Single-cell trajectories reconstruction, exploration and mapping of omics data with STREAM

Giosue' Lo Bosco, Luca Pinello, Jihong Guan, Martin J. Aryee, Luca Albergante, Jason D. Buenrostro, Caleb A. Lareau, Shuigeng Zhou, Huidong Chen, Jonathan Y. Hsu, Jonathan Y. Hsu, Andrei Zinovyev, Giosuè Lo Bosco, David M. Langenau, Alexander N. Gorban, Guo-Cheng Yuan, Daniel E. Bauer, Shuigeng Zhou

Risultato della ricerca: Articlepeer review

49 Citazioni (Scopus)


Single-cell transcriptomic assays have enabled the de novo reconstruction of lineage differentiation trajectories, along with the characterization of cellular heterogeneity and state transitions. Several methods have been developed for reconstructing developmental trajectories from single-cell transcriptomic data, but efforts on analyzing single-cell epigenomic data and on trajectory visualization remain limited. Here we present STREAM, an interactive pipeline capable of disentangling and visualizing complex branching trajectories from both single-cell transcriptomic and epigenomic data. We have tested STREAM on several synthetic and real datasets generated with different single-cell technologies. We further demonstrate its utility for understanding myoblast differentiation and disentangling known heterogeneity in hematopoiesis for different organisms. STREAM is an open-source software package.
Lingua originaleEnglish
pagine (da-a)1-14
Numero di pagine14
RivistaNature Communications
Stato di pubblicazionePublished - 2019

All Science Journal Classification (ASJC) codes

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  • ???subjectarea.asjc.1300.1300???
  • ???subjectarea.asjc.3100.3100???


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