Leon French

The misplaced mouse Pax6 interneuron subclass: A cross-species transcriptomic reassignment

The paper identifies a Pax6 interneuron subclass in mice through cross-species transcriptomic analysis and highlights primate-specific divergence in the Sncg subclass.

Cluster replicability in single-cell and single-nucleus atlases of the mouse brain

The paper evaluates cluster replicability across two mouse brain atlases using single-cell and single-nucleus RNA sequencing, identifying 2009 reciprocally matched clusters with consistent spatial and gene expression patterns.

Monocyte Lineage Expansion Drives Transcriptomic Individuality in Genetically Identical Armadillo Quadruplets

The paper shows transcriptomic individuality in genetically identical armadillo quadruplets is driven by monocyte lineage expansion and stable gene expression differences.

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.

Accurate spatial localization of Allen Human Brain Atlas gene expression data for human neuroimaging

This paper identifies inaccuracies in existing spatial coordinates for the Allen Human Brain Atlas and provides a refined coordinate set to improve gene expression integration with neuroimaging data.

Cross-expression meta-analysis of 695 brain samples reveals coordinated gene expression across spatially adjacent cells

The paper identifies coordinated gene expression between spatially adjacent cells across multiple brain datasets, revealing biological processes and potential therapeutic targets.

Organization of thalamocortical structural covariance and a corresponding 3D atlas of the mouse thalamus

This study examines thalamocortical structural covariance in mice, identifies six thalamic clusters, and shows their association with cortical connectivity and functional organization.

The transcriptional legacy of developmental stochasticity

Longitudinal gene expression in identical armadillo quadruplets reveals a major role for developmental stochasticity.

The Caribbean-Hispanic Alzheimer's Brain Transcriptome Reveals Ancestry-Specific Disease Mechanisms

The paper analyzes RNA-seq data from Caribbean-Hispanic Alzheimer's patients and controls to identify ancestry-specific gene expression patterns associated with disease.

LaminaRGeneVis: a tool to visualize gene expression across the laminar architecture of the human neocortex

LaminaRGeneVis visualizes gene expression across human neocortex layers using harmonized bulk, single-nucleus, and spatial RNA sequencing data.

Evaluation of deep convolutional neural networks for in situ hybridization gene expression image representation

The paper evaluates deep convolutional neural networks for representing in situ hybridization gene expression images, showing improved gene re-identification and predictive power for schizophrenia diagnosis.

Autism spectrum disorder trios from consanguineous populations are enriched for rare biallelic variants, identifying 32 new candidate genes

Myelin imaging of the basal forebrain in first-episode psychosis

The paper examines myelin and microstructural changes in basal forebrain cholinergic nuclei in first-episode psychosis using neuroimaging and transcriptomic data, finding disrupted correlations and clinical correlates.

A pH-eQTL interaction at the RIT2-SYT4 Parkinson's disease risk locus in the substantia nigra

The paper investigates the interaction between pH and the rs12456492 variant in the RIT2-SYT4 locus in the substantia nigra, finding pH-dependent gene expression effects specific to this region.

The spatial and cell-type distribution of SARS-CoV-2 receptor ACE2 in human and mouse brain

This study maps the spatial and cell-type distribution of ACE2 in human and mouse brains using transcriptomic data, revealing potential targets for SARS-CoV-2 infection in the central nervous system.

Differential and spatial expression meta-analysis of genes identified in genome-wide association studies of depression

The paper identifies 11 genes consistently differentially expressed in depression-associated studies and highlights sex-specific effects, particularly for MANEA in cerebral cortex regions.

Cellular correlates of cortical thinning throughout the lifespan

The paper links cortical thinning across the lifespan to gene expression profiles of specific cell types using gene expression data and MRI datasets.

Donor specific transcriptomic analysis of Alzheimer's disease associated hypometabolism highlights a unique donor, microglia, and ribosomal proteins

The paper identifies hypometabolic regions in Alzheimer's disease using PET data and links them to transcriptomic changes in a specific donor's brain, highlighting microglia and ribosomal proteins.

Susceptibility to gingipains and transcriptomic response to P. gingivalis highlights the ribosome, hypothalamus, and cholinergic neurons

The paper identifies genes susceptible to P. gingivalis gingipains and links them to Alzheimer's disease through ribosomal genes, hypothalamus, and cholinergic neurons.

Molecular neuroanatomy of anorexia nervosa

This study identifies brain regions and genes associated with anorexia nervosa using transcriptomic data and genetic variants.

White matter microstructure in women with acute and remitted anorexia nervosa: an exploratory neuroimaging study

This study examines white matter microstructure changes in women with acute and remitted anorexia nervosa using diffusion MRI, finding increased diffusivity indices in affected groups compared to healthy controls.

BDNF controls neuropsychiatric manifestation via autophagic regulation of p62 and GABAA receptor trafficking

This study shows that reduced BDNF leads to increased p62 and decreased GABAAR surface expression, contributing to behavioral deficits in mice, and suggests similar changes in human depression.

Structural covariance of brain region volumes is associated with both structural connectivity and transcriptomic similarity

The paper investigates structural covariance in mouse brain regions, finding that it is explained by distance, transcriptomic similarity, and connectivity, with varying contributions across brain areas.

Transcriptomic characterization of MRI contrast with focus on the T1-w/T2-w ratio in the cerebral cortex

The paper correlates gene expression with MRI signal intensity in the cerebral cortex, finding that T1-w/T2-w ratio is more strongly associated with protein size, satellite oligodendrocytes, and mitochondrial factors than myelin.

Mapping Autosomal Recessive Intellectual Disability: Combined Microarray and Exome Sequencing Identifies 26 Novel Candidate Genes in 192 Consanguineous Families

Semi-Automated Identification of Ontological Labels in the Biomedical Literature with goldi

The paper introduces goldi, an R package for identifying ontological terms in text, using word matching and an acceptance function.