CpG + CpNpG Analysis of Protein-Coding Sequences from Tomato

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

CpG + CpNpG Analysis of Protein-Coding Sequences from Tomato. / Hobolth, Asger; Nielsen, Rasmus; Wang, Ying; Wu, Feinan; Tanksley, Steven D.

In: Molecular Biology and Evolution, Vol. 23, No. 6, 2006, p. 1318-1323.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Hobolth, A, Nielsen, R, Wang, Y, Wu, F & Tanksley, SD 2006, 'CpG + CpNpG Analysis of Protein-Coding Sequences from Tomato', Molecular Biology and Evolution, vol. 23, no. 6, pp. 1318-1323. https://doi.org/10.1093/molbev/msk017

APA

Hobolth, A., Nielsen, R., Wang, Y., Wu, F., & Tanksley, S. D. (2006). CpG + CpNpG Analysis of Protein-Coding Sequences from Tomato. Molecular Biology and Evolution, 23(6), 1318-1323. https://doi.org/10.1093/molbev/msk017

Vancouver

Hobolth A, Nielsen R, Wang Y, Wu F, Tanksley SD. CpG + CpNpG Analysis of Protein-Coding Sequences from Tomato. Molecular Biology and Evolution. 2006;23(6):1318-1323. https://doi.org/10.1093/molbev/msk017

Author

Hobolth, Asger ; Nielsen, Rasmus ; Wang, Ying ; Wu, Feinan ; Tanksley, Steven D. / CpG + CpNpG Analysis of Protein-Coding Sequences from Tomato. In: Molecular Biology and Evolution. 2006 ; Vol. 23, No. 6. pp. 1318-1323.

Bibtex

@article{220cfd706c3711dcbee902004c4f4f50,
title = "CpG + CpNpG Analysis of Protein-Coding Sequences from Tomato",
abstract = "We develop codon-based models for simultaneously inferring the mutational effects of CpG and CpNpG methylation in coding regions. In a data set of 369 tomato genes, we show that there is very little effect of CpNpG methylation but a strong effect of CpG methylation affecting almost all genes. We further show that the CpNpG and CpG effects are largely uncorrelated. Our results suggest different roles of CpG and CpNpG methylation, with CpNpG methylation possibly playing a specialized role in defense against transposons and RNA viruses. ",
author = "Asger Hobolth and Rasmus Nielsen and Ying Wang and Feinan Wu and Tanksley, {Steven D.}",
note = "codon model • context dependency • CpG + CpNpG methylation",
year = "2006",
doi = "10.1093/molbev/msk017",
language = "English",
volume = "23",
pages = "1318--1323",
journal = "Molecular Biology and Evolution",
issn = "0737-4038",
publisher = "Oxford University Press",
number = "6",

}

RIS

TY - JOUR

T1 - CpG + CpNpG Analysis of Protein-Coding Sequences from Tomato

AU - Hobolth, Asger

AU - Nielsen, Rasmus

AU - Wang, Ying

AU - Wu, Feinan

AU - Tanksley, Steven D.

N1 - codon model • context dependency • CpG + CpNpG methylation

PY - 2006

Y1 - 2006

N2 - We develop codon-based models for simultaneously inferring the mutational effects of CpG and CpNpG methylation in coding regions. In a data set of 369 tomato genes, we show that there is very little effect of CpNpG methylation but a strong effect of CpG methylation affecting almost all genes. We further show that the CpNpG and CpG effects are largely uncorrelated. Our results suggest different roles of CpG and CpNpG methylation, with CpNpG methylation possibly playing a specialized role in defense against transposons and RNA viruses.

AB - We develop codon-based models for simultaneously inferring the mutational effects of CpG and CpNpG methylation in coding regions. In a data set of 369 tomato genes, we show that there is very little effect of CpNpG methylation but a strong effect of CpG methylation affecting almost all genes. We further show that the CpNpG and CpG effects are largely uncorrelated. Our results suggest different roles of CpG and CpNpG methylation, with CpNpG methylation possibly playing a specialized role in defense against transposons and RNA viruses.

U2 - 10.1093/molbev/msk017

DO - 10.1093/molbev/msk017

M3 - Journal article

C2 - 16600999

VL - 23

SP - 1318

EP - 1323

JO - Molecular Biology and Evolution

JF - Molecular Biology and Evolution

SN - 0737-4038

IS - 6

ER -

ID: 1096143