Madhavi Tippani

Overlapping yet distinct spatiomolecular profiles across mood disorders and biological sex in the human prefrontal cortex

The paper uses spatial transcriptomics to analyze molecular differences in mood disorders and biological sex in the human prefrontal cortex, identifying sex- and disorder-specific gene expression patterns.

Multiscale spatial transcriptomics resolves the cellular and molecular architecture of the human amygdala

This study creates a spatial transcriptomic atlas of the human amygdala, revealing distinct cell types and genetic risk localization across its subnuclei.

Spatiomolecular mapping reveals anatomical organization of heterogeneous cell types in the human nucleus accumbens

This study creates a spatiomolecular atlas of the human nucleus accumbens using spatial transcriptomics and single-nucleus RNA sequencing, revealing spatial gradients and conserved features across species.

Spatio-molecular gene expression reflects dorsal anterior cingulate cortex structure and function in the human brain

The paper integrates spatial transcriptomics and single-nucleus RNA-seq data from the human dACC to define molecular profiles, spatial domains, and functional insights.

Mapping spatially organized molecular and genetic signatures of schizophrenia across multiple scales in human prefrontal cortex

This study maps molecular and genetic signatures of schizophrenia in human prefrontal cortex across spatial scales, revealing altered BDNF-TrkB signaling and inhibitory circuit dysfunction.

Impact of Alzheimer's disease risk factors and local neuromelanin content on the transcriptomic landscape of the human locus coeruleus

The paper analyzes the transcriptomic landscape of the human locus coeruleus in relation to Alzheimer's disease risk factors and neuromelanin content using spatially-resolved transcriptomics.

Transcriptomic diversity of amygdalar subdivisions across humans and nonhuman primates

The paper analyzes transcriptomic diversity in amygdalar subdivisions across humans and nonhuman primates using single-nucleus RNA sequencing and identifies distinct neuronal subtypes and transcriptional specializations.

An integrated single-nucleus and spatial transcriptomics atlas reveals the molecular landscape of the human hippocampus

The paper integrates single-nucleus and spatial transcriptomics data to map the molecular landscape of the human hippocampus, identifying cell types and spatial domains.

Spatiotemporal analysis of gene expression in the human dentate gyrus reveals age-associated changes in cellular maturation and neuroinflammation

This study analyzes age-related changes in gene expression in the human dentate gyrus, identifying shifts in neurogenesis, maturation, and neuroinflammation across the lifespan.

Integrating gene expression and imaging data across Visium capture areas with visiumStitched

The paper introduces visiumStitched, a tool for stitching Visium spatial transcriptomics data across multiple capture areas, enabling seamless analysis without data loss.

Reelin marks cocaine-activated striatal ensembles, promotes neuronal excitability, and regulates cocaine reward

This study identifies Reelin as a marker of cocaine-activated neuronal ensembles in the rat nucleus accumbens and shows its role in cocaine reward and neuronal excitability.

Integrated single cell and unsupervised spatial transcriptomic analysis defines molecular anatomy of the human dorsolateral prefrontal cortex

The paper generates a molecular neuroanatomical map of the human prefrontal cortex using spatial transcriptomics and single nucleus RNA-sequencing, revealing novel spatial domains and cell-cell interactions linked to psychiatric disorders.

TCF4 mutations disrupt synaptic function through dysregulation of RIMBP2 in patient-derived cortical neurons

This study shows TCF4 mutations impair synaptic function in patient-derived cortical neurons by disrupting RIMBP2 expression, leading to deficits in synaptic transmission and network excitability.

Influence of Alzheimer's disease related neuropathology on local microenvironment gene expression in the human inferior temporal cortex

The paper uses spatial proteogenomics to analyze gene expression changes in Alzheimer's disease brains linked to amyloid-beta and tau pathology.

The gene expression landscape of the human locus coeruleus revealed by single-nucleus and spatially-resolved transcriptomics

The paper characterizes the molecular landscape of the human locus coeruleus using spatially-resolved transcriptomics and single-nucleus RNA-sequencing, providing a publicly accessible resource.

SUFI: An automated approach to spectral unmixing of fluorescent multiplex images captured in mouse and postmortem human brain tissues

SUFI automates spectral unmixing of fluorescent multiplex images in mouse and postmortem human brain tissues, improving accuracy over manual methods and existing software.

VistoSeg: processing utilities for high-resolution Visium/Visium-IF images for spatial transcriptomics data

VistoSeg processes high-resolution Visium/Visium-IF images to integrate image-derived metrics with spatial gene expression data for spatial transcriptomics analysis.

CaPTure: Calcium Peak Toolbox for analysis of in vitro calcium imaging data

CaPTure is a scalable pipeline for analyzing calcium imaging data from cultured neurons, enabling high-throughput phenotypic discovery.

Induction of Bdnf from promoter I following electroconvulsive seizures contributes to structural plasticity in neurons of the piriform cortex

The paper shows that Bdnf exon 1 expression is necessary for ECS-induced dendritic spine plasticity in piriform cortex neurons.

Electrophysiological measures from human iPSC-derived neurons are associated with schizophrenia clinical status and predict individual cognitive performance

The paper identifies electrophysiological measures in hiPSC-derived neurons linked to schizophrenia diagnosis and cognitive performance.

Single-nucleus transcriptome analysis reveals cell type-specific molecular signatures across reward circuitry in the human brain

The paper uses snRNA-seq to analyze five human brain regions, identifies novel neuronal subpopulations, and links them to psychiatric and substance use risks.

Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex

The paper maps spatial gene expression in the human dorsolateral prefrontal cortex using spatial transcriptomics and identifies layer-specific gene expression patterns linked to neuropsychiatric disorders.

dotdotdot: an automated approach to quantify multiplex single molecule fluorescent in situ hybridization (smFISH) images in complex tissues

The paper introduces dotdotdot, a software tool for quantifying smFISH images in complex tissues, demonstrating its use in mouse neurons and human brain tissue with autofluorescence masking and machine learning for cell type prediction.