A guide for the diagnosis of rare and undiagnosed disease: beyond the exome

S Marwaha, JW Knowles, EA Ashley - Genome medicine, 2022 - Springer
Rare diseases affect 30 million people in the USA and more than 300–400 million
worldwide, often causing chronic illness, disability, and premature death. Traditional …

Towards population-scale long-read sequencing

W De Coster, MH Weissensteiner… - Nature Reviews …, 2021 - nature.com
Long-read sequencing technologies have now reached a level of accuracy and yield that
allows their application to variant detection at a scale of tens to thousands of samples …

A draft human pangenome reference

WW Liao, M Asri, J Ebler, D Doerr, M Haukness… - Nature, 2023 - nature.com
Abstract Here the Human Pangenome Reference Consortium presents a first draft of the
human pangenome reference. The pangenome contains 47 phased, diploid assemblies …

Building pangenome graphs

E Garrison, A Guarracino, S Heumos, F Villani, Z Bao… - Nature …, 2024 - nature.com
Pangenome graphs can represent all variation between multiple reference genomes, but
current approaches to build them exclude complex sequences or are based upon a single …

Haplotype-resolved diverse human genomes and integrated analysis of structural variation

P Ebert, PA Audano, Q Zhu, B Rodriguez-Martin… - Science, 2021 - science.org
INTRODUCTION The characterization of the full spectrum of genetic variation is critical to
understanding human health and disease. Recent technological advances have made it …

Long-read mapping to repetitive reference sequences using Winnowmap2

C Jain, A Rhie, NF Hansen, S Koren, AM Phillippy - Nature Methods, 2022 - nature.com
Abstract Approximately 5–10% of the human genome remains inaccessible due to the
presence of repetitive sequences such as segmental duplications and tandem repeat arrays …

Ensembl Genomes 2020—enabling non-vertebrate genomic research

KL Howe, B Contreras-Moreira, N De Silva… - Nucleic acids …, 2020 - academic.oup.com
Abstract Ensembl Genomes (http://www. ensemblgenomes. org) is an integrating resource
for genome-scale data from non-vertebrate species, complementing the resources for …

Genome evolution across 1,011 Saccharomyces cerevisiae isolates

J Peter, M De Chiara, A Friedrich, JX Yue, D Pflieger… - Nature, 2018 - nature.com
Large-scale population genomic surveys are essential to explore the phenotypic diversity of
natural populations. Here we report the whole-genome sequencing and phenotyping of …

A modern primer on processing in memory

O Mutlu, S Ghose, J Gómez-Luna… - … computing: from devices …, 2022 - Springer
Modern computing systems are overwhelmingly designed to move data to computation. This
design choice goes directly against at least three key trends in computing that cause …

Variation graph toolkit improves read mapping by representing genetic variation in the reference

E Garrison, J Sirén, AM Novak, G Hickey… - Nature …, 2018 - nature.com
Reference genomes guide our interpretation of DNA sequence data. However, conventional
linear references represent only one version of each locus, ignoring variation in the …