Identifying Differential Methylation in Cancer Epigenetics via a Bayesian Functional Regression Model Article Swipe
Farhad Shokoohi
,
David A. Stephens
,
Celia M.T. Greenwood
·
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.3390/biom14060639
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.3390/biom14060639
DNA methylation plays an essential role in regulating gene activity, modulating disease risk, and determining treatment response. We can obtain insight into methylation patterns at a single-nucleotide level via next-generation sequencing technologies. However, complex features inherent in the data obtained via these technologies pose challenges beyond the typical big data problems. Identifying differentially methylated cytosines (dmc) or regions is one such challenge. We have developed DMCFB, an efficient dmc identification method based on Bayesian functional regression, to tackle these challenges. Using simulations, we establish that DMCFB outperforms current methods and results in better smoothing and efficient imputation. We analyzed a dataset of patients with acute promyelocytic leukemia and control samples. With DMCFB, we discovered many new dmcs and, more importantly, exhibited enhanced consistency of differential methylation within islands and their adjacent shores. Additionally, we detected differential methylation at more of the binding sites of the fused gene involved in this cancer.
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- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.3390/biom14060639
- https://www.mdpi.com/2218-273X/14/6/639/pdf?version=1716987806
- OA Status
- gold
- Cited By
- 3
- References
- 63
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4399215565
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https://openalex.org/W4399215565Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.3390/biom14060639Digital Object Identifier
- Title
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Identifying Differential Methylation in Cancer Epigenetics via a Bayesian Functional Regression ModelWork title
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articleOpenAlex work type
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enPrimary language
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2024Year of publication
- Publication date
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2024-05-29Full publication date if available
- Authors
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Farhad Shokoohi, David A. Stephens, Celia M.T. GreenwoodList of authors in order
- Landing page
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https://doi.org/10.3390/biom14060639Publisher landing page
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https://www.mdpi.com/2218-273X/14/6/639/pdf?version=1716987806Direct link to full text PDF
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://www.mdpi.com/2218-273X/14/6/639/pdf?version=1716987806Direct OA link when available
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Computational biology, DNA methylation, Epigenetics, Methylation, Regression, Bayesian probability, Biology, Computer science, Gene, Genetics, Artificial intelligence, Mathematics, Gene expression, StatisticsTop concepts (fields/topics) attached by OpenAlex
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3Total citation count in OpenAlex
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2025: 2, 2023: 1Per-year citation counts (last 5 years)
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10Other works algorithmically related by OpenAlex
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