From: Spatial multi-omics: novel tools to study the complexity of cardiovascular diseases
 | NGS based multi-omics | Imaging based multi-omics | MS- based multi-omics | ||||||
---|---|---|---|---|---|---|---|---|---|
 | Spatial non-deterministic barcoding | Spatial deterministic barcoding | ISS | Multiplex ISH – diffraction limited | Multiplex ISH – non diffraction limited | Cyclic IF | Ion-labelled antibodies | microdissection | |
Method | Visium35,36, Slide-SeqV237,38, STEREO-Seq101, HDST39 | DBiT-Seq53 | HybISS92, FISSEQ, | MERFISH93, seqFISH94, osmFISH, EEL-FISH, | FLASH-PAINT103, DNA-PAINT, SUM-PAINT104 | CODEX72, COMET, 4i70, IBEX71, Immuno-SABER73 | IMC68, MIBI69 | Deep Visual Proteomics77,78 (DVP) | |
Instrument | Sequencer (short/long read) | Sequencer (short/long read) | microscope (epifluorescence confocal) | microscope (epifluorescence confocal) | microscope (confocal, TIRF, STED) | microscope | Mass-Spec | Laser-microdissection microscope + Mass-Spec | |
Analyte principles | Barcoded primer | Barcoded primer | Padlock probes | Probe panel | Oligo-labeled nanobodies | Oligo or IF labeled antibodies | Ion-labeled antibodies | Tissues markers and AI software for dissection | |
Modalities | DNA, RNA, protein | DNA, RNA, protein | DNA, RNA | DNA, RNA, protein | RNA, protein | protein | protein | protein | |
Feature scale | 10.000s Protein: 100a | RNA:10.000s Protein: 100s | 1000s | cells (1000s) tissues (100s) | 12 (theoretically 10.000s) | 1-200 | 1-50 | unlimited | |
Resolution | 1-55 µm, Stereo-seq: 200 nm | 10 µm | Diffraction limited | Diffraction limited | Sub-5 nm | Diffraction limited | 100 nm-1µm | 5-10 µm (cellular level) | |
Costs | +++ | ++ | ++++ | ++++ | + | + - ++ | ++ | ++ |