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GET1
HPA
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                                          • SUMMARY

                                          • TISSUE

                                          • BRAIN

                                          • SINGLE CELL

                                          • SUBCELL

                                          • CANCER

                                          • BLOOD

                                          • CELL LINE

                                          • STRUCTURE

                                          • INTERACTION

                                          • GET1
                                          SINGLE CELL PANCREAS 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
                                          Endothelial and mural cells
                                          Specialized epithelial cells
                                          Endocrine cells
                                          Glandular epithelial cells
                                          Mesenchymal cells
                                          Blood and immune cells
                                          Methods
                                          Cell type enrichment
                                          Pancreas
                                          Methods
                                          PANCREAS DETAIL SUMMARY
                                          Pancreatic islet cellsPancreatic duct cellsPancreatic acinar cellsVascular endothelial cellsPericytesFibroblastsMast cellsMonocytesMacrophages0246810nCPMEndocrine cellsSpecialized epithelial cellsGlandular epithelial cellsEndothelial and mural cellsMesenchymal cellsBlood and immune cells
                                          SINGLE CELL TYPE - PANCREASi

                                          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 Islet capillary endothelial...
                                          c-1 Acinar capillary endothelia...
                                          c-2 Ductal epithelial cells
                                          c-3 Alpha islet cells
                                          c-4 Acinar epithelial cells
                                          c-5 Fibroblasts
                                          c-6 Macrophages
                                          c-7 Venous endothelial cells
                                          c-8 Macrophages (PLA2G7+)
                                          c-9 Beta islet cells
                                          c-10 Transitional monocytes/macr...
                                          c-11 Pericytes
                                          c-12 Arterial endothelial cells
                                          c-13 Alpha/beta islet cells
                                          c-14 Ductal epithelial cells
                                          c-15 Mast cells
                                          c-16 Monocytes
                                          c-17 T-cells (CD8+)
                                          c-18 Delta islet cells
                                          c-19 Capillary endothelial cells
                                          c-20 Macrophages
                                          c-21 NK-cells
                                          c-22 Gamma (PP) islet cells
                                          c-23 Epsilon islet cells
                                          c-24 B-cells
                                          SINGLE CELL TYPE TABULA SAPIENS - PANCREASi

                                          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)
                                          0 700
                                          c-0 Pancreatic acinar cell
                                          c-1 T cell
                                          c-2 Endothelial cell
                                          c-3 Myeloid cell
                                          c-4 Pancreatic stellate cell
                                          c-5 Nk cell
                                          c-6 Fibroblast
                                          c-7 B cell
                                          c-8 Pancreatic ductal cell
                                          c-9 Plasma cell
                                          c-10 Pancreatic beta cell
                                          c-11 Mast cell
                                          c-12 Pancreatic pp cell
                                          c-13 Pancreatic alpha cell
                                          c-14 Pancreatic delta cell
                                          TISSUE CELL TYPE - PANCREASi

                                          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
                                          Alpha cellsBeta cellsDuctal cells_1Ductal cells_2Exocrine glandular cellsEndothelial cellsFibroblastsMacrophagesT-cellsPlasma cells0.30.40.50.60.70.80.91.0EnrichmentEndocrine cellsSpecialized epithelial cellsGlandular epithelial cellsEndothelial and mural cellsMesenchymal 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
                                          Max-norm
                                          Z-score
                                          Fraction of highest expression (≥1 nTPM)
                                          log2(nTPM+1) z-score
                                          GET1GCGCGTTRIAPPINSLEPRPRG4SSTGHRLPPYANXA4CFTRFXYD2CLPSPRSS1PRSS2PECAM1VWFAQP1GPIHBP1CXCR4F2RL3PASKACKR1POSTNHEY1HEY2SEMA3GCA4RGCCPDGFRBRGS5STEAP4COL1A1DCNFBLN2PDGFRACPA3TPSAB1TPSB2FCN1IL1BS100A8S100A9VCANC1QBC1QCCD3DCD3GCD4CD8AIL7RBANK1CD19MS4A1GZMANKG7PRF1Vascular endothelial cells c-0Vascular endothelial cells c-1Pancreatic duct cells c-2Pancreatic islet cells c-3Pancreatic acinar cells c-4Fibroblasts c-5Macrophages c-6Vascular endothelial cells c-7Macrophages c-8Pancreatic islet cells c-9Macrophages c-10Pericytes c-11Vascular endothelial cells c-12Pancreatic islet cells c-13Pancreatic duct cells c-14Mast cells c-15Monocytes c-16T-cells c-17Pancreatic islet cells c-18Vascular endothelial cells c-19Macrophages c-20NK-cells c-21Pancreatic islet cells c-22Pancreatic islet cells c-23B-cells c-24Current genePancreatic islet cellsPancreatic duct cellsPancreatic acinar cellsVascular endothelial cellsPericytesFibroblastsMast cellsMonocytesMacrophagesT-cellsB-cellsNK-cells00.250.50.751-4-2024
                                          Max-norm
                                          Z-score
                                          Fraction of highest expression (≥1 nTPM)
                                          log2(nTPM+1) z-score
                                          GET1GCGCGTTRIAPPINSLEPRPRG4SSTGHRLPPYANXA4CFTRFXYD2CLPSPRSS1PRSS2PECAM1VWFAQP1GPIHBP1CXCR4F2RL3PASKACKR1POSTNHEY1HEY2SEMA3GCA4RGCCPDGFRBRGS5STEAP4COL1A1DCNFBLN2PDGFRACPA3TPSAB1TPSB2FCN1IL1BS100A8S100A9VCANC1QBC1QCCD3DCD3GCD4CD8AIL7RBANK1CD19MS4A1GZMANKG7PRF1Pancreatic acinar cell c-0T cell c-1Endothelial cell c-2Myeloid cell c-3Pancreatic stellate cell c-4Nk cell c-5Fibroblast c-6B cell c-7Pancreatic ductal cell c-8Plasma cell c-9Pancreatic beta cell c-10Mast cell c-11Pancreatic pp cell c-12Pancreatic alpha cell c-13Pancreatic delta cell c-14Current genePancreatic islet cellsPancreatic duct cellsPancreatic acinar cellsVascular endothelial cellsPericytesFibroblastsMast cellsMonocytesMacrophagesT-cellsB-cellsNK-cells00.250.50.751-4-2024
                                          GET1 ARXFEVIRX2C1orf127G6PC2INSANXA3CLDN1KRT80CRISP3ERN2MUC5BAMY2BPNLIPPRSS1DIPK2BERGMMRN2DCNFBLN1PODNC1QAC1QCMS4A4ACD2CD3ETRACIGKCIGLC2JCHAINARXFEVIRX2C1orf127G6PC2INSANXA3CLDN1KRT80CRISP3ERN2MUC5BAMY2BPNLIPPRSS1DIPK2BERGMMRN2DCNFBLN1PODNC1QAC1QCMS4A4ACD2CD3ETRACIGKCIGLC2JCHAINCurrent geneAlpha cellsBeta cellsDuctal cells_1Ductal cells_2Exocrine glandular cellsEndothelial cellsFibroblastsMacrophagesT-cellsPlasma cells<00.250.50.751
                                           

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