Data from: Sequence-Dependent Persistence Length of Long DNA

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https://doi.org/10.13020/D6696N
https://hdl.handle.net/11299/191753

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Keywords

Persistence length

Biomolecules

DNA

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2014-08-18
2014-08-20

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Title

Data from: Sequence-Dependent Persistence Length of Long DNA

Published Date

2017-12-05

Authors

Chuang, Hui-Min

Reifenberger, Jeffrey G

Cao, Han

Dorfman, Kevin D

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Dorfman, Kevin D
dorfman@umn.edu

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Experimental Data
Genomics Data
Human Subjects Data
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Abstract

Using a high-throughput genome-mapping approach, we obtained circa 50 million measurements of the extension of internal human DNA segments in a 41 nm × 41 nm nanochannel. The underlying DNA sequences, obtained by mapping to the reference human genome, are 2.5–393 kilobase pairs long and contain percent GC contents between 32.5% and 60%. Using Odijk’s theory for a channel-confined wormlike chain, these data reveal that the DNA persistence length increases by almost 20% as the percent GC content increases. The increased persistence length is rationalized by a model, containing no adjustable parameters, that treats the DNA as a statistical terpolymer with a sequence-dependent intrinsic persistence length and a sequence-independent electrostatic persistence length.

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The data provided here contains experimental results, all Matlab codes for statistical analysis and for generating figures in the paper.

Referenced by

Reinhart, Wesley F., Jeff G. Reifenberger, Damini Gupta, Abhiram Muralidhar, Julian Sheats, Han Cao, and Kevin D. Dorfman. “Distribution of Distances between DNA Barcode Labels in Nanochannels Close to the Persistence Length.” The Journal of Chemical Physics 142, no. 6 (February 10, 2015): 064902.
https://doi.org/10.1063/1.4907552.
G. Reifenberger, Jeffrey, Kevin D. Dorfman, and Han Cao. “Topological Events in Single Molecules of E. Coli DNA Confined in Nanochannels.” Analyst 140, no. 14 (2015): 4887–94.
https://doi.org/10.1039/C5AN00343A.
“Genome-Wide Structural Variation Detection by Genome Mapping on Nanochannel Arrays | Genetics.” Accessed December 11, 2017. http://www.genetics.org/content/202/1/351.
https://doi.org/10.1534/genetics.115.183483
“Extensive Sequencing of Seven Human Genomes to Characterize Benchmark Reference Materials | Scientific Data.” Accessed December 11, 2017. https://www.nature.com/articles/sdata201625.
doi:10.1038/sdata.2016.25

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Data Repository for U of M (DRUM)
Dorfman Group Research Data

Funding information

National Institutes of Health under grants R01-HG006851

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Previously Published Citation

Suggested citation

Chuang, Hui-Min; Reifenberger, Jeffrey G; Cao, Han; Dorfman, Kevin D. (2017). Data from: Sequence-Dependent Persistence Length of Long DNA. Retrieved from the Data Repository for the University of Minnesota (DRUM), https://doi.org/10.13020/D6696N.

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