SERS nanoparticles in medicine: from label-free detection to spectroscopic tagging

LA Lane, X Qian, S Nie - Chemical reviews, 2015 - ACS Publications
The development of diagnostic and therapeutic nanoparticles for biomedical applications is
of broad current interest in science, engineering, and medicine. The fundamental basis is …

[HTML][HTML] DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning

C Angermueller, HJ Lee, W Reik, O Stegle - Genome biology, 2017 - Springer
Recent technological advances have enabled DNA methylation to be assayed at single-cell
resolution. However, current protocols are limited by incomplete CpG coverage and hence …

YAP induces an oncogenic transcriptional program through TET1-mediated epigenetic remodeling in liver growth and tumorigenesis

BK Wu, SC Mei, EH Chen, Y Zheng, D Pan - Nature genetics, 2022 - nature.com
Epigenetic remodeling is essential for oncogene-induced cellular transformation and
malignancy. In contrast to histone post-translational modifications, how DNA methylation is …

Rationally engineered nucleic acid architectures for biosensing applications

M Xiao, W Lai, T Man, B Chang, L Li… - Chemical …, 2019 - ACS Publications
Development of biosensing platforms plays a key role in research settings for identification
of biomarkers and in clinical applications for diagnostics. Biosensors based on nucleic acids …

[HTML][HTML] The molecular hallmarks of the serrated pathway in colorectal cancer

FDE De Palma, V D'argenio, J Pol, G Kroemer… - Cancers, 2019 - mdpi.com
Colorectal cancer (CRC) is a leading cause of cancer death worldwide. It includes different
subtypes that differ in their clinical and prognostic features. In the past decade, in addition to …

[HTML][HTML] Cancer epigenetics: from mechanism to therapy

MA Dawson, T Kouzarides - cell, 2012 - cell.com
The epigenetic regulation of DNA-templated processes has been intensely studied over the
last 15 years. DNA methylation, histone modification, nucleosome remodeling, and RNA …

[HTML][HTML] Beyond GWASs: illuminating the dark road from association to function

SL Edwards, J Beesley, JD French… - The American Journal of …, 2013 - cell.com
Genome-wide association studies (GWASs) have enabled the discovery of common genetic
variation contributing to normal and pathological traits and clinical drug responses, but …

[HTML][HTML] A CRISPR-based approach for targeted DNA demethylation

X Xu, Y Tao, X Gao, L Zhang, X Li, W Zou, K Ruan… - Cell discovery, 2016 - nature.com
In mammalian cells, DNA methylation critically regulates gene expression and thus has
pivotal roles in myriad of physiological and pathological processes. Here we report a novel …

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

F Krueger, SR Andrews - bioinformatics, 2011 - academic.oup.com
A combination of bisulfite treatment of DNA and high-throughput sequencing (BS-Seq) can
capture a snapshot of a cell's epigenomic state by revealing its genome-wide cytosine …

DNA methylation methods: Global DNA methylation and methylomic analyses

S Li, TO Tollefsbol - Methods, 2021 - Elsevier
DNA methylation provides a pivotal layer of epigenetic regulation in eukaryotes that has
significant involvement for numerous biological processes in health and disease. The …