ASOFormer predicts ASO efficacy using sequence, structure, and modification features, outperforming existing methods in accuracy and candidate prioritization.

bioRxiv · Sep 24, 2026 · PreprintBioinformatics

Integrative Epigenomic Landscape of Alzheimer's Disease Brains Reveals Oligodendrocyte Molecular Perturbations Associated with Tau

Stephanie R. Oatman, Joseph S. Reddy, Amin Atashgaran, X. Wang, Yuhao Min, Zachary Quicksall, Floor Vanelderen, Minerva M. Carrasquillo, Chia‐Chen Liu, Yu Yamazaki, Thuy T. Nguyen, Michael M. Heckman, Na Zhao, Michael A. Deture, Melissa Erin Murray, , Nilüfer Ertekin‐Taner

The paper identifies epigenetic changes in Alzheimer's disease brains linked to tau pathology, highlighting oligodendrocyte gene perturbations as a potential common mechanism across tauopathies.

Nature Communications · Mar 3, 2026Peer-reviewedGenomics

Tau-seed interactome analysis reveals distinct functional signatures in Alzheimer's disease across model systems.

Pablo Martínez, Henika Patel, Yanwen You, Daniella Lopes, Armando Amaro, Nur Jury, Yuhao Min, Javier Redding‐Ochoa, Sayan Dutta, Jean‐Christophe Rochet, Nilüfer Ertekin‐Taner, Juan Carlos Troncoso, Cristian A. Lasagna‐Reeves

The paper identifies distinct protein interactors of Tau-seed in AD across species and brain regions, highlighting functional differences in Tau propagation.

bioRxiv · Jun 17, 2025 · PreprintNeuroscience

ABCA7-dependent Neuropeptide-Y signalling is a resilience mechanism required for synaptic integrity in Alzheimer's disease

Hüseyin Tayran, Elanur Yılmaz, Prabesh Bhattarai, Yuhao Min, Xue Wang, Yiyi Ma, Ni Wang, Inyoung Jeong, Nastasia N. Nelson, Nada Kassara, Mehmet İlyas Coşacak, Rüya Merve Dogru, Dolly Reyes‐Dumeyer, Jakob Mørkved Stenersen, Joseph S. Reddy, , Çağhan Kızıl

This study identifies ABCA7-dependent neuropeptide Y signaling as a resilience mechanism critical for synaptic integrity and its disruption as a risk factor for Alzheimer's disease.

Cell Genomics · Aug 30, 2024Peer-reviewedNeuroscience

Ngfr suppresses Lcn2/Slc22a17 signaling, induces neurogenesis and reduces amyloid pathology in the hippocampus of APP/PS1dE9 mouse

Tohid Siddiqui, Mehmet İlyas Coşacak, Stanislava Dimitrova Popova, Prabesh Bhattarai, Elanur Yılmaz, Annie Lee, Yuhao Min, Xue Wang, Mariet Allen, Özkan İş, Zeynep Tansu Atasavum, Natalia Rodríguez‐Muela, Badri Narayan Vardarajan, Delaney Flaherty, Andrew F. Teich, , Çağhan Kızıl

The paper shows that Ngfr promotes neurogenesis and reduces amyloid pathology in AD mouse models by suppressing Lcn2/Slc22a17 signaling.

npj Regenerative Medicine · Jul 10, 2023Peer-reviewedNeuroscience

Single Nuclei Transcriptome Reveals Perturbed Brain Vascular Molecules in Alzheimer's Disease

Özkan İş, Xue Wang, Tulsi Patel, Zachary Quicksall, Michael G. Heckman, Launia J. White, Laura J. Lewis‐Tuffin, Kaancan Deniz, Frederick Q Tutor‐New, Troy Carnwath, Yuhao Min, Stephanie R. Oatman, Joseph S. Reddy, Minerva M. Carrasquillo, Thuy Nguyen, , Nilüfer Ertekin‐Taner

The paper uses single nucleus RNA sequencing to analyze brain vascular cells in Alzheimer's disease, identifying molecular changes and interactions between vascular and astrocytic cells at the blood-brain barrier.

bioRxiv · Dec 28, 2021 · PreprintNeuroscience

Transcriptional landscape of human microglia reveals robust gene expression signatures that implicates age, sex and APOE-related immunometabolic pathway perturbations

Tulsi Patel, Troy Carnwath, Xue Wang, Mariet Allen, Sarah Lincoln, Laura J. Lewis‐Tuffin, Zachary Quicksall, Shu Lin, Frederick Q Tutor‐New, Charlotte C.G. Ho, Yuhao Min, Kimberly G. Malphrus, Thuy Nguyen, Elizabeth Martin, César A. Garcia, , Nilüfer Ertekin‐Taner

The paper characterizes human microglia transcriptomes and identifies gene expression signatures linked to age, sex, and APOE-ε4, revealing immunometabolic pathway perturbations in neurodegeneration.

bioRxiv · May 13, 2021 · PreprintGenetics