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| GO Biological Process | | Annotations: | 16,580 | | Genes: | 20,649 |
Updated Nov 30, 2023
| GO Cellular Component | | Annotations: | 2,051 | | Genes: | 20,915 |
Updated Nov 30, 2023
| GO Molecular Function | | Annotations: | 5,247 | | Genes: | 19,912 |
Updated Nov 30, 2023
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| Human Phenotype | | Annotations: | 11,291 | | Genes: | 5,010 |
Updated Nov 30, 2023
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| Mouse Phenotype | | Annotations: | 11,283 | | Genes: | 13,498 |
Updated Nov 29, 2023
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| Pathways | | Annotations: | 5,496 | | | BioCarta Pathways | 544 | | | Canonical Pathways | 19 | | | KEGG Legacy Pathways | 186 | | | KEGG Medicus Pathways | 619 | | | PID Pathways | 196 | | | Reactome Pathways | 2,953 | | | WikiPathways | 979 | | Genes: | 13,850 |
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| Domains | | Annotations: | 21,882 | | | Gene3D | 861 | | | InterPro | 12,478 | | | PROSITE | 1,698 | | | Pfam | 5,691 | | | ProDom | 177 | | | SMART | 977 | | Genes: | 18,677 |
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| Pubmed | | Annotations: | 1,088,807 | | Genes: | 34,789 |
Updated Sep 11, 2023
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| Interactions | | Annotations: | 20,010 | | Genes: | 20,010 |
Updated Nov 30, 2023
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| Cytoband | | Annotations: | 2,570 | | Genes: | 45,858 |
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| TFBS | | Annotations: | 1,133 | | | MSigDB | 518 | | | TFBS | 615 | | Genes: | 26,909 |
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| miRNA | | Annotations: | 10,743 | | | MSigDB | 313 | | | MicroRNA.org | 2,200 | | | MirDB | 4,632 | | | PITA | 677 | | | TargetScan | 322 | | | miRTarbase | 2,599 | | Genes: | 57,446 |
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| Gene Families | | Annotations: | 940 | | Genes: | 18,080 |
| ToppCell Atlas | | Annotations: | 29,905 | | | A Cellular Census of Human Lungs (Vieira Braga et al) | 249 | | | Adult human kidney single cell transcriptional and chromatin accessibility profiling | 190 | | | Airway Inflammation in Cystic Fibrosis (CF) | 42 | | | Atlas of Lymphangioleiomyomatosis (LAM) | 40 | | | Bronchoalveolar Lavage (BAL) Atlas of COVID-19 Patients (Liao et al.) | 108 | | | Bronchoalveolar Lavage (BAL) Atlas of Severe COVID-19 Patients (Grant et al.) | 83 | | | CD8+ Memory T cells (PBMC) of COVID-19 Patients | 107 | | | COVID-19 Autopsy Atlas (Lung, Liver, Kidney, Heart) | 227 | | | COVID-19 B cell and Plasma cell Atlas in PBMC and BAL | 123 | | | COVID-19 BAL Atlas | 83 | | | COVID-19 Cerebrospinal Fluid-derived (CSF) Leukecytes | 179 | | | COVID-19 Lung Atlas | 222 | | | COVID-19 Lung Autopsy Data (SCP1219) | 116 | | | COVID-19 PBMC Myeloid Cell Atlas | 80 | | | COVID-19 PBMC Neutrophil Atlas | 29 | | | COVID-19 PBMC Platelet Atlas | 42 | | | COVID-19 T Cell Atlas (PBMC) | 54 | | | COVID-19 T cell Atlas (BAL) | 55 | | | COVID-19 cDC Atlas | 75 | | | Cells of the human intestinal tract mapped across space and time | 1,269 | | | Colon Immune Atlas | 206 | | | Colon Immune Atlas from Gut Cell Atlas | 183 | | | Comparison of human cortex and organoids | 94 | | | Cross-tissue immune cell analysis reveals tissue-specific features in humans | 645 | | | Human Adult Brain MTG | 264 | | | Human Blood Atlas | 53 | | | Human Bone Marrow Atlas | 78 | | | Human Bronchial Epithelial Cells (HBEC) | 43 | | | Human Cord Blood Atlas | 81 | | | Human Fetal Lung in Development | 202 | | | Human Hepatoblastoma Atlas | 48 | | | Human Ileal Epithelial cells from Crohn’s Disease | 18 | | | Human Ileal Immune cells from Crohn's Disease | 195 | | | Human Lung Cell Atlas (HLCA) | 1,193 | | | Human Lung Cells in 3 Age Groups (Wang et al.) | 414 | | | Human Metastatic Lung Adenocarcinoma (Nayoung Kim et al) | 526 | | | Human Multiple Cortical Areas SMART-seq | 946 | | | Immune and Hematologic Cells from 24 tissues of the Tabula Sapiens: a multiple organ single cell transcriptomic atlas of humans. | 416 | | | Influenza Atlas | 84 | | | Integrated Single-nucleus and Single-cell RNA-seq of the Adult Human Kidney | 1,467 | | | Integration of 5 COVID-19 PBMC Datasets | 124 | | | Integration of Four Brain Organoid Datasets and One Fetal Brain Dataset | 480 | | | Integration of Lung Superbins | 154 | | | Integration of Multiple Sampling Location of COVID-19 Patients | 1,421 | | | Integration of immune-mediated diseases (COVID-19 + Influenza + Sepsis + Multiple Sclerosis) | 384 | | | Large Scale COVID-19 Single Cell Data (Ren et al.) | 875 | | | LungMAP — Genomic, epigenomic and biophysical cues controlling the emergence of the gas exchange niche in the mouse lung | 296 | | | Mouse Adult Brain Overview (690k cells, 9 regions, 565 cell clusters) | 1,672 | | | Mouse Adult Trachea | 46 | | | Mouse Aging Atlas- Tabula Muris Senis | 4,907 | | | Mouse Aging Atlas- Tabula Muris Senis (Lung and Trachea) | 888 | | | Mouse Bone Marrow Niche (Baccin et al) | 68 | | | Mouse Bone Marrow Niche (Baryawno et al) | 38 | | | Mouse Bone Marrow Niche (Tikhonova et al) | 29 | | | Mouse Trachea Epithelial Cells (MTECs) | 49 | | | Mouse developmental Lung | 102 | | | Mouse_Lung_DevAtlas | 153 | | | Multiple Sclerosis | 62 | | | PBMC Atlas of COVID-19 Patients (Arunachalam et al.) | 155 | | | PBMC Atlas of COVID-19 Patients (Guo et al.) | 64 | | | PBMC Atlas of COVID-19 Patients (Schulte-Schrepping et al.) | 327 | | | PBMC Atlas of COVID-19 and Influenza Patients (Lee et al.) | 235 | | | PBMC Atlas of COVID-19 patients (Wilk et al.) | 87 | | | Pathobiology of Pulmonary Fibrosis (Reyfman et al., 2019) | 275 | | | PretermPrimateLungAtlas | 295 | | | Resident Cell Populations in IPF and COPD | 363 | | | Respiratory Tissues from Nasal Brushing to Parenchyma | 42 | | | Rheumatoid Arthritis and Lupus Nephritis Atlas | 101 | | | SARS-CoV-2 Infected Human Cell Lines | 10 | | | Sepsis Atlas | 201 | | | Shared and distinct transcriptomic cell types across neocortical areas | 293 | | | TCGA OncoMap | 773 | | | The Integrated Human Lung Cell Atlas | 2,345 | | | Tissue Stability Cell Atlas - Lung Cells | 1,359 | | | Tissue Stability Cell Atlas - Oesophagus Cells | 41 | | | Tissue Stability Cell Atlas - Spleen Cells | 63 | | | Transcriptional and Cellular Diversity of the Human Heart | 140 | | | Upper Airway and Bronchi Atlas of COVID-19 Patients | 381 | | | mouse_P3_lung_dropseq (2716 cells) | 69 | | | scRNA-seq of ileum and lung epithelial cells in macaque. | 9 | | Genes: | 45,650 |
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| Coexpression | | Annotations: | 10,922 | | | C2:CGP: Chemical and Genetic Perturbations | 3,438 | | | C6: Oncogenic Signature | 189 | | | C7:IMMUNESIGDB: ImmuneSigDB | 4,872 | | | C7:VAX: HIPC Vaccine Response | 347 | | | C8: Cell Type Signature | 830 | | | H: Hallmark | 50 | | | M2:CGP: Chemical and Genetic Perturbations | 963 | | | M8: Cell Type Signature | 233 | | Genes: | 26,205 |
| Coexpression Atlas | | Annotations: | 4,968 | | | Body Map | 65 | | | FaceBase_RNAseq | 399 | | | FaceBase_ST1 | 187 | | | Gudmap Mouse MOE430.2 | 1,962 | | | Gudmap Mouse ST 1.0 | 675 | | | Gudmap RNAseq | 180 | | | Human Protein Atlas | 37 | | | Immgen.org, GSE15907 | 510 | | | PCBC | 772 | | | PCBC_AltAnalyze | 181 | | Genes: | 21,234 |
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| Computational Gene Set | | Annotations: | 1,007 | | | C4:3CA: Curated Cancer Cell Atlas gene sets | 149 | | | C4:CGN: Cancer Gene Neighborhoods | 427 | | | C4:CM: Cancer Modules | 431 | | Genes: | 10,746 |
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| Drugs | | Annotations: | 77,146 | | | Broad Institute CMAP Down | 6,100 | | | Broad Institute CMAP Up | 6,100 | | | CTD | 12,437 | | | Drug Bank | 3,803 | | | Stitch | 48,706 | | Genes: | 22,768 |
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| Disease | | Annotations: | 44,167 | | | AllianceGenome | 9,343 | | | Clinical Variations | 7,256 | | | DisGeNET Curated | 11,181 | | | GWAS | 9,808 | | | OMIM MedGen | 6,579 | | Genes: | 29,485 |
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Updated Nov 30, 2023
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| Build Information |
| ToppGene | 2024-Mar-29 20:35 / #50 / cc6a75f9cdc9fc3d965b10ce833dbbb0ecf7e8bb |
| Settings | 2023-Apr-04 05:02 / #2 / 5d278aa55c12e0b7ebc81d0d47e610d307659143 |
| Visualization | 2024-Mar-21 17:46 / #3 / 22bedea0f0ca9149bb356a989094b355646d18f9 |
| Utilities | 2024-Mar-29 20:03 / #25 / 1702fb8f4d25faca6f78368f5c4f4f5763629735 |
| Session | 2024-03-21 19:12 / #8 / cdfa0d9056d316ce16d642b96851ea0e23c5a83a |
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