Table 2 |.
scRNA-seq studies of cardiovascular organs
| Organ system | Developmental stage | Species (genotype) | Disease | Single-cell capture and scRNA-seq method | Refs |
|---|---|---|---|---|---|
| Heart | Embryonic (E6.75, E7.25) | Mouse (Mesp1-rtTA/tetO-H2B-GFP) | NA | Smart-seq2 | 66 |
| Embryonic (E7.5, E8.5, E9.5) | Mouse (Nkx2–5+, Isl1+ cells only) | NA | Fluidigm C1, ICELL8 | 68 | |
| Embryonic (E8.5–E10.5) | Mouse | NA | Fluidigm C1 | 64 | |
| Embryonic (E7.75–E9.25) | Mouse (ISL1 and Nkx-2.5 lineage tracer) | NA | Smart-seq2 | 69 | |
| Embryonic (E9.5 to postnatal) | Mouse | NA | Fluidigm C1 | 65 | |
| Embryonic (E10.5) | Mouse | NA | Fluidigm C1, 10× Genomics 3ʹ | 62 | |
| Embryonic (conduction system) | Mouse | NA | 10× Genomics 3ʹ | 142 | |
| Embryonic | Mouse (Hand2-null) | Congenital heart defect | 10× Genomics 3ʹ | 70 | |
| Embryonic (5–25 weeks of gestation) | Human | NA | STRT-seq | 12 | |
| Postnatal | Mouse | Paediatric mitochondrial cardiomyopathy | sNucDrop-seq | 34 | |
| Adult (ventricle, non-myocyte cells) | Mouse | NA | 10× Genomics 3ʹ | 61 | |
| Adult | Mouse | Ischaemia–reperfusion | SORT-seq | 21 | |
| Adult | Mouse | Myocardial infarction | 10× Genomics 3ʹ | 143 | |
| Adult | Mouse | Myocardial infarction | 10× Genomics 3ʹ | 78 | |
| Adult | Zebrafish | Cryoinjury | SORT-seq | 75 | |
| Adult | Human | NA | 10× Genomics 3ʹ | 82 | |
| Blood vessels | Embryonic (E12.5–E14.5) | Mouse | NA | Smart-seq2 | 57 |
| Adult | Mouse | NA | 10× Genomics 3ʹ | 85 | |
| Adult | Human | Coronary artery disease | MultiSample NanoDispenser, WaferGen | 92 | |
| Adult | Mouse and human | Coronary artery disease | 10× Genomics 3ʹ | 91 | |
| Adult (vascular cell types in femoral artery) | Mouse (Sca1+) | NA | 10× Genomics 3ʹ | 144 | |
| Haematopoietic cells | Adult (aortic macrophages) | Mouse (CD45+ macrophages from Ldlr–/–) | Atherosclerosis | 10× Genomics 3ʹ | 93 |
| Adult (aortic leukocytes) | Mouse (CD45+ leukocytes from Apoe–/–) | Atherosclerosis | 10× Genomics 3ʹ | 94 | |
| Adult (cardiac immune cells) | Mouse (CD45+ immune cells) | Transverse aortic constriction | 10× Genomics 3ʹ | 145 | |
| Organ atlas | Larval | Caenorhabditis elegans | NA | sci-RNA-seq | 108 |
| Adult (10–15 weeks) | Mouse | NA | 10× Genomics 3ʹ, Plate-seq | 6 | |
| Adult (6–10 weeks) | Mouse | NA | Microwell-seq | 7 | |
| Adult | Mouse | NA | sci-ATAC-seq | 114 |
GFP, green fluorescent protein; NA, not applicable; rtTA, reverse tetracycline-controlled transactivator; sci-ATAC-seq, single-cell combinatorial indexing assay for transposase-accessible chromatin using sequencing; sci-RNA-seq, single-cell combinatorial indexing RNA sequencing; scRNA-seq, single-cell RNA sequencing; Smart-seq, switching mechanism at the 5′ end of the RNA template sequencing; sNucDrop-seq, single-nucleus droplet-based RNA sequencing; SORT-seq, sorting and robot-assisted transcriptome sequencing; STRT-seq, single-cell tagged reverse transcription sequencing.