A5028300125- Gene expression and cancer classification
- Single-cell and spatial transcriptomics
- Cell Image Analysis Techniques
- Advanced Biosensing Techniques and Applications
- vaccines and immunoinformatics approaches
- Monoclonal and Polyclonal Antibodies Research
- Cancer Genomics and Diagnostics
- Glycosylation and Glycoproteins Research
Southern Methodist University
2022-2024
While experimental and informatic techniques around single cell sequencing (scRNA-seq) are advanced, research mass cytometry (CyTOF) data analysis has severely lagged behind. CyTOF notably different from scRNA-seq in many aspects. This calls for the evaluation development of computational methods specific data. Dimension reduction (DR) is one critical steps analysis. Here, we benchmark performances 21 DR on 110 real 425 synthetic samples. We find that less well-known like SAUCIE, SQuaD-MDS,...
The interaction between antigens and antibodies (B cell receptors, BCRs) is the key step underlying function of humoral immune system in various biological contexts. capability to profile landscape antigen-binding affinity a vast number BCRs will provide powerful tool reveal novel insights at unprecedented levels yield tools for translational development. However, current experimental approaches profiling antibody-antigen interactions are costly time-consuming, can only achieve low-to-mid...
Recently, many analysis tools have been devised to offer insights into data generated via cytometry by time-of-flight (CyTOF). However, objective evaluations of these methods remain absent as most are conducted against real where the ground truth is generally unknown. In this paper, we develop Cytomulate, a reproducible and accurate simulation algorithm CyTOF data, which could serve foundation for future method development evaluation. We demonstrate that Cytomulate can capture various...
ABSTRACT While experimental and informatic techniques around single cell sequencing (scRNA-seq) are advanced, research mass cytometry (CyTOF) data analysis has severely lagged behind. CyTOF dramatically different from scRNA-seq in many aspects. This calls for the evaluation development of computational methods specific data. Dimension reduction (DR) is one critical steps analysis. Here, we benchmark performances 21 DR on 110 real 425 synthetic samples. We find that less well-known like...