Cellular Heterogeneity: Methods and Protocols

Part I: General

1. Heterogeneity of Metazoan Cells and Beyond: To Integrative Analysis of Cellular Populations at Single-Cell Level

Natasha S. Barteneva and Ivan A. Vorobjev

2. Integrating Analysis of Cellular Heterogeneity in High Content Dose-Response Studies

Albert Gough, Tong Ying Shun, D. Lansing Taylor, and Mark Schurdak

3. Image-Based Tracking of Heterogeneous Single Cell Phenotypes

Katherin Patsch, Shannon M. Mumenthaler, and Daniel Ruderman

Part II: Cytometry in Cellular Heterogeneity Research

4. High-Dimensional Single Cell Analysis with Mass Cytometry

Tess Melinda Brodie and Vinko Tosevski

5. Spectral and Imaging Flow Cytometry in Phytoplankton Research

Veronika Dashkova, Jeff Clapper, Ivan A. Vorobjev, and Natasha S. Barteneva

6. X-Ray Fluorescence Detected Flow Cytometry

Andrew M. Crawford and James E. Penner-Hahn

7. Multiparametric Analysis of Myeloid Populations by Flow Cytometry

Sara A. Mathie, Alastair L. Corbin, Hayley L. Eames, and Irina A. Udalova

8. Quantitation of IRF3 Nuclear Translocation in Heterogeneous Cellular Populations from Cervical Tissue Using Imaging Flow Cytometry

Radiana T. Trifonova and Natasha S. Barteneva

9. Methods of Study of Neuron Structural Heterogeneity: Flow Cytometry vs. Laser Interferometry

Ekaterina Kopeikina, Marina Dukhinova, and Eugene D. Ponomarev

10. Usage of Multiparameter Flow Cytometry to Study Microglia and Macrophage Heterogeneity in the Central Nervous System during Neuroinflammation and Neurodegeneration

Marina Dukhinova, Ekaterina Kopeikina, and Eugene D. Ponomarev

Part III: Imaging and Spectroscopy Methods in Heterogeneity Studies

11. Analysis of Microtubule Dynamics Heterogeneity in Cell Culture

Anara Serikbaeva, Anna Tvorogova, Sholpan Kauanova, and Ivan A. Vorobjev

12. Heterogeneity of Focal Adhesions and Focal Contacts in Motile Fibroblasts

Aleena Gladkikh, Anastasia Kovaleva, Anna Tvorogova, and Ivan A. Vorobjev

13. Laser Tweezers Raman Micro-Spectroscopy of Single Cells and Biological Particles

Maria Navas-Moreno and James W. Chan

Part VI: Metabolic and Molecular Biological Methods in Cell Heterogeneity Tracking

14. Quantification of the Metabolic Heterogeneity in Mycobacterial Cells Through the Measurement of the NADH/NAD⁺ Ratio Using a Genetically-Encoded Sensor

Shabir Ahmad Bhat, Iram Khan Iqbal, and Ashwani Kumar

15. Characterizing Cell Heterogeneity Using PCR Fingerprinting of Surface Multigene Families in Protozoan Parasites

Víctor Seco-Hidalgo, Antonio Osuna, and Luis Miguel de Pablos

16. Assessing Carbon Source-Dependent Phenotypic Variability in Pseudomonas putida

Pablo I. Nikel and Víctor de Lorenzo

Part V: Chromatin and Cell Cycle Heterogeneity

17. The Retinal Pigment Epithelial Cell Line (ARPE-19) Displays Mosaic Structural Chromosomal Aberrations

18. FACS Isolation of Viable Cells in Different Cell Cycle Stages from Asynchronous Culture for RNA-Sequencing

Daria M. Potashnikova, Sergey A. Golyshev, Alexey A. Penin, Maria D. Logacheva, Anna V. Klepikova, Anastasia A. Zharikova, Alexey A. Mironov, Eugene V. Sheval, and Ivan A. Vorobjev

19. Measuring Nanoscale Chromatin Heterogeneity with Partial Wave Spectroscopic Microscopy

Scott Gladstein, Andrew Stawarz, Luay M. Almassalha, Lusik Cherkezyan, John E. Chandler, Xiang Zhou, Hariharan Subramanian, and Vadim Backman