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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 PROSTATE 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
                                          Blood and immune cells
                                          Glandular epithelial cells
                                          Specialized epithelial cells
                                          Endothelial and mural cells
                                          Mesenchymal cells
                                          Muscle cells
                                          Methods
                                          Cell type enrichment
                                          Prostate
                                          Methods
                                          PROSTATE DETAIL SUMMARY
                                          Prostatic hillock cellsBasal prostatic cellsProstatic glandular cellsProstatic club cellsVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsFibroblastsNeutrophilsMonocytesMacrophagesT-cellsNK-cells0246810nCPMSpecialized epithelial cellsGlandular epithelial cellsEndothelial and mural cellsMesenchymal cellsBlood and immune cells
                                          SINGLE CELL TYPE - PROSTATEi

                                          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 T-cells (CD8+)
                                          c-1 Macrophages
                                          c-2 Prostatic glandular cells
                                          c-3 Prostatic glandular cells
                                          c-4 Prostatic hillock cells
                                          c-5 Venous endothelial cells
                                          c-6 Prostatic club cells
                                          c-7 Neutrophils
                                          c-8 Prostatic glandular cells
                                          c-9 Prostatic club-like cells
                                          c-10 Prostatic glandular-like ce
                                          c-11 Prostatic basal cells
                                          c-12 Prostatic glandular cells
                                          c-13 Prostatic glandular-like ce
                                          c-14 Macrophages
                                          c-15 Fibroblasts
                                          c-16 T-cells (CD4+)
                                          c-17 Vascular smooth muscle cell
                                          c-18 Prostatic hillock-like cell
                                          c-19 Monocytes
                                          c-20 Prostatic glandular cells
                                          c-21 Fibroblasts
                                          c-22 B-cells
                                          c-23 NKT-cells
                                          c-24 Pericytes
                                          c-25 Arterial endothelial cells
                                          c-26 NK-cells
                                          c-27 Fibroblasts
                                          c-28 Capillary endothelial cells
                                          c-29 Lymphatic endothelial cells
                                          c-30 Mast cells
                                          c-31 Cycling epithelial cells
                                          c-32 Denervated muscle cells
                                          SINGLE CELL TYPE TABULA SAPIENS - PROSTATEi

                                          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)
                                          0 290
                                          c-0 Basal cell of prostate epit...
                                          c-1 Epithelial cell
                                          c-2 Fibroblast
                                          c-3 Hillock-club cell of prosta...
                                          c-4 Macrophage
                                          c-5 Nkt cell
                                          c-6 Erythroid progenitor
                                          c-7 Cd8-positive, alpha-beta t ...
                                          c-8 Cd8b-positive nk t cell
                                          c-9 Luminal cell of prostate ep...
                                          c-10 Endothelial cell
                                          c-11 Smooth muscle cell
                                          c-12 Stromal cell
                                          c-13 Monocyte
                                          c-14 T cell
                                          c-15 Club cell of prostate epith...
                                          c-16 Neutrophil
                                          c-17 Myeloid cell
                                          c-18 Hillock cell of prostate ep...
                                          c-19 Sperm
                                          c-20 Mast cell
                                          TISSUE CELL TYPE - PROSTATEi

                                          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
                                          Prostate glandular cellsProstate basal glandular cellsUrothelial cellsEndothelial cellsSmooth muscle cellsFibroblastsMacrophagesT-cellsPlasma cells0.30.40.50.60.70.80.91.0EnrichmentGlandular epithelial cellsSpecialized epithelial cellsEndothelial and mural cellsMuscle 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
                                          GET1KRT13KRT4TMPRSS4KRT5TP63KLK2KLK3MSMBBPIFB1PIGRSCGB3A1CKMMBACTG2DESMYH11PECAM1VWFACKR1POSTNHEY1HEY2SEMA3GCA4RGCCLYVE1PROX1PDGFRBRGS5STEAP4ACTA2CNN1COL1A1DCNFBLN2PDGFRACPA3TPSAB1TPSB2CEACAM8CSF3RCXCR2FCGR3BFCN1IL1BS100A8S100A9VCANC1QBC1QCHLA-DRAHLA-DRB1F13A1CD3DCD3GCD4CD8AIL7RBANK1CD19MS4A1DERL3IGHA1GZMANKG7PRF1T-cells c-0Macrophages c-1Prostatic glandular cells c-2Prostatic glandular cells c-3Prostatic hillock cells c-4Vascular endothelial cells c-5Prostatic club cells c-6Neutrophils c-7Prostatic glandular cells c-8Prostatic club cells c-9Prostatic glandular cells c-10Basal prostatic cells c-11Prostatic glandular cells c-12Prostatic glandular cells c-13Macrophages c-14Fibroblasts c-15T-cells c-16Vascular smooth muscle cells c-17Prostatic hillock cells c-18Monocytes c-19Prostatic glandular cells c-20Fibroblasts c-21B-cells c-22T-cells c-23Pericytes c-24Vascular endothelial cells c-25NK-cells c-26Fibroblasts c-27Vascular endothelial cells c-28Lymphatic endothelial cells c-29Mast cells c-30Cycling epithelial cells c-31Myonuclei c-32Current geneProstatic hillock cellsBasal prostatic cellsProstatic glandular cellsProstatic club cellsMyonucleiSmooth muscle cellsVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsFibroblastsMast cellsNeutrophilsMonocytesMacrophagesT-cellsB-cellsPlasma cellsNK-cells00.250.50.751-4-2024
                                          Max-norm
                                          Z-score
                                          Fraction of highest expression (≥1 nTPM)
                                          log2(nTPM+1) z-score
                                          GET1KRT13KRT4TMPRSS4KRT5TP63KLK2KLK3MSMBBPIFB1PIGRSCGB3A1CKMMBACTG2DESMYH11PECAM1VWFACKR1POSTNHEY1HEY2SEMA3GCA4RGCCLYVE1PROX1PDGFRBRGS5STEAP4ACTA2CNN1COL1A1DCNFBLN2PDGFRACPA3TPSAB1TPSB2CEACAM8CSF3RCXCR2FCGR3BFCN1IL1BS100A8S100A9VCANC1QBC1QCHLA-DRAHLA-DRB1F13A1CD3DCD3GCD4CD8AIL7RBANK1CD19MS4A1DERL3IGHA1GZMANKG7PRF1Basal cell of prostate epithelium c-0Epithelial cell c-1Fibroblast c-2Hillock-club cell of prostate epithelium c-3Macrophage c-4Nkt cell c-5Erythroid progenitor c-6Cd8-positive, alpha-beta t cell c-7Cd8b-positive nk t cell c-8Luminal cell of prostate epithelium c-9Endothelial cell c-10Smooth muscle cell c-11Stromal cell c-12Monocyte c-13T cell c-14Club cell of prostate epithelium c-15Neutrophil c-16Myeloid cell c-17Hillock cell of prostate epithelium c-18Sperm c-19Mast cell c-20Current geneProstatic hillock cellsBasal prostatic cellsProstatic glandular cellsProstatic club cellsMyonucleiSmooth muscle cellsVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsFibroblastsMast cellsNeutrophilsMonocytesMacrophagesT-cellsB-cellsPlasma cellsNK-cells00.250.50.751-4-2024
                                          GET1 ACP3CPNE4KLK3DLK2FLRT3KRT5MUC4OLFM4TMPRSS4CDH5ESAMMMRN2DESJPH2MYL9COL14A1DCNFBLN1C1QALRRC25VSIG4CD2CD3DCD6IGHG1IGKCJCHAINACP3CPNE4KLK3DLK2FLRT3KRT5MUC4OLFM4TMPRSS4CDH5ESAMMMRN2DESJPH2MYL9COL14A1DCNFBLN1C1QALRRC25VSIG4CD2CD3DCD6IGHG1IGKCJCHAINCurrent geneProstate glandular cellsProstate basal glandular cellsUrothelial cellsEndothelial cellsSmooth muscle cellsFibroblastsMacrophagesT-cellsPlasma cells<00.250.50.751
                                           

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