Enhanced Detection and Genotyping of Disease-Associated Tandem Repeats Using HMMSTR and Targeted Long-Read Sequencing

K Van Deynze, C Mumm, CJ Maltby, JA Switzenberg… - medRxiv, 2024 - medrxiv.org
Tandem repeat sequences comprise approximately 8% of the human genome and are
linked to more than 50 neurodegenerative disorders. Accurate characterization of disease …

Comprehensive genetic diagnosis of tandem repeat expansion disorders with programmable targeted nanopore sequencing

I Stevanovski, SR Chintalaphani, H Gamaarachchi… - Science …, 2022 - science.org
More than 50 neurological and neuromuscular diseases are caused by short tandem repeat
(STR) expansions, with 37 different genes implicated to date. We describe the use of …

TRiCoLOR: tandem repeat profiling using whole-genome long-read sequencing data

D Bolognini, A Magi, V Benes, JO Korbel… - Gigascience, 2020 - academic.oup.com
Background Tandem repeat sequences are widespread in the human genome, and their
expansions cause multiple repeat-mediated disorders. Genome-wide discovery approaches …

Detecting tandem repeat expansions using short-read sequencing for clinical use

MF Bennett, A Tucci, M Bahlo - Genomic structural variants in nervous …, 2022 - Springer
Repeat expansion disorders are a unique class of genetic diseases caused by expansions
of short tandem repeats. Until recently, these pathogenic variations were detected with locus …

Genome-wide detection of short tandem repeat expansions by long-read sequencing

Q Liu, Y Tong, K Wang - BMC bioinformatics, 2020 - Springer
Background Short tandem repeat (STR), or “microsatellite”, is a tract of DNA in which a
specific motif (typically< 10 base pairs) is repeated multiple times. STRs are abundant …

Tandem-genotypes: robust detection of tandem repeat expansions from long DNA reads

S Mitsuhashi, MC Frith, T Mizuguchi, S Miyatake… - Genome biology, 2019 - Springer
Tandemly repeated DNA is highly mutable and causes at least 31 diseases, but it is hard to
detect pathogenic repeat expansions genome-wide. Here, we report robust detection of …

Straglr: discovering and genotyping tandem repeat expansions using whole genome long-read sequences

R Chiu, IS Rajan-Babu, JM Friedman, I Birol - Genome Biology, 2021 - Springer
Tandem repeat (TR) expansion is the underlying cause of over 40 neurological disorders.
Long-read sequencing offers an exciting avenue over conventional technologies for …

NanoSatellite: accurate characterization of expanded tandem repeat length and sequence through whole genome long-read sequencing on PromethION

A De Roeck, W De Coster, L Bossaerts, R Cacace… - Genome biology, 2019 - Springer
Technological limitations have hindered the large-scale genetic investigation of tandem
repeats in disease. We show that long-read sequencing with a single Oxford Nanopore …

Detecting expansions of tandem repeats in cohorts sequenced with short-read sequencing data

RM Tankard, MF Bennett, P Degorski… - The American Journal of …, 2018 - cell.com
Repeat expansions cause more than 30 inherited disorders, predominantly neurogenetic.
These can present with overlapping clinical phenotypes, making molecular diagnosis …

Medically relevant tandem repeats in nanopore sequencing of control cohorts

W De Coster, I Hoijer, I Bruggeman, S D'Hert, M Melin… - medRxiv, 2024 - medrxiv.org
Research and diagnostics for medically relevant tandem repeats and repeat expansions are
hampered by the lack of population-scale databases. We attempt to fill this gap using our …