Protein velocity and acceleration from single-cell multiomics experiments

Genome Biol. 2020 Feb 18;21(1):39. doi: 10.1186/s13059-020-1945-3.


The simultaneous quantification of protein and RNA makes possible the inference of past, present, and future cell states from single experimental snapshots. To enable such temporal analysis from multimodal single-cell experiments, we introduce an extension of the RNA velocity method that leverages estimates of unprocessed transcript and protein abundances to extrapolate cell states. We apply the model to six datasets and demonstrate consistency among cell landscapes and phase portraits. The analysis software is available as the protaccel Python package.

Keywords: Bioinformatics; Computational biology; Multiomics; Protein acceleration; Protein velocity; RNA velocity; Transcriptomics.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Algorithms
  • Genomics / methods*
  • Humans
  • Monocytes / metabolism
  • Proteome / genetics*
  • Proteome / metabolism
  • RNA Splicing
  • Single-Cell Analysis / methods*
  • Transcriptome*


  • Proteome