Global mapping of cancers: The Cancer Genome Atlas and beyond

C Ganini, I Amelio, R Bertolo, P Bove… - Molecular …, 2021 - Wiley Online Library
Cancer genomes have been explored from the early 2000s through massive exome
sequencing efforts, leading to the publication of The Cancer Genome Atlas in 2013 …

Mutation bias reflects natural selection in Arabidopsis thaliana

JG Monroe, T Srikant, P Carbonell-Bejerano, C Becker… - Nature, 2022 - nature.com
Since the first half of the twentieth century, evolutionary theory has been dominated by the
idea that mutations occur randomly with respect to their consequences. Here we test this …

[HTML][HTML] Epigenetic modification impacting brain functions: Effects of physical activity, micronutrients, caffeine, toxins, and addictive substances

R Mallick, AK Duttaroy - Neurochemistry International, 2023 - Elsevier
Abstract Changes in gene expression are involved in many brain functions. Epigenetic
processes modulate gene expression by histone modification and DNA methylation or RNA …

Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Y Liang, H He, W Wang, H Wang, S Mo, R Fu, X Liu… - Molecular Cancer, 2022 - Springer
Background Multiple myeloma (MM) is a heterogeneous disease with different patterns of
clonal evolution and a complex tumor microenvironment, representing a challenge for …

Single-cell methylation analysis of brain tissue prioritizes mutations that alter transcription

J Flint, MG Heffel, Z Chen, J Mefford, E Marcus… - Cell Genomics, 2023 - cell.com
Relating genetic variants to behavior remains a fundamental challenge. To assess the utility
of DNA methylation marks in discovering causative variants, we examined their relationship …

De Novo Mutation Rates in Sticklebacks

C Zhang, K Reid, AF Sands, A Fraimout… - Molecular Biology …, 2023 - academic.oup.com
Mutation rate is a fundamental parameter in population genetics. Apart from being an
important scaling parameter for demographic and phylogenetic inference, it allows one to …

Association of methylenetetrahydrofolate reductase (MTHFR) rs1801133 (677C> T) gene polymorphism with ischemic stroke risk in different populations: An updated …

L Zhao, T Li, M Dang, Y Li, H Fan, Q Hao, D Song… - Frontiers in …, 2023 - frontiersin.org
Background: Recently, increasing evidence has implicated methylenetetrahydrofolate
reductase (MTHFR) gene mutation as a risk factor for ischemic stroke (IS) in the general …

Whole human genome 5'-mC methylation analysis using long read nanopore sequencing

C Silva, M Machado, J Ferrão… - Epigenetics, 2022 - Taylor & Francis
Methylation microarray and bisulphite sequencing are often used to study 5'-methylcytosine
(5'-mC) modification of CpG dinucleotides in the human genome. Although both …

Mutation bias shapes gene evolution in Arabidopsis thaliana

JG Monroe, T Srikant, P Carbonell-Bejerano… - BioRxiv, 2020 - biorxiv.org
Classical evolutionary theory maintains that mutation rate variation between genes should
be random with respect to fitness–and evolutionary optimization of genic mutation rates …

TET1 displays catalytic and non-catalytic functions in the adult mouse cortex

YH Foong, B Caldwell, JL Thorvaldsen, C Krapp… - Epigenetics, 2024 - Taylor & Francis
ABSTRACT TET1/2/3 dioxygenases iteratively demethylate 5-methylcytosine, beginning
with the formation of 5-hydroxymethylcytosine (5hmC). The post-mitotic brain maintains …