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| Status |
Public on Feb 16, 2024 |
| Title |
Direct comparison of mass cytometry and single-cell RNA sequencing of human peripheral blood mononuclear cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Single-cell methods offer a high-resolution approach for characterizing cell populations. Many studies rely on single-cell transcriptomics to draw conclusions regarding cell state and behavior, with the underlying assumption that transcriptomic readouts largely parallel their protein counterparts and subsequent activity. However, the relationship between transcriptomic and proteomic measurements is imprecise, and thus datasets that probe the extent of their concordance will be useful to refine such conclusions. Additionally, novel single-cell analysis tools often lack appropriate gold standard datasets for the purposes of assessment. Integrative (combining the two data modalities) and predictive (using one modality to improve results from the other) approaches in particular, would benefit from transcriptomic and proteomic data from the same sample of cells. For these reasons, we performed single-cell RNA sequencing, mass cytometry, and flow cytometry on a split-sample of human peripheral blood mononuclear cells. We directly compare the proportions of specific cell types resolved by each technique, and further describe the extent to which protein and mRNA measurements correlate within distinct cell types.
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| Overall design |
We perform single-cell RNA-sequencing on a split-sample of human peripheral blood mononuclear cells.
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| Contributor(s) |
Su EY, Fread K, Goggin S, Zunder ER, Cahan P |
| Citation(s) |
38816402 |
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| Submission date |
Feb 16, 2023 |
| Last update date |
Jun 12, 2024 |
| Contact name |
Patrick Cahan |
| E-mail(s) |
patrick.cahan@jhmi.edu
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| Organization name |
Johns Hopkins University School of Medicine
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| Department |
ICE and Biomedical Engineering
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| Lab |
Cahan Lab
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| Street address |
733 North Broadway, MRB 653
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| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21205 |
| Country |
USA |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (1) |
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| Relations |
| BioProject |
PRJNA935691 |
