Detection of long repeat expansions from PCR-free whole-genome sequence data

E Dolzhenko, JJ Van Vugt, RJ Shaw… - Genome …, 2017 - genome.cshlp.org
Identifying large expansions of short tandem repeats (STRs), such as those that cause
amyotrophic lateral sclerosis (ALS) and fragile X syndrome, is challenging for short-read …

[HTML][HTML] ExpansionHunter Denovo: a computational method for locating known and novel repeat expansions in short-read sequencing data

E Dolzhenko, MF Bennett, PA Richmond, B Trost… - Genome biology, 2020 - Springer
Repeat expansions are responsible for over 40 monogenic disorders, and undoubtedly
more pathogenic repeat expansions remain to be discovered. Existing methods for detecting …

[HTML][HTML] 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 …

[HTML][HTML] Recent advances in the detection of repeat expansions with short-read next-generation sequencing

M Bahlo, MF Bennett, P Degorski, RM Tankard… - …, 2018 - ncbi.nlm.nih.gov
Short tandem repeats (STRs), also known as microsatellites, are commonly defined as
consisting of tandemly repeated nucleotide motifs of 2–6 base pairs in length. STRs appear …

[HTML][HTML] 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 …

Short tandem repeat expansions in sporadic amyotrophic lateral sclerosis and frontotemporal dementia

L Henden, LG Fearnley, N Grima, EP McCann… - Science …, 2023 - science.org
Pathogenic short tandem repeat (STR) expansions cause over 20 neurodegenerative
diseases. To determine the contribution of STRs in sporadic amyotrophic lateral sclerosis …

[HTML][HTML] Bioinformatics-based identification of expanded repeats: a non-reference intronic pentamer expansion in RFC1 causes CANVAS

H Rafehi, DJ Szmulewicz, MF Bennett… - The American Journal of …, 2019 - cell.com
Genomic technologies such as next-generation sequencing (NGS) are revolutionizing
molecular diagnostics and clinical medicine. However, these approaches have proven …

[HTML][HTML] 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 …

[HTML][HTML] Interrogating the “unsequenceable” genomic trinucleotide repeat disorders by long-read sequencing

Q Liu, P Zhang, D Wang, W Gu, K Wang - Genome medicine, 2017 - Springer
Microsatellite expansion, such as trinucleotide repeat expansion (TRE), is known to cause a
number of genetic diseases. Sanger sequencing and next-generation short-read …

[HTML][HTML] STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci

H Dashnow, BS Pedersen, L Hiatt, J Brown… - Genome Biology, 2022 - Springer
Expansions of short tandem repeats (STRs) cause many rare diseases. Expansion detection
is challenging with short-read DNA sequencing data since supporting reads are often …