Yoshinari Ando

A Community-Driven Single-Cell PBMC Reference Integrating Landmark Datasets Spanning Health and Disease

HARP integrates PBMC data from multiple studies to create a reference atlas with consensus annotations and identifies age, sex, and disease-related cellular modules.

DAP12-deficient microglia adopt a TREM2-independent antigen-presenting state with a glial-to-neuronal cascade in Nasu-Hakola disease

The paper profiles NHD microglia and shows they adopt an antigen-presenting state without TREM2 dependence, triggering glial-to-neuronal changes.

Cellular Complexity and Systemic Immune Profiles across Ancestral Diversity in Thailand and Mainland Southeast Asia

The paper presents the first single-cell immune atlas of a Mainland Southeast Asian population, showing genetic ancestry shapes innate immune profiles and highlights sex-by-ancestry interactions in immune activation.

Federated single-cell QTL meta-analysis reveals novel disease mechanisms

The paper performs a federated cis-eQTL meta-analysis across single-cell datasets to identify cell-type-specific genetic effects and link them to disease mechanisms.

ASCL1 primes medullary thymic epithelial cell programs required for central tolerance

The paper identifies ASCL1 as a key regulator of mTEC function and central tolerance by analyzing single-cell RNA sequencing data from thymoma patients and mouse models.

Systematic evaluation of single-cell multimodal data integration for comprehensive human reference atlas.

This paper benchmarks multimodal single-cell data integration methods to improve kidney reference atlas quality by identifying adaptive states and rare cell types.

Single-cell analysis of human diversity in circulating immune cells

The paper presents AIDA, a diverse single-cell RNA-seq atlas of immune cells, revealing sub-continental diversity impacts on immune cell properties and identifying functional genetic variants.

Integrative Transcriptomics Reveals Layer 1 Astrocytes Altered in Schizophrenia

The paper identifies altered layer 1 astrocytes in schizophrenia using spatial and single-nucleus transcriptomics of the anterior cingulate cortex.

Transcriptome Regulation by PARP13 in Basal and Antiviral States in Human Cells

This study investigates PARP13's role in transcriptome regulation during basal and antiviral states, finding it shifts target localization but not binding preferences and supports ISGylation-related gene expression.

A single-cell atlas of transcribed cis-regulatory elements in the human genome

The paper constructs a single-cell atlas of transcribed cis-regulatory elements in the human genome, revealing gene regulation patterns and trait-gene relationships across cell populations.

Quantification of escape from X chromosome inactivation with single-cell omics datasets reveals heterogeneity across cell types and tissues

The paper introduces scLinaX, a method to quantify X chromosome inactivation escape using scRNA-seq, revealing heterogeneity across cell types and tissues.

Profiling of transcribed cis-regulatory elements in single cells

This paper introduces sc-end5-seq and SCAFE to profile transcribed cis-regulatory elements in single cells, showing tCREs improve prediction of CRE interactions and disease heritability.