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Related Experiment Video

Updated: Jun 26, 2025

A Chromatin Assay for Human Brain Tissue

A Chromatin Assay for Human Brain Tissue

Published on: March 21, 2008

Characterizing cell type specific transcriptional differences between the living and postmortem human brain.

Eric Vornholt, Lora E Liharska, Esther Cheng

Medrxiv : the Preprint Server for Health Sciences

|May 15, 2024

Summary

Single-nucleus RNA sequencing (snRNA-seq) reveals gene expression differences between living and postmortem brain tissue. A new model helps integrate this data for accurate neurological disease studies.

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Last Updated: Jun 26, 2025

A Chromatin Assay for Human Brain Tissue

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Obtaining High Quality RNA from Single Cell Populations in Human Postmortem Brain Tissue

Obtaining High Quality RNA from Single Cell Populations in Human Postmortem Brain Tissue

Published on: August 6, 2009

Area of Science:

Neuroscience
Genomics
Bioinformatics

Background:

Single-nucleus RNA sequencing (snRNA-seq) is crucial for defining brain cell types and identifying disease-specific gene expression in postmortem tissues.
Emerging methods for obtaining brain tissue from living individuals necessitate understanding how tissue origin impacts snRNA-seq data.

Approach:

Compared snRNA-seq data from 31 living and 21 postmortem human prefrontal cortex samples.
Identified consistently present cell types in both sample groups.
Quantified differentially expressed genes within each cell type between living and postmortem samples.

Key Points:

Identical cell types were found in both living and postmortem brain samples.
A significant proportion of genes showed differential expression between living and postmortem tissues for each cell type.
Cell type deconvolution accuracy was higher for samples from living individuals.

Conclusions:

Developed a model to estimate the postmortem probability from gene expression data, enabling statistical correction for tissue origin differences.
The findings provide a comprehensive characterization of snRNA-seq data variations between living and postmortem brain samples.
This work facilitates the integration of living and postmortem brain gene expression data for future research.