May 20, 2025

Public workspaceMANUAL CELL COUNTING

DOI
dx.doi.org/10.17504/protocols.io.e6nvwqy87vmk/v1
  • Åsa Wallén-Mackenzie1,
  • Sylvie Dumas1
  • 1Lund University
amanda schneeweis
Icon indicating open access to content
QR code linking to this content
DOI: dx.doi.org/10.17504/protocols.io.e6nvwqy87vmk/v1
Protocol Citation: Åsa Wallén-Mackenzie, Sylvie Dumas 2025. MANUAL CELL COUNTING. protocols.io https://dx.doi.org/10.17504/protocols.io.e6nvwqy87vmk/v1
License: This is an open access protocol distributed under the terms of the Creative Commons Attribution License,  which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Protocol status: Working
We use this protocol and it's working
Created: May 20, 2025
Last Modified: May 20, 2025
Protocol Integer ID: 218586
Keywords: ASAPCRN
Funders Acknowledgements:
ASAP
Grant ID: ASAP-025188
Abstract
MANUAL CELL COUNTING
Cell countings for quantification can be performed manually using e.g. the NDP.view2 and QuPath softwares.
Cells are defined by a circle outline (DAPI nuclear staining plus the FISH-generated fluorescent signal), fluorescent signals are checked channel by channel for each selected cell. Intensity, luminosity, contrast parameters are set in the software for each probe pair. DAPI (nuclear staining) was used to distinguish if two cells were located close to each other. High and low expression of each probe was analyzed, and countings collected for analysis and comparison.