Navigating the pitfalls of mapping DNA and RNA modifications

Y Kong, EA Mead, G Fang - Nature Reviews Genetics, 2023 - nature.com
Chemical modifications to nucleic acids occur across the kingdoms of life and carry
important regulatory information. Reliable high-resolution mapping of these modifications is …

Epigenetic patterns in a complete human genome

A Gershman, MEG Sauria, X Guitart, MR Vollger… - Science, 2022 - science.org
The completion of a telomere-to-telomere human reference genome, T2T-CHM13, has
resolved complex regions of the genome, including repetitive and homologous regions …

[HTML][HTML] Simultaneous sequencing of genetic and epigenetic bases in DNA

J Füllgrabe, WS Gosal, P Creed, S Liu, CK Lumby… - Nature …, 2023 - nature.com
DNA comprises molecular information stored in genetic and epigenetic bases, both of which
are vital to our understanding of biology. Most DNA sequencing approaches address either …

[HTML][HTML] A signal processing and deep learning framework for methylation detection using Oxford Nanopore sequencing

MU Ahsan, A Gouru, J Chan, W Zhou… - Nature Communications, 2024 - nature.com
Oxford Nanopore sequencing can detect DNA methylations from ionic current signal of
single molecules, offering a unique advantage over conventional methods. Additionally …

[HTML][HTML] DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing

P Ni, F Nie, Z Zhong, J Xu, N Huang, J Zhang… - Nature …, 2023 - nature.com
Long single-molecular sequencing technologies, such as PacBio circular consensus
sequencing (CCS) and nanopore sequencing, are advantageous in detecting DNA 5 …

BISCUIT: an efficient, standards-compliant tool suite for simultaneous genetic and epigenetic inference in bulk and single-cell studies

W Zhou, BK Johnson, J Morrison… - Nucleic Acids …, 2024 - academic.oup.com
Data from both bulk and single-cell whole-genome DNA methylation experiments are under-
utilized in many ways. This is attributable to inefficient mapping of methylation sequencing …

[HTML][HTML] High Resolution Analysis of DMPK Hypermethylation and Repeat Interruptions in Myotonic Dystrophy Type 1

A Rasmussen, M Hildonen, J Vissing, M Duno, Z Tümer… - Genes, 2022 - mdpi.com
Myotonic dystrophy type 1 (DM1) is a multisystemic neuromuscular disorder caused by the
expansion of a CTG repeat in the 3′-UTR of DMPK, which is transcribed to a toxic gain-of …

[HTML][HTML] The Sequencing Quality Control 2 study: establishing community standards for sequencing in precision medicine

TR Mercer, J Xu, CE Mason, W Tong… - Genome Biology, 2021 - Springer
The MicroArray and Sequencing Quality Control (MAQC) consortium is a FDA-led,
community-wide effort to evaluate the use of genomic technologies in clinical applications …

A noninvasive method for whole-genome skin methylome profiling

C Banila, D Green, D Katsanos, J Viana… - British Journal of …, 2023 - academic.oup.com
Background Ageing, disease and malignant transformation of the skin are associated with
changes in DNA methylation. So far, mostly invasive methodologies such as biopsies have …

[HTML][HTML] OMICmAge: An integrative multi-omics approach to quantify biological age with electronic medical records

Q Chen, VB Dwaraka, N Carreras-Gallo, K Mendez… - bioRxiv, 2023 - ncbi.nlm.nih.gov
Biological aging is a multifactorial process involving complex interactions of cellular and
biochemical processes that is reflected in omic profiles. Using common clinical laboratory …