Emerging single-cell technologies and multi-omics

Single nucleus [65, 66]Analysis of frozen/archival tissue
 smFISH [67]Single-molecule fluorescent in situ hybridisation
 ISH+amplification [68]PLISH
 ISH+amplification+multiplexing [69–71]MERFISH, SCRINSHOT, STARmap (3D)
 Oligo microarray [72]
 LCM capture [73, 74]Single cells on array, captured, sequenced
 Surface markers
  Epitope capture [75, 76]Simultaneous sequencing of mRNA and oligo-labelled antibodies; CITE-seq, REAP-seq
  TCR antigen specificity [77]Oligo-tagged MHC multimer libraries
  scRBBS [78]Reduced-representation bisulfite sequencing
  scWGBS [79]Whole-genome bisulfite sequencing
  Parallel transcriptome and methylome [80–82]
  CHIP-seq [83]Chromatin immunoprecipitation sequencing
  ATAC-seq [84]Assay for transposase-accessible chromatin
  Mass spectrometer/MALDI-TOFMatrix-assisted laser desorption/ionisation
  Mass cytometry [85, 86]Cytometry TOF; panel of antibody-labelled ions

ISH: in-situ hybridisation; LCM: laser capture microscopy; TCR: T-cell receptor; TOF: time of flight; CITE-seq: cellular indexing of transcriptomes and epitopes by sequencing; REAP-seq: RNA expression and protein sequencing; MHC: major histocompatibility complex.