Dynamic dysregulation of retrotransposons in neurodegenerative diseases at the single-cell level DOI
Wankun Deng, Citu Citu, Andi Liu

et al.

Genome Research, Journal Year: 2024, Volume and Issue: 34(10), P. 1687 - 1699

Published: Oct. 1, 2024

Retrotransposable elements (RTEs) are common mobile genetic comprising ∼42% of the human genome. RTEs play critical roles in gene regulation and function, but how they specifically involved complex diseases is largely unknown. Here, we investigate cellular heterogeneity using 12 single-cell transcriptome profiles covering three neurodegenerative diseases, Alzheimer's disease (AD), Parkinson's disease, multiple sclerosis. We identify cell type marker neurons, astrocytes, oligodendrocytes, oligodendrocyte precursor cells that related to these diseases. The differential expression analysis reveals landscape dysregulated RTE expression, especially L1s, excitatory neurons Machine learning algorithms for predicting stage a combination features suggests dynamic AD. Furthermore, construct atlas retrotransposable (scARE) data sets features. scARE has six feature modules explore dynamics user-defined condition. To our knowledge, represents first systematic investigation at level within context

Language: Английский

Computational analysis of DNA methylation from long-read sequencing DOI
Yilei Fu, Winston Timp, Fritz J. Sedlazeck

et al.

Nature Reviews Genetics, Journal Year: 2025, Volume and Issue: unknown

Published: March 28, 2025

Language: Английский

Citations

0
Novel Techniques for Mapping DNA Damage and Repair in the Brain DOI Open Access

Jenna Hedlich-Dwyer,

Joanne Allard,

Veronica E. Mulgrave

et al.

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(13), P. 7021 - 7021

Published: June 27, 2024

DNA damage in the brain is influenced by endogenous processes and metabolism along with exogenous exposures. Accumulation of can contribute to various neurological disorders, including neurodegenerative diseases neuropsychiatric disorders. Traditional methods for assessing brain, such as immunohistochemistry mass spectrometry, have provided valuable insights but are limited their inability map specific adducts regional distributions within or genome. Recent advancements detection offer new opportunities address these limitations further our understanding repair brain. Here, we review emerging techniques offering more precise sensitive ways detect quantify lesions neural cells. We highlight applications discuss potential determining role disease.

Language: Английский

Citations

1
Dynamic dysregulation of retrotransposons in neurodegenerative diseases at the single-cell level DOI
Wankun Deng, Citu Citu, Andi Liu

et al.

Genome Research, Journal Year: 2024, Volume and Issue: 34(10), P. 1687 - 1699

Published: Oct. 1, 2024

Retrotransposable elements (RTEs) are common mobile genetic comprising ∼42% of the human genome. RTEs play critical roles in gene regulation and function, but how they specifically involved complex diseases is largely unknown. Here, we investigate cellular heterogeneity using 12 single-cell transcriptome profiles covering three neurodegenerative diseases, Alzheimer's disease (AD), Parkinson's disease, multiple sclerosis. We identify cell type marker neurons, astrocytes, oligodendrocytes, oligodendrocyte precursor cells that related to these diseases. The differential expression analysis reveals landscape dysregulated RTE expression, especially L1s, excitatory neurons Machine learning algorithms for predicting stage a combination features suggests dynamic AD. Furthermore, construct atlas retrotransposable (scARE) data sets features. scARE has six feature modules explore dynamics user-defined condition. To our knowledge, represents first systematic investigation at level within context

Language: Английский

Citations

0