David A. Knowles

Career Trajectory

Research Cluster Map

Direct collaborators. Node size = influence, colour = community, dashed = past collaboration.

• An empirical Bayes framework for burden and dispersion association tests helps prioritize rare variants associated with Alzheimer’s disease

  medRxiv · 2026-06-25

• LRP2: A proteogenomics pipeline for long-read informed protein isoform analysis and discovery

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-05-31

• The New York Genome Center ALS Consortium resource integrates postmortem tissue transcriptomics and whole genome sequencing to empower biological discovery

  medRxiv · 2026-05-04 · 1 citations

• Abstract LB060: Systematic discovery and validation of tumor-specific splice isoforms in endometrial cancer

  Cancer Research · 2026-04-17

• Publisher Correction: A meta-analysis of single-nucleus expression quantitative trait loci linking genetic risk to brain disorders

  Nature Genetics · 2026-04-01

• A meta-analysis of single-nucleus expression quantitative trait loci linking genetic risk to brain disorders

  Nature Genetics · 2026-03-19 · 3 citations

• Learning Lineage-guided Geodesics with Finsler Geometry

  ArXiv.org · 2026-03-17

• Learning Lineage-guided Geodesics with Finsler GeometryPreprint

  arXiv (Cornell University) · 2026-03-17

• Mapping isoforms and regulatory mechanisms from spatial transcriptomics data with SPLISOSM

  Nature Biotechnology · 2026-01-05 · 1 citations

• Aging-associated alternative splicing programs conserved between human and mouse tissues

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-12-31

• Machine Learning-Based Prediction of Cell-type Resolved Brain eQTLs Enhances Discovery of Variants Explaining Alzheimer’s Disease Heritability

  medRxiv · 2025-12-04

• Robust Integration of Sparse Single-Cell Alternative Splicing and Gene Expression Data with SpliceVIPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-12-01 · 1 citations

• Distributional genetic effects reveal context-dependent molecular regulation in human brain aging and Alzheimer’s diseasePreprint

  Research Square · 2025-12-01

• Large-scale causal discovery using interventional data sheds light on gene network structure in k562 cells

  Nature Communications · 2025-10-31 · 4 citations

• Regulatory landscape of Alzheimer’s disease variants in human microgliaPreprint

  medRxiv · 2025-10-15 · 1 citations

• Meta-analysis of genetic regulation of RNA editing in the human brain identifies new genes underlying neurological diseasePreprint

  medRxiv · 2025-10-03 · 1 citations

• Inferring fungal cis-regulatory networks from genome sequences via unsupervised and interpretable representation learning

  Genetics · 2025-09-30

• Mapping genetic effects on splicing in ten thousand post-mortem brain samples reveals novel mediators of neurological disease riskPreprint

  medRxiv · 2025-09-26 · 2 citations

• Energy Guided Geometric Flow MatchingPreprint

  ArXiv.org · 2025-09-25

• Biobank-scale Bayesian TWAS reveals splicing-mediated mechanisms of complex diseasePreprint

  medRxiv · 2025-09-21