Quality Control for Single Cell Analysis of High-plex Tissue Profiles using CyLinter.
Gregory J Baker1,2,3, Edward Novikov1,2,4, Ziyuan Zhao5
1Ludwig Center for Cancer Research at Harvard, Harvard Medical School, Boston, MA.
Biorxiv : the Preprint Server for Biology
|November 14, 2023
Summary
Imaging artifacts in high-plex spatial profiling obscure single-cell data. Our CyLinter software tool identifies and removes these artifacts, significantly improving data quality and biological interpretation, especially for older samples.
Area of Science:
- Biotechnology
- Computational Biology
- Cancer Research
Background:
- Tumor complexity spans multiple spatial scales, necessitating advanced analysis techniques.
- High-plex spatial profiling enables detailed examination of cellular and acellular tumor components.
- Existing single-cell data extraction methods are challenged by artifacts in tissue imaging.
Conclusions:
- Artifacts in high-plex spatial profiling data are a critical issue for accurate biological interpretation.
- CyLinter provides a robust solution for quality control, enhancing the reliability of single-cell analyses.
- This tool is particularly valuable for re-analyzing historical clinical trial specimens, unlocking new biological insights.
