Guidelines for bioinformatics of single-cell sequencing data analysis in Alzheimer's disease: review, recommendation, implementation and application

M Wang, W Song, C Ming, Q Wang, X Zhou… - Molecular …, 2022 - Springer
Alzheimer's disease (AD) is the most common form of dementia, characterized by
progressive cognitive impairment and neurodegeneration. Extensive clinical and genomic …

[HTML][HTML] Neurodegeneration cell per cell

S Balusu, R Praschberger, E Lauwers, B De Strooper… - Neuron, 2023 - cell.com
The clinical definition of neurodegenerative diseases is based on symptoms that reflect
terminal damage of specific brain regions. This is misleading as it tells little about the initial …

Large-scale deep multi-layer analysis of Alzheimer's disease brain reveals strong proteomic disease-related changes not observed at the RNA level

ECB Johnson, EK Carter, EB Dammer, DM Duong… - Nature …, 2022 - nature.com
The biological processes that are disrupted in the Alzheimer's disease (AD) brain remain
incompletely understood. In this study, we analyzed the proteomes of more than 1,000 brain …

Proteomics analysis of plasma from middle-aged adults identifies protein markers of dementia risk in later life

KA Walker, J Chen, L Shi, Y Yang, M Fornage… - Science translational …, 2023 - science.org
A diverse set of biological processes have been implicated in the pathophysiology of
Alzheimer's disease (AD) and related dementias. However, there is limited understanding of …

Genome-wide meta-analysis, fine-map** and integrative prioritization implicate new Alzheimer's disease risk genes

J Schwartzentruber, S Cooper, JZ Liu… - Nature …, 2021 - nature.com
Genome-wide association studies have discovered numerous genomic loci associated with
Alzheimer's disease (AD); yet the causal genes and variants are incompletely identified. We …

Cell subtype-specific effects of genetic variation in the Alzheimer's disease brain

M Fujita, Z Gao, L Zeng, C McCabe, CC White, B Ng… - Nature Genetics, 2024 - nature.com
The relationship between genetic variation and gene expression in brain cell types and
subtypes remains understudied. Here, we generated single-nucleus RNA sequencing data …

Integrating human brain proteomes with genome-wide association data implicates new proteins in Alzheimer's disease pathogenesis

AP Wingo, Y Liu, ES Gerasimov, J Gockley… - Nature …, 2021 - nature.com
Genome-wide association studies (GWAS) have identified many risk loci for Alzheimer's
disease (AD),, but how these loci confer AD risk is unclear. Here, we aimed to identify loci …

Sex differences in brain protein expression and disease

AP Wingo, Y Liu, ES Gerasimov, SM Vattathil, J Liu… - Nature medicine, 2023 - nature.com
Most complex human traits differ by sex, but we have limited insight into the underlying
mechanisms. Here, we investigated the influence of biological sex on protein expression …

Brain proteome-wide association study implicates novel proteins in depression pathogenesis

TS Wingo, Y Liu, ES Gerasimov, J Gockley… - Nature …, 2021 - nature.com
Depression is a common condition, but current treatments are only effective in a subset of
individuals. To identify new treatment targets, we integrated depression genome-wide …

Single cell transcriptomes and multiscale networks from persons with and without Alzheimer's disease

Q Wang, J Antone, E Alsop, R Reiman, C Funk… - Nature …, 2024 - nature.com
The emergence of single nucleus RNA sequencing (snRNA-seq) offers to revolutionize the
study of Alzheimer's disease (AD). Integration with complementary multiomics data such as …