Song‐Lin Ding

Iterative co-creation of harmonized human and non-human primate cellular and structural ontologies and 3D common coordinate frameworks for the basal ganglia

The paper describes the iterative creation of harmonized ontologies and 3D frameworks for the basal ganglia across human and non-human primates to enable cross-species comparisons of cellular and molecular data.

Multiregional single-cell profiling reveals shared and specialized cellular vulnerability in Alzheimer's disease

This study uses single-nucleus RNA-seq, ATAC-seq, and Multiome to analyze Alzheimer's disease across multiple brain regions, revealing shared and region-specific cellular vulnerabilities.

Morphoelectric Diversity and Specialization of Neuronal Cell Types in the Primate Striatum

The paper analyzes multi-modal Patch-seq data from macaque striatum to reveal morphoelectric diversity and functional specialization of neuronal cell types, highlighting primate-specific features and differences from rodents.

A consensus spinal cord cell type atlas across mouse, macaque, and human

The paper creates a cross-species spinal cord cell type atlas integrating data from mouse, macaque, and human, identifying conserved and species-specific features.

Harmonized Protocol for Subfield Segmentation in the Hippocampal Body on High-Resolution in vivo MRI from the Hippocampal Subfields Group (HSG)

The paper develops a harmonized segmentation protocol for hippocampal subfields in MRI, improving cross-study comparisons and understanding of subfield structure and function.

A curvilinear coordinate flatmap for visualizing hippocampal structure and development

This paper introduces a curvilinear coordinate flatmap method to visualize hippocampal structure and development, revealing topographic variations obscured in standard coordinate systems.

Circuit specific specialization of human basal ganglia astrocytes

The paper defines major axes of human basal ganglia astrocyte specialization using a multimodal atlas and identifies enhancer code for targeted viral tools.

Cross-species consensus atlas of the primate basal ganglia

The paper creates a cross-species consensus atlas of primate basal ganglia cell types using multiomic data from human, macaque, and marmoset, identifying 61 conserved cell types and a novel hybrid medium spiny neuron type.

Characterization of hippocampal subfields using histology-based annotated postmortem MRI: Lessons for in vivo segmentation II

The paper characterizes hippocampal subfield border variability using postmortem MRI and histology, finding consistent subfield appearance/disappearance orders and no clear diagnosis-related differences.

Integrated Classification of Cortical Cells and Quantitative Projectomic Mapping Unveil Organizational Principles of Brain-Wide Connectomes at Single Cell Level

This study integrates molecular and morphological data to classify cortical neurons and map their connectomes, revealing organizational principles of brain-wide networks at the single-cell level.

Human BioMolecular Atlas Program (HuBMAP): 3D Human Reference Atlas Construction and Usage

This paper describes the construction and usage of the Human Reference Atlas (HRA) v2.0, which integrates multiscale data across 36 organs and provides tools for analysis and visualization.

Integrated multimodal cell atlas of Alzheimer's disease

This study creates an integrated multimodal cell atlas of Alzheimer's disease by analyzing single nuclei transcriptomes, epigenomes, and spatial coordinates across AD stages.

Identification of Intrinsic Features for Cortical Separability of Human and Mouse Neurons

This paper identifies intrinsic features that distinguish human and mouse cortical neurons, revealing significant differences in morphology, function, and separability across brain regions.

Comparison of histological delineations of medial temporal lobe cortices by four independent neuroanatomy laboratories

This paper compares cytoarchitectonic delineations of medial temporal lobe subregions by four neuroanatomists, finding higher agreement in some areas and less in others.

Transcriptomic cytoarchitecture reveals principles of human neocortex organization

The paper uses single nucleus RNA-sequencing to analyze human cortical areas, revealing cell type proportions and gene expression patterns that correlate with functional connectivity and areal specialization.

Comparative transcriptomics reveals human-specific cortical features

This study uses single nucleus transcriptomics to compare human and non-human primate cortical tissues, identifying human-specific gene expression patterns and their potential functional roles.

Transcriptomic diversity of cell types across the adult human brain

This study identifies 461 cell clusters and 3313 subclusters in the adult human brain using single-nucleus RNA sequencing, revealing regional diversity in neurons and astrocytes.

Localization and connectivity of rodent equivalent of the primate posterior cingulate cortex (area 23)

This study identifies the location and connectivity of the rodent equivalent of primate area 23, showing its role in integrating multimodal information and suggesting its use in modeling primate brain functions.

The BRAIN Initiative Cell Census Data Ecosystem: A User's Guide

The paper provides a guide to the BRAIN Initiative Cell Census Network (BICCN) data ecosystem, its tools, and resources for analyzing brain cell types across species.

Adversarial domain translation networks for fast and accurate integration of large-scale atlas-level single-cell datasets

Portal integrates large-scale single-cell datasets efficiently and accurately by preserving biological variation across samples, platforms, and species.

Chemo-architecture of area prostriata in adult and developing mice: comparison with presubiculum and parasubiculum

The paper examines gene expression patterns in the prostriata, PrSd-PoS, and PaS of adult and developing mice to define their chemo-architecture and compare them with other brain regions.

Evolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse

The paper compares cellular diversity in the primary motor cortex across human, marmoset, and mouse using single-nucleus transcriptomics and epigenomics, finding conserved cell types and species-specific adaptations.

A multimodal cell census and atlas of the mammalian primary motor cortex

The paper generates a multimodal cell census and atlas of the mammalian primary motor cortex, revealing a unified molecular genetic landscape and cross-species taxonomy of cell types.

Cellular resolution anatomical and molecular atlases for prenatal human brains

This study creates two high-resolution anatomical atlases of prenatal human brains at PCW 15 and 21, annotated with gene expression and cytoarchitecture to identify developmental features.

A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation

This study defines a comprehensive transcriptomic cell type taxonomy of the adult mouse isocortex and hippocampal formation using single-cell RNA-sequencing.

Distinct transcriptomic cell types and neural circuits of the subiculum and prosubiculum along the dorsal-ventral axis

The paper identifies 27 transcriptomic cell types in mouse subiculum and prosubiculum, defines their anatomical boundaries, and reveals distinct neural circuits and projections along the dorsal-ventral axis.

Human cortical expansion involves diversification and specialization of supragranular intratelencephalic-projecting neurons

The paper identifies transcriptomic diversity in human supragranular neurons and links it to functional specialization and disease vulnerability.

Transcriptomic evidence that von Economo neurons are regionally specialized extratelencephalic-projecting excitatory neurons

The paper identifies von Economo neurons as a regionally specialized subtype of extratelencephalic-projecting excitatory neurons using single nucleus RNA-sequencing and cross-species comparisons.

Conserved cell types with divergent features between human and mouse cortex

The paper compares cell types in human and mouse cortex using single nucleus RNA-sequencing, finding conserved architecture with species-specific differences.

Classification of electrophysiological and morphological types in mouse visual cortex

The paper classifies neurons in mouse visual cortex into 17 electrophysiological and 35 morphological types using unsupervised methods and links them to transcriptomic types.