Publication: scAmpi—A versatile pipeline for single-cell RNA-seq analysis from basics to clinics
scAmpi—A versatile pipeline for single-cell RNA-seq analysis from basics to clinics
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Bertolini, A., Prummer, M., Tuncel, M. A., Menzel, U., Rosano-González, M. L., Kuipers, J., Stekhoven, D. J., Tumor Profiler consortium, Beerenwinkel, N., & Singer, F. (2022). scAmpi—A versatile pipeline for single-cell RNA-seq analysis from basics to clinics. PLoS Computational Biology, 18, e1010097. https://doi.org/10.1371/journal.pcbi.1010097
Abstract
Abstract
Abstract
Single-cell RNA sequencing (scRNA-seq) has emerged as a powerful technique to decipher tissue composition at the single-cell level and to inform on disease mechanisms, tumor heterogeneity, and the state of the immune microenvironment. Although multiple methods for the computational analysis of scRNA-seq data exist, their application in a clinical setting demands standardized and reproducible workflows, targeted to extract, condense, and display the clinically relevant information. To this end, we designed scAmpi (Single Cell Analysis
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Creators (Authors)
- Bertolini, Anne
- Prummer, Michael
- Tuncel, M A
- Menzel, Ulrike
- Rosano-González, María Lourdes
- Kuipers, Jack
- Stekhoven, Daniel Johannes
- Beerenwinkel, Niko
- Singer, Franziska
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Citations
Bertolini, A., Prummer, M., Tuncel, M. A., Menzel, U., Rosano-González, M. L., Kuipers, J., Stekhoven, D. J., Tumor Profiler consortium, Beerenwinkel, N., & Singer, F. (2022). scAmpi—A versatile pipeline for single-cell RNA-seq analysis from basics to clinics. PLoS Computational Biology, 18, e1010097. https://doi.org/10.1371/journal.pcbi.1010097
