The paper identifies miR-QTLs in older adult brains and links four miRNAs to multiple neuropsychiatric and neurodegenerative diseases through integration with GWAS results.

bioRxiv · Sep 10, 2024 · PreprintGenetics

Large-Scale Deep Multi-Layer Analysis of Alzheimer's Disease Brain Reveals Strong Proteomic Disease-Related Changes Not Observed at the RNA Level

Erik C. B. Johnson, Kathleen Carter, Eric B. Dammer, Duc M. Duong, Ekaterina Sergeevna Gerasimov, Yue Liu, Jiaqi Liu, Ranjita S. Betarbet, Lingyan Ping, Luming Yin, Geidy E. Serrano, Thomas G. Beach, Junmin Peng, Philip L. De Jager, Vahram H. Haroutunian, , Nicholas T. Seyfried

The paper analyzes proteomic data from Alzheimer's disease brains, revealing disease-related changes not seen at the RNA level and identifying potential therapeutic targets.

Nature Neuroscience · Feb 1, 2022Peer-reviewedSystems Biology

Multi-Tissue Neocortical Transcriptome-Wide Associations Study Implicates 8 Genes Across 6 Genomic Loci in Alzheimer's Disease

Jake Gockley, Kelsey S. Montgomery, William L. Poehlman, Jesse C. Wiley, Yue Liu, Ekaterina Sergeevna Gerasimov, Anna K. Greenwood, Solveig K. Sieberts, Aliza P. Wingo, Thomas S. Wingo, Lara M. Mangravite, Benjamin A. Logsdon

This paper identifies 8 genes across 6 genomic loci associated with Alzheimer's disease risk using transcriptome-wide association study and validates them with summary Mendelian randomization.

Genome Medicine · May 4, 2021Peer-reviewedGenomics

Genetic control of the human brain proteome

Chloe Robins, Yue Liu, Wen Fan, Duc Minh Duong, Jacob Meigs, Nadia V. Harerimana, Ekaterina Sergeevna Gerasimov, Eric B. Dammer, David J. Cutler, Thomas G. Beach, Eric M. Reiman, Philip L. De Jager, David Alan Bennett, James J. Lah, Aliza P. Wingo, , Thomas S. Wingo

The paper identifies pQTLs for brain proteins and finds they differ from eQTLs, suggesting distinct genetic control of mRNA and protein abundance.

The American Journal of Human Genetics · Feb 10, 2021Peer-reviewedGenetics

Cerebral atherosclerosis contributes to Alzheimer’s dementia independently of its hallmark amyloid and tau pathologies

Aliza P. Wingo, Wen Fan, Duc Minh Duong, Ekaterina Sergeevna Gerasimov, Eric B. Dammer, Yue Liu, Nadia V. Harerimana, Bartholomew White, Madhav Thambisetty, Juan Carlos Troncoso, Namhee Kim, Julie A. Schneider, Ihab M. Hajjar, James J. Lah, David Alan Bennett, , Thomas S. Wingo

This study identifies 114 proteins and 5 modules linked to cerebral atherosclerosis in the brain, with 23 proteins and 2 modules also associated with Alzheimer’s dementia, highlighting shared mechanisms involving synaptic signaling and myelination.

Nature Neuroscience · May 18, 2020Peer-reviewedNeuroscience

Benchmarking of computational error-correction methods for next-generation sequencing data

Keith Mitchell, Jaqueline Brito, Igor Mandric, Qiaozhen Wu, Sergey Knyazev, Sei Chang, Lana S. Martin, Aaron Karlsberg, Ekaterina Sergeevna Gerasimov, Russell Littman, Brian L. Hill, Nicholas C. Wu, Harry Taegyun Yang, Kevin Hsieh, Linus Chen, , Serghei Mangul

This study benchmarks error-correction methods for next-generation sequencing data, finding significant variation in performance across datasets with no single method being optimal overall.

Genome biology · Mar 17, 2020Peer-reviewedBioinformatics

Brain microRNAs associated with late-life depressive symptoms are also associated with cognitive trajectory and dementia

Thomas S. Wingo, Jingjing Yang, Wen Fan, Se Min Canon, Ekaterina Sergeevna Gerasimov, Adriana Lori, Benjamin A. Logsdon, Bing Yao, Nicholas T. Seyfried, James J. Lah, Allan I. Levey, Patricia A. Boyle, Julia A. Schneider, Philip L. De Jager, David Alan Bennett, Aliza P. Wingo

The paper identifies brain microRNAs linked to late-life depressive symptoms and shows their association with cognitive decline and dementia risk.

npj Genomic Medicine · Feb 6, 2020Peer-reviewedGenomics