Journal
BRIEFINGS IN FUNCTIONAL GENOMICS
Volume 17, Issue 4, Pages 246-254Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bfgp/elx046
Keywords
single-cell transcriptomics; single-cell epigenomics; gene regulatory networks
Funding
- Research Foundation - Flanders (FWO) [G.0640.13, G.0791.14, G092916N]
- Special Research Fund (BOF) KU Leuven [PF/10/016, OT/13/103]
- Foundation Against Cancer [2012-F2, 2016-070, 2015-143]
- ERC Consolidator Grant [724226_cis-CONTROL]
- FWO-SB PhD fellowship
- Kom Op Tegen Kanker fellowship
- PDM Postdoctoral Fellowship from the KU Leuven
- Kom op Tegen Kanker
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Single-cell techniques are advancing rapidly and are yielding unprecedented insight into cellular heterogeneity. Mapping the gene regulatory networks (GRNs) underlying cell states provides attractive opportunities to mechanistically understand this heterogeneity. In this review, we discuss recently emerging methods to map GRNs from single-cell transcriptomics data, tackling the challenge of increased noise levels and data sparsity compared with bulk data, alongside increasing data volumes. Next, we discuss how new techniques for single-cell epigenomics, such as single-cell ATAC-seq and single-cell DNA methylation profiling, can be used to decipher gene regulatory programmes. We finally look forward to the application of single-cell multi-omics and perturbation techniques that will likely play important roles for GRN inference in the future.
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