Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Subcellular Fractionation01:32

Subcellular Fractionation

The homogenate obtained after cell lysis contains various membrane-bound organelles that can be further separated into pure fractions by subcellular fractionation. These isolates are used to study specific cellular components, analyze localized protein activity, and are even employed in diagnostics. Fractionation is typically achieved using centrifugation methods, the most common being density-gradient and differential centrifugation.
Differential Centrifugation
Differential centrifugation is...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

A foundation model of cancer genotype enables precise predictions of therapeutic response.

Cancer discovery·2026
Same author

textToKnowledgeGraph: generation of molecular interaction knowledge graphs using large language models for exploration in Cytoscape.

Bioinformatics (Oxford, England)·2026
Same author

Unifying proteomic technologies with ProteinProjector.

Bioinformatics advances·2025
Same author

The undiscovered natural product potential of Actinomycetes.

The Journal of antibiotics·2025
Same author

A Roadmap for the Future of Systems Biology in Cancer Research.

Cancer research·2025
Same author

Publisher Correction: Multimodal cell maps as a foundation for structural and functional genomics.

Nature·2025

Related Experiment Video

Updated: Jun 7, 2026

Fabrication of a Multiplexed Artificial Cellular MicroEnvironment Array
07:19

Fabrication of a Multiplexed Artificial Cellular MicroEnvironment Array

Published on: September 7, 2018

8.5K

Cell Mapping Toolkit: an end-to-end pipeline for mapping subcellular organization.

Joanna Lenkiewicz1, Christopher Churas1, Mengzhou Hu1

  • 1Department of Medicine, University of California San Diego, La Jolla, CA, 92037, United States.

Bioinformatics (Oxford, England)
|June 9, 2025
PubMed
Summary

The Cell Mapping Toolkit integrates diverse protein datasets to create hierarchical maps of subcellular organization. This framework aids researchers in analyzing, integrating, and visualizing cellular architecture robustly and reproducibly.

More Related Videos

Mapping the Emergent Spatial Organization of Mammalian Cells using Micropatterns and Quantitative Imaging
09:56

Mapping the Emergent Spatial Organization of Mammalian Cells using Micropatterns and Quantitative Imaging

Published on: April 30, 2019

6.5K
Integrative Toolkit to Analyze Cellular Signals: Forces, Motion, Morphology, and Fluorescence
14:55

Integrative Toolkit to Analyze Cellular Signals: Forces, Motion, Morphology, and Fluorescence

Published on: March 5, 2022

3.9K

Related Experiment Videos

Last Updated: Jun 7, 2026

Fabrication of a Multiplexed Artificial Cellular MicroEnvironment Array
07:19

Fabrication of a Multiplexed Artificial Cellular MicroEnvironment Array

Published on: September 7, 2018

8.5K
Mapping the Emergent Spatial Organization of Mammalian Cells using Micropatterns and Quantitative Imaging
09:56

Mapping the Emergent Spatial Organization of Mammalian Cells using Micropatterns and Quantitative Imaging

Published on: April 30, 2019

6.5K
Integrative Toolkit to Analyze Cellular Signals: Forces, Motion, Morphology, and Fluorescence
14:55

Integrative Toolkit to Analyze Cellular Signals: Forces, Motion, Morphology, and Fluorescence

Published on: March 5, 2022

3.9K

Area of Science:

  • Cell Biology
  • Biophysics
  • Bioinformatics

Background:

  • Cells exhibit hierarchical organization, from protein complexes to organelles.
  • Existing technologies like mass spectrometry and immunofluorescence offer fragmented views of subcellular architecture.

Purpose of the Study:

  • To introduce the Cell Mapping Toolkit for systematic integration of multi-modal protein data.
  • To enable the creation of unified, hierarchical maps of subcellular organization.

Main Methods:

  • The Cell Mapping Toolkit provides an end-to-end pipeline for data processing and integration.
  • It supports visualization of cell maps with rich metadata and provenance.
  • The toolkit is freely available on GitHub with comprehensive documentation.

Main Results:

  • The toolkit facilitates the systematic integration of diverse protein datasets.
  • It enables the generation of unified hierarchical maps of subcellular organization.
  • Researchers gain tools for robust and reproducible analysis of cellular architecture.

Conclusions:

  • The Cell Mapping Toolkit offers a unified framework for understanding cellular organization.
  • It empowers researchers to analyze and visualize complex protein interaction and localization data.
  • This approach enhances the study of subcellular architecture across different scales.