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Enhancing resolution of natural methylome reprogramming behavior in plants

View ORCID ProfileRobersy Sanchez, View ORCID ProfileXiaodong Yang, Hardik Kundariya, Jose R Barreras, Yashitola Wamboldt, View ORCID ProfileSally A. Mackenzie
doi: https://doi.org/10.1101/252106
Robersy Sanchez
1Departments of Biology and Plant Science, The Pennsylvania State University, University Park, PA 16802
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Xiaodong Yang
1Departments of Biology and Plant Science, The Pennsylvania State University, University Park, PA 16802
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Hardik Kundariya
2Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE 68588
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Jose R Barreras
1Departments of Biology and Plant Science, The Pennsylvania State University, University Park, PA 16802
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Yashitola Wamboldt
2Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE 68588
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Sally A. Mackenzie
1Departments of Biology and Plant Science, The Pennsylvania State University, University Park, PA 16802
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  • ORCID record for Sally A. Mackenzie
  • For correspondence: sam795@psu.edu
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Abstract

We have developed a novel methylome analysis procedure, Methyl-IT, based on information thermodynamics and signal detection. Methylation analysis involves a signal detection problem, and the method was designed to discriminate methylation regulatory signal from background noise induced by thermal fluctuations. Comparison with three commonly used programs and various available datasets to furnish a comparative measure of resolution by each method is included. To confirm results, methylation analysis was integrated with RNAseq and network enrichment analyses. Methyl-IT enhances resolution of genome methylation behavior to reveal network-associated responses, offering resolution of gene pathway influences not attainable with previous methods.

Footnotes

  • Robersy Sanchez: rus547{at}psu.edu, Xiaodong Yang: xiaodongy86{at}gmail.com, Hardik Kundariya: kundariyahardik{at}gmail.com, Jose R Barreras: barreras{at}gmail.com, Yashitola Wamboldt: yashitola{at}yahoo.com, Sally Mackenzie: sam795{at}psu.edu

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted February 14, 2018.
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Enhancing resolution of natural methylome reprogramming behavior in plants
Robersy Sanchez, Xiaodong Yang, Hardik Kundariya, Jose R Barreras, Yashitola Wamboldt, Sally A. Mackenzie
bioRxiv 252106; doi: https://doi.org/10.1101/252106
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Enhancing resolution of natural methylome reprogramming behavior in plants
Robersy Sanchez, Xiaodong Yang, Hardik Kundariya, Jose R Barreras, Yashitola Wamboldt, Sally A. Mackenzie
bioRxiv 252106; doi: https://doi.org/10.1101/252106

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