| pubmed-article:16089566 | rdf:type | pubmed:Citation | lld:pubmed |
| pubmed-article:16089566 | lifeskim:mentions | umls-concept:C0028606 | lld:lifeskim |
| pubmed-article:16089566 | lifeskim:mentions | umls-concept:C1524075 | lld:lifeskim |
| pubmed-article:16089566 | lifeskim:mentions | umls-concept:C0870071 | lld:lifeskim |
| pubmed-article:16089566 | lifeskim:mentions | umls-concept:C0337112 | lld:lifeskim |
| pubmed-article:16089566 | pubmed:issue | 5 Pt 1 | lld:pubmed |
| pubmed-article:16089566 | pubmed:dateCreated | 2005-8-10 | lld:pubmed |
| pubmed-article:16089566 | pubmed:abstractText | To gain a deeper insight into cellular processes such as transcription and translation, one needs to uncover the mechanisms controlling the configurational changes of nucleic acids. As a step toward this aim, we present here a mesoscopic-level computational model that provides a new window into nucleic acid dynamics. We model a single-stranded nucleic as a polymer chain whose monomers are the nucleosides. Each monomer comprises a bead representing the sugar molecule and a pin representing the base. The bead-pin complex can rotate about the backbone of the chain. We consider pairwise stacking and hydrogen-bonding interactions. We use a modified Monte Carlo dynamics that splits the dynamics into translational bead motion and rotational pin motion. By performing a number of tests, we first show that our model is physically sound. We then focus on a study of the kinetics of a DNA hairpin--a single-stranded molecule comprising two complementary segments joined by a noncomplementary loop--studied experimentally. We find that results from our simulations agree with experimental observations, demonstrating that our model is a suitable tool for the investigation of the hybridization of single strands. | lld:pubmed |
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| pubmed-article:16089566 | pubmed:language | eng | lld:pubmed |
| pubmed-article:16089566 | pubmed:journal | http://linkedlifedata.com/r... | lld:pubmed |
| pubmed-article:16089566 | pubmed:citationSubset | IM | lld:pubmed |
| pubmed-article:16089566 | pubmed:chemical | http://linkedlifedata.com/r... | lld:pubmed |
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| pubmed-article:16089566 | pubmed:chemical | http://linkedlifedata.com/r... | lld:pubmed |
| pubmed-article:16089566 | pubmed:status | MEDLINE | lld:pubmed |
| pubmed-article:16089566 | pubmed:month | May | lld:pubmed |
| pubmed-article:16089566 | pubmed:issn | 1539-3755 | lld:pubmed |
| pubmed-article:16089566 | pubmed:author | pubmed-author:MoreiraA AAA | lld:pubmed |
| pubmed-article:16089566 | pubmed:author | pubmed-author:WidomJJ | lld:pubmed |
| pubmed-article:16089566 | pubmed:author | pubmed-author:GuimeràRR | lld:pubmed |
| pubmed-article:16089566 | pubmed:author | pubmed-author:AmaralL A NLA | lld:pubmed |
| pubmed-article:16089566 | pubmed:author | pubmed-author:Sales-PardoMM | lld:pubmed |
| pubmed-article:16089566 | pubmed:issnType | Print | lld:pubmed |
| pubmed-article:16089566 | pubmed:volume | 71 | lld:pubmed |
| pubmed-article:16089566 | pubmed:owner | NLM | lld:pubmed |
| pubmed-article:16089566 | pubmed:authorsComplete | Y | lld:pubmed |
| pubmed-article:16089566 | pubmed:pagination | 051902 | lld:pubmed |
| pubmed-article:16089566 | pubmed:dateRevised | 2010-9-20 | lld:pubmed |
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| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:meshHeading | pubmed-meshheading:16089566... | lld:pubmed |
| pubmed-article:16089566 | pubmed:year | 2005 | lld:pubmed |
| pubmed-article:16089566 | pubmed:articleTitle | Mesoscopic modeling for nucleic acid chain dynamics. | lld:pubmed |
| pubmed-article:16089566 | pubmed:affiliation | Department Chemical and Biological Engineering, Northwestern University, 2145 Sheridan Road, Evanston, IL 60208, USA. | lld:pubmed |
| pubmed-article:16089566 | pubmed:publicationType | Journal Article | lld:pubmed |
| pubmed-article:16089566 | pubmed:publicationType | Comparative Study | lld:pubmed |
| pubmed-article:16089566 | pubmed:publicationType | Research Support, U.S. Gov't, P.H.S. | lld:pubmed |
| pubmed-article:16089566 | pubmed:publicationType | Research Support, Non-U.S. Gov't | lld:pubmed |
| pubmed-article:16089566 | pubmed:publicationType | Evaluation Studies | lld:pubmed |
| pubmed-article:16089566 | pubmed:publicationType | Research Support, N.I.H., Extramural | lld:pubmed |
| pubmed-article:16089566 | pubmed:publicationType | Validation Studies | lld:pubmed |
