Skip to main content
. Author manuscript; available in PMC: 2024 Feb 21.
Published in final edited form as: Nat Rev Genet. 2020 Nov 26;22(4):235–250. doi: 10.1038/s41576-020-00300-0

Table 2 |.

Selected single-cell multi-omics methods and the types of epigenomic data they provide

Method Data set 1 Data set 2 Data set 3
Paired-seq60 Gene expression DNA accessibility and nucleosome position –
sci-CAR63 Gene expression DNA accessibility and nucleosome position –
SNARE-seq64 Gene expression DNA accessibility and nucleosome position –
scM&T123 Gene expression DNA methylation –
scNMT-seq84 Gene expression DNA accessibility and nucleosome position DNA methylation
scTrio-seq122 Gene expression DNA methylation Copy number variation
scNOMe-seq83 DNA accessibility and nucleosome position DNA methylation –
scCOOL-seq85 DNA accessibility and nucleosome position DNA methylation Copy number variation
Methyl-HiC125 DNA methylation Chromatin contacts –
sc-m3c-seq121 DNA methylation Chromatin contacts –

paired-seq, parallel analysis of individual cells for RNA expression and DNA accessibility by sequencing; scCOOL-seq, single-cell chromatin overall omic-scale landscape sequencing; sci-CAR, single-cell combinatorial indexing of chromatin accessibility and mRNA; sc-m3c-seq, single-nucleus methyl-3C sequencing; scM&T, single-cell methylome and transcriptome sequencing; scNMT-seq, single-cell nucleosome, methylation and transcription sequencing; scNOMe-seq, single-cell nucleosome occupancy and methylome sequencing; scTrio-seq, single-cell triple omics sequencing; SNARE-seq, single-nucleus chromatin accessibility and mRNA expression sequencing.