Variant interpretation using population databases: Lessons from gnomAD

S Gudmundsson, M Singer‐Berk, NA Watts… - Human …, 2022 - Wiley Online Library
Reference population databases are an essential tool in variant and gene interpretation.
Their use guides the identification of pathogenic variants amidst the sea of benign variation …

[HTML][HTML] The role of zinc in antiviral immunity

SA Read, S Obeid, C Ahlenstiel, G Ahlenstiel - Advances in nutrition, 2019 - Elsevier
Zinc is an essential trace element that is crucial for growth, development, and the
maintenance of immune function. Its influence reaches all organs and cell types …

Hyenadna: Long-range genomic sequence modeling at single nucleotide resolution

E Nguyen, M Poli, M Faizi, A Thomas… - Advances in neural …, 2024 - proceedings.neurips.cc
Genomic (DNA) sequences encode an enormous amount of information for gene regulation
and protein synthesis. Similar to natural language models, researchers have proposed …

The UCSC genome browser database: 2023 update

LR Nassar, GP Barber, A Benet-Pagès… - Nucleic acids …, 2023 - academic.oup.com
Abstract The UCSC Genome Browser (https://genome. ucsc. edu) is an omics data
consolidator, graphical viewer, and general bioinformatics resource that continues to serve …

The complete sequence of a human Y chromosome

A Rhie, S Nurk, M Cechova, SJ Hoyt, DJ Taylor… - Nature, 2023 - nature.com
The human Y chromosome has been notoriously difficult to sequence and assemble
because of its complex repeat structure that includes long palindromes, tandem repeats and …

[HTML][HTML] Integrated multimodal cell atlas of Alzheimer's disease

MI Gabitto, KJ Travaglini, VM Rachleff, ES Kaplan… - Nature …, 2024 - nature.com
Alzheimer's disease (AD) is the leading cause of dementia in older adults. Although AD
progression is characterized by stereotyped accumulation of proteinopathies, the affected …

Exon architecture controls mRNA m6A suppression and gene expression

PC He, J Wei, X Dou, BT Harada, Z Zhang, R Ge, C Liu… - Science, 2023 - science.org
N 6-methyladenosine (m6A) is the most abundant messenger RNA (mRNA) modification
and plays crucial roles in diverse physiological processes. Using a massively parallel assay …

Evolutionary constraint and innovation across hundreds of placental mammals

MJ Christmas, IM Kaplow, DP Genereux, MX Dong… - Science, 2023 - science.org
Zoonomia is the largest comparative genomics resource for mammals produced to date. By
aligning genomes for 240 species, we identify bases that, when mutated, are likely to affect …

The complete sequence of a human genome

S Nurk, S Koren, A Rhie, M Rautiainen, AV Bzikadze… - Science, 2022 - science.org
Since its initial release in 2000, the human reference genome has covered only the
euchromatic fraction of the genome, leaving important heterochromatic regions unfinished …

Effective gene expression prediction from sequence by integrating long-range interactions

Ž Avsec, V Agarwal, D Visentin, JR Ledsam… - Nature …, 2021 - nature.com
How noncoding DNA determines gene expression in different cell types is a major unsolved
problem, and critical downstream applications in human genetics depend on improved …