Neuroscience - Harnessing Spatial Transcriptomics with RNAscope

RNAscope Technology in Neuroscience | Single Cell Transcriptomics | Featured Webinars

Overview

The nervous system, particularly the brain, is a complex tissue of many cell types and subtypes organized with intricate topological features. This complexity presents significant challenges to traditional gene expression analysis techniques. Studying these diverse cell types and their interactions is crucial for advancing our understanding of neuroscience.

RNAscope™ in situ hybridization assay uniquely addresses these challenges by enabling highly sensitive and specific gene expression analysis at the single-transcript detection level and single-cell resolution while preserving spatial and morphological context. This technology empowers researchers to map cellular neighborhoods in the brain, revealing how they change during development, disease, treatment, and repair.

Download Spatial Profiling E-Book

The Power of RNAscope Technology in Neuroscience

Unmatched spatial precision: Detect neuronal cell subtypes and networks at single-cell resolution.
True Multiomic Flexibility: Detect mRNA and protein biomarkers in the same brain section.
Decode Disease State: Characterize changes in cellular localization and activation in health and disease states.
Identify Unique Splice Variants: Identify exon-exon junctions in alternatively spliced transcripts and uncover the role of unique splice variants, miRNAs, and circRNAs in spatial context.
Uncover Cell-Cell interaction: Spatially interrogate mediators of neuron-glia signaling.

RNAscope Technology in Neuroscience Research

Neuroscience Harnessing RNAscope Technology Icon

RNA–Protein Multiomic Assay enables simultaneous detection of a panel of 4 marker proteins, CD68 (white), GFAP (green), IBA-1 (yellow), NeuN (pink) and 2 target RNA probes CLDN5 (light blue), EMCN2 (red) in human brain tissue.

Featured Application – Single Cell Transcriptomics

Illustration of spatial characterization of single cell seq-identified phenotypes in mouse brain

Figure 1. Spatial characterization of single cell seq-identified phenotypes. Data from mouse brain single cell sequencing followed by RNAscope validation.

Key Neuroscience Citations

Spatial Mapping

The neurons that restore walking after paralysis

Validate the presence, abundance, and spatial localization of novel cell subtypes and cell markers.

View Nature Article

Cellular Dynamics

Spatial transcriptomics reveals molecular dysfunction associated with cortical Lewy pathology

Identify meaningful changes in cell phenotypes and cell-cell interactions in human pathology and animal models.

View Nature Article

Activation States

Type-I-interferon-responsive microglia shape cortical development and behavior

Visualize changes in single-cell function including initiation of signaling pathways and transcriptional activation.

View Cell Article

Learn More About Single Cell Transcriptomics

Customer Success Stories

Molly Pruitt
Program in Neuroscience, University of Maryland

I honestly can't rave about RNAscope enough. We work in ferrets and it's very unique, so we have to use all custom probes. So far all of the probes we've used, even though they're custom made and nobody has used them before, have all been hits. I tell everyone that I love RNAscope over immunoassays, or Westerns, or anything like that.

Haley Mendoza-Romero
PhD Candidate, Vanderbilt University

My research is focused on looking at microglia during postnatal development in the hypothalamus to understand how they're interacting with AgRP neurons and facilitating establishment of neural circuits that control food intake. RNAscope will be a huge part in helping us understand the molecular mechanisms that may contribute to how microglia are interacting with the AgRP terminals.

Tessa Montague
Ph.D. candidate Schier lab, Harvard University

ACD’s RNAscope assay worked very well. In my first experiment I was able to visualize the expression of multiple genes in zebrafish embryos with good signal and low background. The zebrafish protocol (Gross-Thebing, Paksa and Raz 2014) was very easy to run, and I plan to scale this assay to additional genes.

Featured Webinars

Resolving Cell Subtype Specialization with scRNA seq & RNAscope

This webinar is hosted by The Scientist & sponsored by ACD, a bio-techne company

Presented by: Ozgun Gokce, PhD, Group Leader, Institute for Stroke and Dementia Research (ISD), LMU Munich Jyoti Phatak, Associate Scientist, Advanced Cell Diagnostics.

Watch Now

Title page for webinar Harnessing in situ transcriptomics to reveal complex tissue architecture at single-cell resolution

Harnessing in situ Transcriptomics to Reveal Tissue Architecture

During the webinar, the speakers will:

Describe the power and usefulness of in situ transcriptomics
Discuss the application of this technology to large-scale tissue mapping in the mouse brain
Explain how in situ transcriptomics (using RNAScope technology) can complement RNASeq and single-cell RNASeq

Watch Now

ACD Neuro Summit 2020

Learn how experts in the field of Neuroscience have utilized the RNAscope and BaseScope assays to address pertinent questions in their research.

Presented by: Key Opinion Leaders from the global field of Neuroscience research.

Watch Now

Neuroscience - Harnessing RNAscope™ Technology

Overview

The Power of RNAscope Technology in Neuroscience

RNAscope Technology in Neuroscience Research

Neurodegeneration

Neuroinflammation

Pain and Addiction

Visualize Neuroinflammation with Co-Detection Assays

RNA–Protein Multiomic Assay enables simultaneous detection of a panel of 4 marker proteins, CD68 (white), GFAP (green), IBA-1 (yellow), NeuN (pink) and 2 target RNA probes CLDN5 (light blue), EMCN2 (red) in human brain tissue.

Featured Application – Single Cell Transcriptomics