MSCProfiler: a single cell image processing workflow to investigate mesenchymal stem cell heterogeneity.
Ayona GuptaSafia Kousar ShaikLakshmi BalasubramanianUttara ChakrabortyPublished in: BioTechniques (2023)
Single cell cytometry has demonstrated plausible immuno-heterogeneity of mesenchymal stem cells (MSCs) owing to their multivariate stromal origin. To contribute successfully to next-generation stem cell therapeutics, a deeper understanding of their cellular morphology and immunophenotype is important. In this study, the authors describe MSCProfiler, an image analysis pipeline developed using CellProfiler software. This workflow can extract geometrical and texture features such as shape, size, eccentricity and entropy, along with intensity values of the surface markers from multiple single cell images obtained using imaging flow cytometry. This screening pipeline can be used to analyze geometrical and texture features of all types of MSCs across different passages hallmarked by enhanced feature extraction potential from brightfield and fluorescent images of the cells.
Keyphrases
- single cell
- mesenchymal stem cells
- deep learning
- rna seq
- umbilical cord
- flow cytometry
- bone marrow
- stem cells
- convolutional neural network
- high throughput
- induced apoptosis
- cell therapy
- optical coherence tomography
- high resolution
- machine learning
- cell cycle arrest
- data analysis
- oxidative stress
- contrast enhanced
- small molecule
- quantum dots
- high intensity
- living cells
- signaling pathway
- computed tomography
- mass spectrometry
- cell death
- magnetic resonance imaging
- photodynamic therapy
- anti inflammatory