Sequence composition changes in short tandem repeats: heterogeneity, detection, mechanisms and clinical implications

IS Rajan-Babu, E Dolzhenko, MA Eberle… - Nature Reviews …, 2024 - nature.com
Short tandem repeats (STRs) are a class of repetitive elements, composed of tandem arrays
of 1–6 base pair sequence motifs, that comprise a substantial fraction of the human genome …

Insertions and deletions: Computational methods, evolutionary dynamics, and biological applications

BD Redelings, I Holmes, G Lunter… - Molecular biology …, 2024 - academic.oup.com
Insertions and deletions constitute the second most important source of natural genomic
variation. Insertions and deletions make up to 25% of genomic variants in humans and are …

Reconstruction of the human amylase locus reveals ancient duplications seeding modern-day variation

F Yilmaz, C Karageorgiou, K Kim, P Pajic, K Scheer… - Science, 2024 - science.org
Previous studies suggested that the copy number of the human salivary amylase gene,
AMY1, correlates with starch-rich diets. However, evolutionary analyses are hampered by …

Neurological disorders caused by novel non-coding repeat expansions: clinical features and differential diagnosis

E Vegezzi, H Ishiura, DC Bragg, D Pellerin… - The Lancet …, 2024 - thelancet.com
Nucleotide repeat expansions in the human genome are a well-known cause of
neurological disease. In the past decade, advances in DNA sequencing technologies have …

A familial, telomere-to-telomere reference for human de novo mutation and recombination from a four-generation pedigree

D Porubsky, H Dashnow, TA Sasani, GA Logsdon… - …, 2024 - pmc.ncbi.nlm.nih.gov
Using five complementary short-and long-read sequencing technologies, we phased and
assembled> 95% of each diploid human genome in a four-generation, 28-member family …

WebSTR: a population-wide database of short tandem repeat variation in humans

OS Lundström, MA Verbiest, F **a, HZ Jam… - Journal of molecular …, 2023 - Elsevier
Short tandem repeats (STRs) are consecutive repetitions of one to six nucleotide motifs.
They are hypervariable due to the high prevalence of repeat unit insertions or deletions …

Short Tandem Repeats in the era of next-generation sequencing: from historical loci to population databases

K Uguen, JL Michaud, E Génin - European Journal of Human Genetics, 2024 - nature.com
In this study, we explore the landscape of short tandem repeats (STRs) within the human
genome through the lens of evolving technologies to detect genomic variations. STRs, which …

Advancements in copy number variation screening in herbivorous livestock genomes and their association with phenotypic traits

X Liu, W Chen, B Huang, X Wang, Y Peng… - Frontiers in veterinary …, 2024 - frontiersin.org
Copy number variations (CNVs) have garnered increasing attention within the realm of
genetics due to their prevalence in human, animal, and plant genomes. These structural …

Short tandem repeat mutations regulate gene expression in colorectal cancer

MA Verbiest, O Lundström, F **a, M Baudis… - Scientific Reports, 2024 - nature.com
Short tandem repeat (STR) mutations are prevalent in colorectal cancer (CRC), especially in
tumours with the microsatellite instability (MSI) phenotype. While STR length variations are …

Statistical Genomics Analysis of Simple Sequence Repeats from the Paphiopedilum Malipoense Transcriptome Reveals Control Knob Motifs Modulating Gene …

Y Liang, J Hao, J Wang, G Zhang, Y Su… - Advanced …, 2024 - Wiley Online Library
Simple sequence repeats (SSRs) are found in nonrandom distributions in genomes and are
thought to impact gene expression. The distribution patterns of 48 295 SSRs of …