, not every DNA segment containing the proper sequence has equal probability of forming an alternative structure. Calculating the free energy of the potential structures providesan estimate of their stability in vivo, but there are other structural factors, both local and non-local, not taken into account by such simplistic approach. In is paper we present the procedure we currently use to identify potential cruciform structuresin DNA sequences. The procedure relies on identification of palindromes (or inverted repeats) and their evaluation by a nucleic acid folding program (UNAFold).

Název v anglickém jazyce

Prediction of significant cruciform structures from sequence in topologically constrained DNA - a probabilistic modelling approach

Popis výsledku anglicky

Sequence-dependent secondary DNA structures, such as cruciform or triplex DNA, are implicated in regulation of gene transcription and other important biological processes at the molecular level. Sequences capable of forming these structures can readily be identified in entire genomes by appropriate searching techniques. However, not every DNA segment containing the proper sequence has equal probability of forming an alternative structure. Calculating the free energy of the potential structures providesan estimate of their stability in vivo, but there are other structural factors, both local and non-local, not taken into account by such simplistic approach. In is paper we present the procedure we currently use to identify potential cruciform structuresin DNA sequences. The procedure relies on identification of palindromes (or inverted repeats) and their evaluation by a nucleic acid folding program (UNAFold).

Druh

D - Stať ve sborníku

CEP obor

IN - Informatika

OECD FORD obor

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Projekt

<a href="/cs/project/GA204%2F08%2F1560" target="_blank" >GA204/08/1560: Bioinformatická a experimentální identifikace nekanonických struktur v genomové DNA</a><br>

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Rok uplatnění

2012

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název statě ve sborníku

Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms.

ISBN

9789898425904

ISSN

—

e-ISSN

—

Počet stran výsledku

7

Strana od-do

124-130

Název nakladatele

SciTePress

Místo vydání

Neuveden

Místo konání akce

Algarve, Portugal

Datum konání akce

1. 2. 2012

Typ akce podle státní příslušnosti

WRD - Celosvětová akce

Kód UT WoS článku

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