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Related Concept Videos

Brain Imaging01:14

Brain Imaging

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Brain imaging technologies provide critical insights into both the structure and function of the human brain, enabling medical professionals and researchers to diagnose, study, and treat neurological disorders or psychiatric disorders more effectively.
These technologies include computerized axial tomography (CAT or CT scans), positron-emission tomography (PET scans),  magnetic resonance imaging (MRI),  functional magnetic resonance imaging (fMRI), and Transcranial Magnetic...
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Mining Spatial Transcriptomics Datasets using DeepSpaceDB
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BrainScope: interactive visual exploration of the spatial and temporal human brain transcriptome.

Sjoerd M H Huisman1,2, Baldur van Lew2,3, Ahmed Mahfouz1,2

  • 1Delft Bioinformatics Lab, Delft University of Technology, 2628 CD Delft, The Netherlands.

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|January 30, 2017
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Summary

BrainScope offers interactive visualization for complex human brain transcriptome data. This web portal aids researchers in exploring gene expression patterns across development and anatomical regions.

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Area of Science:

  • Neuroscience
  • Bioinformatics
  • Genomics

Background:

  • Spatial and temporal brain transcriptomics provides valuable data for molecular neuroscience.
  • Analyzing and visualizing complex transcriptomic data presents significant challenges.

Purpose of the Study:

  • To introduce BrainScope, a web portal for interactive visual exploration of human brain transcriptome data.
  • To enable linked visualization of genes and samples across the brain, genome, and developmental stages.

Main Methods:

  • Utilized a novel dual t-SNE methodology for high-dimensional data exploration.
  • Developed a web portal for fast, interactive visualization of the Allen Atlases of the human brain transcriptome.

Main Results:

  • t-SNE plot densities correlate with anatomical regions and gene co-expression modules.
  • Gene t-SNE maps reveal brain region-specific gene functions, facilitating data-driven research.
  • Demonstrated BrainScope's potential through analyses of cell type-specific genes, co-expression modules, and developmental gene evolution.

Conclusions:

  • BrainScope provides a powerful tool for exploring complex human brain transcriptomic data.
  • The portal supports hypothesis generation and data-driven research in neuroscience.
  • BrainScope is publicly accessible, promoting wider research accessibility.