DNA mechanical properties: Formulation and comparison with experiments

H. Dalir; T. Nisisako; Y. Yanagida; T. Hatsuzawa

DNA mechanical properties: Formulation and comparison with experiments

H. Dalir, T. Nisisako, Y. Yanagida, T. Hatsuzawa

Department of Mechanical & Aerospace Engineering

Research output: Chapter in Book/Entry/Poem › Conference contribution

Abstract

A general Newtonian elastic model for both single- and double-stranded DNA is proposed, and an explicit forceextension formula is introduced to characterize their deformations. The effective elastic properties of the DNA backbone are numerically extracted from the ss-DNA experiments. The mechanical properties of long ds-DNA molecules is then studied based on this model, where the base-stacking interactions and the hydrogen bond forces are also considered. Results are obtained by the explicit force-extension formula and good agreement with the single molecule experiments is achieved.

Original language	English (US)
Title of host publication	Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008
Pages	685-688
Number of pages	4
State	Published - 2008
Event	2008 NSTI Nanotechnology Conference and Trade Show, NSTI Nanotech 2008 Joint Meeting, Nanotechnology 2008 - Quebec City, QC, United States Duration: Jun 1 2008 → Jun 5 2008

Publication series

Name	Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008
Volume	3

Other

Other	2008 NSTI Nanotechnology Conference and Trade Show, NSTI Nanotech 2008 Joint Meeting, Nanotechnology 2008
Country/Territory	United States
City	Quebec City, QC
Period	6/1/08 → 6/5/08

Keywords

Base-stacking interactions
Double-helical DNA structure
Hydrogen bond forces
Mechanical properties
Single-molecule manipulation

ASJC Scopus subject areas

Mechanical Engineering

Cite this

Dalir, H., Nisisako, T., Yanagida, Y., & Hatsuzawa, T. (2008). DNA mechanical properties: Formulation and comparison with experiments. In Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008 (pp. 685-688). (Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008; Vol. 3).

DNA mechanical properties: Formulation and comparison with experiments. / Dalir, H.; Nisisako, T.; Yanagida, Y. et al.
Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008. 2008. p. 685-688 (Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008; Vol. 3).

Research output: Chapter in Book/Entry/Poem › Conference contribution

Dalir, H, Nisisako, T, Yanagida, Y & Hatsuzawa, T 2008, DNA mechanical properties: Formulation and comparison with experiments. in Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008. Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008, vol. 3, pp. 685-688, 2008 NSTI Nanotechnology Conference and Trade Show, NSTI Nanotech 2008 Joint Meeting, Nanotechnology 2008, Quebec City, QC, United States, 6/1/08.

Dalir H, Nisisako T, Yanagida Y, Hatsuzawa T. DNA mechanical properties: Formulation and comparison with experiments. In Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008. 2008. p. 685-688. (Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008).

Dalir, H. ; Nisisako, T. ; Yanagida, Y. et al. / DNA mechanical properties : Formulation and comparison with experiments. Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008. 2008. pp. 685-688 (Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008).

@inproceedings{50e50253d5fe4ca3ad9d9257cfeebc3f,

title = "DNA mechanical properties: Formulation and comparison with experiments",

abstract = "A general Newtonian elastic model for both single- and double-stranded DNA is proposed, and an explicit forceextension formula is introduced to characterize their deformations. The effective elastic properties of the DNA backbone are numerically extracted from the ss-DNA experiments. The mechanical properties of long ds-DNA molecules is then studied based on this model, where the base-stacking interactions and the hydrogen bond forces are also considered. Results are obtained by the explicit force-extension formula and good agreement with the single molecule experiments is achieved.",

keywords = "Base-stacking interactions, Double-helical DNA structure, Hydrogen bond forces, Mechanical properties, Single-molecule manipulation",

author = "H. Dalir and T. Nisisako and Y. Yanagida and T. Hatsuzawa",

year = "2008",

language = "English (US)",

isbn = "9781420085075",

series = "Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008",

pages = "685--688",

booktitle = "Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008",

note = "2008 NSTI Nanotechnology Conference and Trade Show, NSTI Nanotech 2008 Joint Meeting, Nanotechnology 2008 ; Conference date: 01-06-2008 Through 05-06-2008",

}

TY - GEN

T1 - DNA mechanical properties

T2 - 2008 NSTI Nanotechnology Conference and Trade Show, NSTI Nanotech 2008 Joint Meeting, Nanotechnology 2008

AU - Dalir, H.

AU - Nisisako, T.

AU - Yanagida, Y.

AU - Hatsuzawa, T.

PY - 2008

Y1 - 2008

N2 - A general Newtonian elastic model for both single- and double-stranded DNA is proposed, and an explicit forceextension formula is introduced to characterize their deformations. The effective elastic properties of the DNA backbone are numerically extracted from the ss-DNA experiments. The mechanical properties of long ds-DNA molecules is then studied based on this model, where the base-stacking interactions and the hydrogen bond forces are also considered. Results are obtained by the explicit force-extension formula and good agreement with the single molecule experiments is achieved.

AB - A general Newtonian elastic model for both single- and double-stranded DNA is proposed, and an explicit forceextension formula is introduced to characterize their deformations. The effective elastic properties of the DNA backbone are numerically extracted from the ss-DNA experiments. The mechanical properties of long ds-DNA molecules is then studied based on this model, where the base-stacking interactions and the hydrogen bond forces are also considered. Results are obtained by the explicit force-extension formula and good agreement with the single molecule experiments is achieved.

KW - Base-stacking interactions

KW - Double-helical DNA structure

KW - Hydrogen bond forces

KW - Mechanical properties

KW - Single-molecule manipulation

UR - http://www.scopus.com/inward/record.url?scp=52649094849&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=52649094849&partnerID=8YFLogxK

M3 - Conference contribution

AN - SCOPUS:52649094849

SN - 9781420085075

SN - 9781420085051

T3 - Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008

SP - 685

EP - 688

BT - Technical Proceedings of the 2008 NSTI Nanotechnology Conference and Trade Show, NSTI-Nanotech, Nanotechnology 2008

Y2 - 1 June 2008 through 5 June 2008

ER -

DNA mechanical properties: Formulation and comparison with experiments

Abstract

Publication series

Other

Keywords

ASJC Scopus subject areas

Other files and links

Fingerprint

Cite this