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GET1
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                                          • SUMMARY

                                          • TISSUE

                                          • BRAIN

                                          • SINGLE CELL

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                                          • BLOOD

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                                          • STRUCTURE

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                                          • GET1
                                          SINGLE CELL SALIVARY GLAND Show tissue menu
                                          ADIPOSE TISSUE ADRENAL GLAND BLOOD BONE MARROW BRAIN BREAST COLON ENDOMETRIUM EPIDIDYMIS ESOPHAGUS
                                          EYE FALLOPIAN TUBE HEART MUSCLE KIDNEY LIVER LUNG LYMPH NODE OVARY PANCREAS PITUITARY GLAND
                                          PLACENTA PROSTATE RECTUM SALIVARY GLAND SKELETAL MUSCLE SKIN SMALL INTESTINE SPLEEN STOMACH TESTIS
                                          THYMUS THYROID GLAND TONGUE URINARY BLADDER VASCULATURE
                                          Single cell type
                                          Tabula sapiens
                                          Tissue cell type
                                          SINGLE CELL TYPE TABULA SAPIENS TISSUE CELL TYPE CELL TYPE MARKERS
                                          Cell types
                                          Glandular epithelial cells
                                          Blood and immune cells
                                          Mesenchymal cells
                                          Specialized epithelial cells
                                          Endothelial and mural cells
                                          Glial cells
                                          Methods
                                          Cell type enrichment
                                          Minor salivary gland
                                          Methods
                                          SALIVARY GLAND DETAIL SUMMARY
                                          Salivary ionocytesSalivary myoepithelial cellsSalivary duct cellsSalivary basal cellsSalivary acinar cellsVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsFibroblastsMast cellsNeutrophilsMonocytesMacrophagesT-cellsInnate lymphoid cellsB-cellsPlasma cellsNK-cells0246810nCPMSpecialized epithelial cellsGlandular epithelial cellsEndothelial and mural cellsMesenchymal cellsBlood and immune cells
                                          SINGLE CELL TYPE - SALIVARY GLANDi

                                          RNA expression in the single cell type clusters identified in this tissue visualized by a UMAP plot (top) and a bar chart (bottom).

                                          - UMAP PLOT visualizes the cells in each cluster; where each dot corresponds to a cell. For each individual cell, mouseover reveals read count and which cluster the cell belongs to. Hovering over a cluster name will highlight the corresponding cluster in the bar chart below. There are 2 options for color schemes: 1) cell type color, which is based on cell type groups used in the Single cell type part of the Single cell resource and 2) cluster color, which assigns a unique color to each cluster. The cells are colored according to % of max (log2(read_count+1)/log2(max(read_count)+1)*100) in five different bins (<1%,<25%,<50%,<75%,≥75%)

                                          - The LEGEND shows RNA expression (nTPM) in each cell type cluster. Hovering over the cluster name reveals nTPM value and number of included cells. Hovering over a bar highlights the corresponding cluster in the UMAP plot above. Color-coding can be toggled on the top of the page, between 2 options: 1) cell type color, which is based on cell type groups used in the Single cell type part of the Single cell resource and 2) cluster color, which assigns a unique color to each cluster.

                                          Cell type color
                                          Cluster color
                                          Colored according to cell type group
                                          Colored according to clusters
                                          Read count filter: 0
                                          Cluster filter:
                                           
                                          Cluster Cell type Expression (nCPM)
                                          0 10
                                          c-0 Early acinar cells (SOX9+)
                                          c-1 T-cells (CD8+)
                                          c-2 Fibroblasts
                                          c-3 Mature serous acinar cells
                                          c-4 Memory B-cells
                                          c-5 Early seromucous acinar cel
                                          c-6 Naive B-cells
                                          c-7 Duct cells
                                          c-8 Venous endothelial cells
                                          c-9 Basal epithelial cells
                                          c-10 Seromucous acinar cells
                                          c-11 Macrophages (TREM2+)
                                          c-12 Fibroblasts
                                          c-13 Macrophages (LYVE1+)
                                          c-14 Early mucous acinar cells
                                          c-15 Mature serous acinar cells
                                          c-16 Naive T-cells (CD4+)
                                          c-17 Mucous acinar cells (MUC19+
                                          c-18 Neutrophils
                                          c-19 Mucous acinar cells (MUC5B+
                                          c-20 Cytotoxic T-cells (CD8+)
                                          c-21 Regulatory T-cells (CD4+)
                                          c-22 Plasma cells
                                          c-23 Myoepithelial cells
                                          c-24 Macrophages
                                          c-25 NK-cells
                                          c-26 Lymphatic endothelial cells
                                          c-27 Capillary endothelial cells
                                          c-28 Monocytes (FCN1+)
                                          c-29 Vascular smooth muscle cell
                                          c-30 Ionocytes
                                          c-31 Fibroblasts (FN1+)
                                          c-32 Arterial endothelial cells
                                          c-33 Mast cells
                                          c-34 Naive T-cells (CD8+)
                                          c-35 Serous acinar cells (Mixed)
                                          c-36 NKT-cells
                                          c-37 Cycling immune cells
                                          c-38 ILCs
                                          c-39 Serous & Fibroblasts
                                          c-40 Pericytes
                                          c-41 Cycling epithelial cells
                                          c-42 Fibroblasts (NGFR+)
                                          c-43 Non-myelinated schwann cell
                                          SINGLE CELL TYPE TABULA SAPIENS - SALIVARY GLANDi

                                          RNA expression in the single cell type clusters identified in this tissue visualized by a UMAP plot and a bar chart. This window shows single cell expression data generated by the https://tabula-sapiens.sf.czbiohub.org/about#consortium, that also offers UMAP visualization and cell type clusters for each tissue sample: https://tabula-sapiens.sf.czbiohub.org/organs, here integrate offering easy comparison to the HPA cluster method of single cell types.

                                          • UMAP PLOT visualizes the cells in each cluster; where each dot corresponds to a cell. For each individual cell, mouseover reveals read count and which cluster the cell belongs to. Hovering over a cluster name will highlight the corresponding cluster in the bar chart below. There are 2 options for color schemes: 1) cell type color, which is based on cell type groups used in the Single cell type part of the Single cell resource and 2) cluster color, which assigns a unique color to each cluster. The cells are colored according to % of max (log2(read_count+1)/log2(max(read_count)+1)*100) in five different bins (<1%,<25%,<50%,<75%,≥75%)

                                          • The LEGEND shows RNA expression (nTPM) in each cell type cluster. Hovering over the cluster name reveals nTPM value and number of included cells. Hovering over a bar highlights the corresponding cluster in the UMAP plot above. Color-coding can be toggled on the top of the page, between 2 options: 1) cell type color, which is based on cell type groups used in the Single cell type part of the Single cell resource and 2) cluster color, which assigns a unique color to each cluster.

                                          Cell type color
                                          Cluster color
                                          Colored according to cell type group
                                          Colored according to clusters
                                          Read count filter: 0
                                           
                                          Cluster Cell type Expression (nCPM)
                                          0 60
                                          c-0 Acinar cell of salivary gla
                                          c-1 Naive b cell
                                          c-2 Memory b cell
                                          c-3 Cd4-positive helper t cell
                                          c-4 Pericyte cell
                                          c-5 Nk cell
                                          c-6 Fibroblast
                                          c-7 Endothelial cell of lymphat...
                                          c-8 Adventitial cell
                                          c-9 B cell
                                          c-10 Endothelial cell
                                          c-11 Monocyte
                                          c-12 Plasma cell
                                          c-13 Duct epithelial cell
                                          c-14 Basal cell
                                          c-15 Cd8-positive, alpha-beta t ...
                                          c-16 Neutrophil
                                          c-17 T cell
                                          c-18 Myoepithelial cell
                                          c-19 Cd4-positive, alpha-beta t ...
                                          c-20 Macrophage
                                          c-21 Salivary gland cell
                                          c-22 Ionocyte
                                          TISSUE CELL TYPE - MINOR SALIVARY GLANDi

                                          The plot below shows the enrichment prediction score for each cell type profiled in the tissue. This score is the mean correlation between the selected gene and the 3 reference transcripts selected to represent each cell type profiled within the tissue. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type. Hover the mouse pointer over the symbols or cell type names to see the mean correlation values.

                                          Category
                                          Alphabetical
                                          Enrichment
                                          Minor salivary glandular cells_1Minor salivary glandular cells_2Minor salivary gland ductal cellsMinor salivary gland basal cellsMitotic cells (Minor salivary gland)Adipocytes (Minor salivary gland)Endothelial cellsSmooth muscle cellsFibroblastsMacrophagesMast cellsT-cellsPlasma cells0.30.40.50.60.70.80.91.0EnrichmentGlandular epithelial cellsSpecialized epithelial cellsStem and proliferating cellsMesenchymal cellsEndothelial and mural cellsMuscle cellsBlood and immune cells
                                          CELL TYPE MARKERSi

                                          The heatmap in this section shows expression of the currently selected gene (on top) and well-known cell type markers in the different single cell type clusters of this tissue. The panel on the left shows which cell type each marker is associated with. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.

                                          Hover the mouse-pointer over the individual data points (squares) to see nTPM level and Z-score. Clicking on a gene name redirects to the corresponding gene page.

                                          Z-score is when you normalize a variable such that the standard deviation is 1 and the mean is 0. Thus, all the genes are easier to compare, as they have the same center and distribution.

                                          SINGLE CELL TYPE
                                          TABULA SAPIENS
                                          TISSUE CELL TYPE - MINOR SALIVARY GLAND
                                          Max-norm
                                          Z-score
                                          Fraction of highest expression (≥1 nTPM)
                                          log2(nTPM+1) z-score
                                          GET1S100BCDH19L1CAMBSNDFOXI1ACTA2KRT14KRT5TP63KRT19S100A2AQP5LTFAMY1AHTN1PRR4MUC19SPDEFPECAM1VWFACKR1POSTNHEY1HEY2SEMA3GCA4RGCCLYVE1PROX1PDGFRBRGS5STEAP4CNN1MYH11COL1A1DCNFBLN2PDGFRACPA3TPSAB1TPSB2CEACAM8CSF3RCXCR2FCGR3BFCN1IL1BS100A8S100A9VCANC1QBC1QCHLA-DRAHLA-DRB1F13A1CD3DCD3GCD4CD8AIL7RCTLA4FOXP3IL2RAGATA3HPGDSIL9RNCR2RORCBANK1CD19MS4A1CD27TNFRSF13BDERL3IGHA1GZMANKG7PRF1Salivary acinar cells c-0T-cells c-1Fibroblasts c-2Salivary acinar cells c-3B-cells c-4Salivary acinar cells c-5B-cells c-6Salivary duct cells c-7Vascular endothelial cells c-8Salivary basal cells c-9Salivary acinar cells c-10Macrophages c-11Fibroblasts c-12Macrophages c-13Salivary acinar cells c-14Salivary acinar cells c-15T-cells c-16Salivary acinar cells c-17Neutrophils c-18Salivary acinar cells c-19T-cells c-20T-cells c-21Plasma cells c-22Salivary myoepithelial cells c-23Macrophages c-24NK-cells c-25Lymphatic endothelial cells c-26Vascular endothelial cells c-27Monocytes c-28Vascular smooth muscle cells c-29Salivary ionocytes c-30Fibroblasts c-31Vascular endothelial cells c-32Mast cells c-33T-cells c-34Salivary acinar cells c-35T-cells c-36Cycling immune cells c-37Innate lymphoid cells c-38Mixed cell types c-39Pericytes c-40Cycling salivary epithelial cells c-41Fibroblasts c-42Schwann cells c-43Current geneSchwann cellsSalivary ionocytesSalivary myoepithelial cellsSalivary duct cellsSalivary acinar cellsVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsFibroblastsMast cellsNeutrophilsMonocytesMacrophagesT-cellsInnate lymphoid cellsB-cellsPlasma cellsNK-cells00.250.50.751-4-2024
                                          Max-norm
                                          Z-score
                                          Fraction of highest expression (≥1 nTPM)
                                          log2(nTPM+1) z-score
                                          GET1S100BCDH19L1CAMBSNDFOXI1ACTA2KRT14KRT5TP63KRT19S100A2AQP5LTFAMY1AHTN1PRR4MUC19SPDEFPECAM1VWFACKR1POSTNHEY1HEY2SEMA3GCA4RGCCLYVE1PROX1PDGFRBRGS5STEAP4CNN1MYH11COL1A1DCNFBLN2PDGFRACPA3TPSAB1TPSB2CEACAM8CSF3RCXCR2FCGR3BFCN1IL1BS100A8S100A9VCANC1QBC1QCHLA-DRAHLA-DRB1F13A1CD3DCD3GCD4CD8AIL7RCTLA4FOXP3IL2RAGATA3HPGDSIL9RNCR2RORCBANK1CD19MS4A1CD27TNFRSF13BDERL3IGHA1GZMANKG7PRF1Acinar cell of salivary gland c-0Naive b cell c-1Memory b cell c-2Cd4-positive helper t cell c-3Pericyte cell c-4Nk cell c-5Fibroblast c-6Endothelial cell of lymphatic vessel c-7Adventitial cell c-8B cell c-9Endothelial cell c-10Monocyte c-11Plasma cell c-12Duct epithelial cell c-13Basal cell c-14Cd8-positive, alpha-beta t cell c-15Neutrophil c-16T cell c-17Myoepithelial cell c-18Cd4-positive, alpha-beta t cell c-19Macrophage c-20Salivary gland cell c-21Ionocyte c-22Current geneSchwann cellsSalivary ionocytesSalivary myoepithelial cellsSalivary duct cellsSalivary acinar cellsVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsFibroblastsMast cellsNeutrophilsMonocytesMacrophagesT-cellsInnate lymphoid cellsB-cellsPlasma cellsNK-cells00.250.50.751-4-2024
                                          GET1 BHLHA15PIPTCN1C5orf46SAA2SERPINA3ASCL3BSNDFOXI1KRT5SERPINB5TRIM29MKI67NCAPGTOP2AADIPOQLIPEPLIN1CDH5ERGESAMACTA2MYH11MYLKCOL14A1ECM2OLFML1C1QCMS4A4AMS4A6ACPA3RGS13SIGLEC6CCL5CD3ECD96IGHA1JCHAINMZB1BHLHA15PIPTCN1C5orf46SAA2SERPINA3ASCL3BSNDFOXI1KRT5SERPINB5TRIM29MKI67NCAPGTOP2AADIPOQLIPEPLIN1CDH5ERGESAMACTA2MYH11MYLKCOL14A1ECM2OLFML1C1QCMS4A4AMS4A6ACPA3RGS13SIGLEC6CCL5CD3ECD96IGHA1JCHAINMZB1Current geneMinor salivary glandular cells_1Minor salivary glandular cells_2Minor salivary gland ductal cellsMinor salivary gland basal cellsMitotic cells (Minor salivary gland)Adipocytes (Minor salivary gland)Endothelial cellsSmooth muscle cellsFibroblastsMacrophagesMast cellsT-cellsPlasma cells<00.250.50.751
                                           

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