| 数据库 | 是否 预处理 | 降维方法 | 下游分析 | 分析工具 | 在线分析功能 |
| SCovid | 是 | UMAP | Cell annotation, cell clustering, DEG | Seurat, clusterProfiler [58] , Cytoscape [59] , STRING [60] | 无 |
| CancerSEA | 是 | PCA, t-SNE | Cell clustering | Seurat, DESeq2 [61] , GSEA, ConsensusClusterPlus [62] , EDGE [63] | 无 |
| SC2disease | 是 | PCA, t-SNE, UMAP, Diffusion Map | Differential expression, gene expression comparison | Seurat, STRING, Cytoscape, Reactome [64] , NetworkAnalyst [65] | 无 |
| CellMarker2.0 | 是 | UMAP, t-SNE | Cell annotation, cell clustering, cell feature, cell differentiation trajectory analysis, cell malignancy, ell communication | InferCNV, Monocle 3, Seurat | 无 |
| Expression Atlas | 是 | UMAP, t-SNE, PCA | Differential expression analysis, systematic clustering analysis, expression comparison analysis, biological process enrichment analysis, gene co-expression network analysis, gene regulation analysis | Cell Ranger, Seurat, Scanpy, Monocle, CellProfiler [66] , GSEA, EnrichR [67] , Cytoscape, STRING, BioGRID [68] | 无 |
| Cellatlas | 是 | t-SNE | Cell trajectory, gene regulatory network | Seurat, Scanpy | 有 |
| HTCA | 是 | UMAP, t-SNE, PCA | Data integration, data imputation, dimension reduction, clustering, DE analysis, cell type prediction, manual annotation, data splicing, cell–cell communication | Seurat, Harmony [69] , DoubletDecon [70] , org.Hs.eg.db, Scasa, SingleR [71] | 有 |
| HUSCH | 是 | UMAP | Functional analyses, transcription regulators, cell–cell interaction analyses, cell type annotation, marker gene identification, differential expression (DE), gene set enrichment analyses (GSEA) | MAESTRO [72] ，Harmony, ComplexHeatmap [73] , LISA [74] , CellChat [75] | 无 |
| ABC portal | 是 | UMAP | Cell annotation, cellular composition, cell-cell communication, gene expression | Cell Ranger, Harmony, DoubletFinder, Seurat, inferCNV, scmap [76] , AUCell, CellPhoneDB [77] | 无 |
| Tabula Muris | 是 | t-SNE, PCA, UMAP | Cell type annotation, differential expression, gene regulatory network analysis, cell state analysis, genealogy analysis, cell subgroup analysis | Seurat, Cell Ranger, SCENIC [78] , edgeR, GRNBoost2 [79] , Monocle, Scanpy, SingleR | 无 |
| HCA | 是 | t-SNE, PCA, UMAP, Diffusion maps, PHATE | Cell type identification, gene expression analysis, trajectory analysis, subcellular localization analysis, integrated analysis | Seurat, Cell Ranger, Scanpy, Monocle, CellProfiler | 无 |
| Allen Cell Types Database | 是 | t-SNE, PCA, UMAP | Morphological analysis, electrophysiological analysis, gene expression analysis, classification and clustering, molecular analysis, neuron type identification | Neurolucida [80] , Clampfit, MATLAB, Allen SDK, CellExplorer | 无 |
| The Human BioMolecular Atlas Program (HuBMAP) | 是 | t-SNE, PCA, ICA, LDA | Cell type identification, subcellular structure analysis, analysis of cell development and differentiation processes, data integration and network analysis | CellProfiler, STAR, Seurat, CellAssign, Cell Ranger, SCENIC, MetaboAnalyst [81] , Cytoscape | 无 |
| Tabula Muris Senis | 是 | t-SNE, PCA, UMAP | Cell type annotation, differential expression, functional enrichment analysis | Cell Ranger, Seurat, Scanpy, Mast [82] , EdgeR, SingleR, scMatch, CellTypeNet, GO [83] , GSEA | 无 |
| PanglaoDB | 否 | / | / | / | 无 |
| scRNASeqDB | 是 | t-SNE, PCA, UMAP | Gene expression differential analysis, enrichment analysis, functional annotation | Seurat, Scanpy, Cell Ranger, Loupe Cell Browser | 无 |
| CellBlast | 是 | t-SNE, PCA, UMAP | Cell type annotation, clue gene analysis, gene expression analysis, cell identification, driver gene analysis | Seurat, Scanpy, Cell Ranger, SC3 [84] , CellAssign, SingleR | 有 |