Genetic variants in transcription factor binding sites in humans: triggered by natural selection and triggers of diseases

CC Tseng, MC Wong, WT Liao, CJ Chen… - International Journal of …, 2021 - mdpi.com
Variants of transcription factor binding sites (TFBSs) constitute an important part of the
human genome. Current evidence demonstrates close links between nucleotides within …

Epigenomic approaches for the diagnosis of rare diseases

B Martinez-Delgado, MJ Barrero - Epigenomes, 2022 - mdpi.com
Rare diseases affect more than 300 million people worldwide. Diagnosing rare diseases is a
major challenge as they have different causes and etiologies. Careful assessment of clinical …

Genome-wide evaluation of the effect of short tandem repeat variation on local DNA methylation

A Martin-Trujillo, P Garg, N Patel, B Jadhav… - Genome …, 2023 - genome.cshlp.org
Short tandem repeats (STRs) contribute significantly to genetic diversity in humans,
including disease-causing variation. Although the effect of STR variation on gene …

Identification of mammalian transcription factors that bind to inaccessible chromatin

RT Pop, A Pisante, D Nagy, PCN Martin… - Nucleic Acids …, 2023 - academic.oup.com
Transcription factors (TFs) are proteins that affect gene expression by binding to regulatory
regions of DNA in a sequence specific manner. The binding of TFs to DNA is controlled by …

Pervasive cis effects of variation in copy number of large tandem repeats on local DNA methylation and gene expression

P Garg, A Martin-Trujillo, OL Rodriguez, SJ Gies… - The American Journal of …, 2021 - cell.com
Variable number tandem repeats (VNTRs) are composed of large tandemly repeated motifs,
many of which are highly polymorphic in copy number. However, because of their large size …

Epigenetic and genetic population structure is coupled in a marine invertebrate

K Silliman, LH Spencer, SJ White… - Genome Biology and …, 2023 - academic.oup.com
Delineating the relative influence of genotype and the environment on DNA methylation is
critical for characterizing the spectrum of organism fitness as driven by adaptation and …

Pollution induces epigenetic effects that are stably transmitted across multiple generations

E Harney, S Paterson, H Collin, BHK Chan… - Evolution …, 2022 - academic.oup.com
It has been hypothesized that the effects of pollutants on phenotypes can be passed to
subsequent generations through epigenetic inheritance, affecting populations long after the …

DNA methylation entropy is associated with DNA sequence features and developmental epigenetic divergence

Y Fang, Z Ji, W Zhou, J Abante… - Nucleic acids …, 2023 - academic.oup.com
Epigenetic information defines tissue identity and is largely inherited in development
through DNA methylation. While studied mostly for mean differences, methylation also …

Downregulation of circulating hsa-miR-200c-3p correlates with dyslipidemia in patients with stable coronary artery disease

C Vancheri, E Morini, FR Prandi, F Barillà… - International Journal of …, 2023 - mdpi.com
Coronary heart disease (CHD), one of the leading causes of disability and death worldwide,
is a multifactorial disease whose early diagnosis is demanding. Thus, biomarkers predicting …

The functional impact of rare variation across the regulatory cascade

T Li, N Ferraro, BJ Strober, F Aguet, S Kasela… - Cell Genomics, 2023 - cell.com
Each human genome has tens of thousands of rare genetic variants; however, identifying
impactful rare variants remains a major challenge. We demonstrate how use of personal …