Interpreting Image-based Profiles using Similarity Clustering and Single-Cell Visualization.
Morpheus
high-dimensional data
image-based profiling
morphological analysis
profiling
single-cell visualization
Journal
Current protocols
ISSN: 2691-1299
Titre abrégé: Curr Protoc
Pays: United States
ID NLM: 101773894
Informations de publication
Date de publication:
Mar 2023
Mar 2023
Historique:
pmc-release:
01
03
2024
entrez:
15
3
2023
pubmed:
16
3
2023
medline:
21
3
2023
Statut:
ppublish
Résumé
Image-based profiling quantitatively assesses the effects of perturbations on cells by capturing a breadth of changes via microscopy. Here, we provide two complementary protocols to help explore and interpret data from image-based profiling experiments. In the first protocol, we examine the similarity among perturbed cell samples using data from compounds that cluster by their mechanisms of action. The protocol includes steps to examine feature-driving differences between samples and to visualize correlations between features and treatments to create interpretable heatmaps using the open-source web tool Morpheus. In the second protocol, we show how to interactively explore images together with the numerical data, and we provide scripts to create visualizations of representative single cells and image sites to understand how changes in features are reflected in the images. Together, these two tutorials help researchers interpret image-based data to speed up research. © 2023 The Authors. Current Protocols published by Wiley Periodicals LLC. Basic Protocol 1: Exploratory analysis of profile similarities and driving features Basic Protocol 2: Image and single-cell visualization following profile interpretation.
Identifiants
pubmed: 36921124
doi: 10.1002/cpz1.713
pmc: PMC10027367
mid: NIHMS1876198
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
e713Subventions
Organisme : NIGMS NIH HHS
ID : P41 GM135019
Pays : United States
Organisme : NIGMS NIH HHS
ID : R35 GM122547
Pays : United States
Organisme : NIH HHS
ID : MIRA R35 GM122547
Pays : United States
Organisme : NIH HHS
ID : COBA P41 GM135019
Pays : United States
Informations de copyright
© 2023 The Authors. Current Protocols published by Wiley Periodicals LLC.
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