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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 ADIPOSE TISSUE 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
                                          Specialized epithelial cells
                                          Mesenchymal cells
                                          Blood and immune cells
                                          Endothelial and mural cells
                                          Muscle cells
                                          Glial cells
                                          Methods
                                          Cell type enrichment
                                          Adipose tissue
                                          Methods
                                          ADIPOSE TISSUE DETAIL SUMMARY
                                          Mesothelial cellsVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsAdipocytesFibro-adipogenic progenitorsMast cellsMacrophagesB-cellsCDC0246810nCPMSpecialized epithelial cellsEndothelial and mural cellsMesenchymal cellsBlood and immune cells
                                          SINGLE CELL TYPE - ADIPOSE TISSUEi

                                          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:
                                           
                                          −10−5051015−10−5051015
                                          c-0c-1c-2c-3c-4c-5c-6c-7c-8c-9c-10c-11c-12c-13c-14c-15c-16c-17c-18c-19c-20c-21c-22c-23c-24c-25c-26c-27
                                          Cluster Cell type Expression (nCPM)
                                          0 10
                                          c-0 Mesothelial cells
                                          c-1 Mature adipocytes
                                          c-2 Mature adipocytes
                                          c-3 Macrophages
                                          c-4 Mesothelial cells
                                          c-5 Fibro-adipogenic progenitor
                                          c-6 Fibro-adipogenic progenitor
                                          c-7 Fibro-adipogenic progenitor
                                          c-8 T-cells
                                          c-9 Early adipocytes
                                          c-10 Venous endothelial cells
                                          c-11 Capillary endothelial cells
                                          c-12 Mixed immune
                                          c-13 Arterial endothelial cells
                                          c-14 Lymphatic endothelial cells
                                          c-15 Pericytes
                                          c-16 Monocytes/macrophages
                                          c-17 Mast cells
                                          c-18 Vascular smooth muscle cell
                                          c-19 Vascular smooth muscle cell
                                          c-20 Conventional dendritic cell
                                          c-21 B-cells
                                          c-22 NMJ Myonuclei
                                          c-23 Conventional dendritic cell
                                          c-24 Plasmacytoid DCs
                                          c-25 Lymphoid DCs
                                          c-26 Stromal cells
                                          c-27 Schwann cells
                                          SINGLE CELL TYPE TABULA SAPIENS - ADIPOSE TISSUEi

                                          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
                                           
                                          −10−5051015−5051015
                                          c-0c-1c-2c-3c-4c-5c-6c-7c-8c-9c-10c-11c-12
                                          Cluster Cell type Expression (nCPM)
                                          0 90
                                          c-0 Fibroblast
                                          c-1 Endothelial cell
                                          c-2 T cell
                                          c-3 Macrophage
                                          c-4 Nk cell
                                          c-5 Myofibroblast cell
                                          c-6 Leucocyte
                                          c-7 Plasma cell
                                          c-8 Mesenchymal stem cell
                                          c-9 Smooth muscle cell
                                          c-10 Neutrophil
                                          c-11 Mast cell
                                          c-12 B cell
                                          TISSUE CELL TYPE - ADIPOSE SUBCUTANEOUSi

                                          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
                                          Adipocytes (Subcutaneous)Endothelial cellsSmooth muscle cellsAdipose progenitor cellsMacrophagesMast cellsT-cellsPlasma cells0.30.40.50.60.70.80.91.0EnrichmentMesenchymal cellsEndothelial and mural cellsMuscle cellsBlood and immune cells
                                          TISSUE CELL TYPE - ADIPOSE VISCERALi

                                          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
                                          Adipocytes (Visceral)Mesothelial cellsEndothelial cellsSmooth muscle cellsAdipose progenitor cellsMacrophagesNeutrophilsMast cellsT-cellsPlasma cells0.30.40.50.60.70.80.91.0EnrichmentMesenchymal cellsSpecialized epithelial 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 - ADIPOSE SUBCUTANEOUS
                                          TISSUE CELL TYPE - ADIPOSE VISCERAL
                                          Max-norm
                                          Z-score
                                          Fraction of highest expression (≥1 nTPM)
                                          log2(nTPM+1) z-score
                                          GET1S100BMBPMPZCDH19L1CAMITLN1MSLNUPK3BCKMMBPECAM1VWFACKR1POSTNHEY1HEY2SEMA3GCA4RGCCLYVE1PROX1PDGFRBRGS5STEAP4ACTA2CNN1MYH11ADIPOQFABP4LIPEPLIN1CD34PDGFRATCF7L2CPA3TPSAB1TPSB2FCN1IL1BS100A8S100A9VCANC1QBC1QCHLA-DRAHLA-DRB1F13A1CD3DCD3GCD4CD8AIL7RBANK1CD19MS4A1CLEC9AIRF8CD1CCLEC10ACCR7LAMP3CLEC4CIL3RAIRF7Mesothelial cells c-0Adipocytes c-1Adipocytes c-2Macrophages c-3Mesothelial cells c-4Fibro-adipogenic progenitors c-5Fibro-adipogenic progenitors c-6Fibro-adipogenic progenitors c-7T-cells c-8Adipocytes c-9Vascular endothelial cells c-10Vascular endothelial cells c-11Mixed immune c-12Vascular endothelial cells c-13Lymphatic endothelial cells c-14Pericytes c-15Monocytes c-16Mast cells c-17Vascular smooth muscle cells c-18Vascular smooth muscle cells c-19CDC c-20B-cells c-21Skeletal muscle cells c-22CDC c-23PDCs c-24CDC c-25Stromal cells c-26Schwann cells c-27Current geneSchwann cellsMesothelial cellsMyonucleiVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsAdipocytesFibro-adipogenic progenitorsMast cellsMonocytesMacrophagesT-cellsB-cellsCDCPDCs00.250.50.751-4-2024
                                          Max-norm
                                          Z-score
                                          Fraction of highest expression (≥1 nTPM)
                                          log2(nTPM+1) z-score
                                          GET1S100BMBPMPZCDH19L1CAMITLN1MSLNUPK3BCKMMBPECAM1VWFACKR1POSTNHEY1HEY2SEMA3GCA4RGCCLYVE1PROX1PDGFRBRGS5STEAP4ACTA2CNN1MYH11ADIPOQFABP4LIPEPLIN1CD34PDGFRATCF7L2CPA3TPSAB1TPSB2FCN1IL1BS100A8S100A9VCANC1QBC1QCHLA-DRAHLA-DRB1F13A1CD3DCD3GCD4CD8AIL7RBANK1CD19MS4A1CLEC9AIRF8CD1CCLEC10ACCR7LAMP3CLEC4CIL3RAIRF7Fibroblast c-0Endothelial cell c-1T cell c-2Macrophage c-3Nk cell c-4Myofibroblast cell c-5Leucocyte c-6Plasma cell c-7Mesenchymal stem cell c-8Smooth muscle cell c-9Neutrophil c-10Mast cell c-11B cell c-12Current geneSchwann cellsMesothelial cellsMyonucleiVascular endothelial cellsLymphatic endothelial cellsPericytesVascular smooth muscle cellsAdipocytesFibro-adipogenic progenitorsMast cellsMonocytesMacrophagesT-cellsB-cellsCDCPDCs00.250.50.751-4-2024
                                          GET1 ADIPOQLIPEPLIN1CDH5ESAMMMRN2CNN1KCNMB1MYH11COL6A1COL6A2FKBP10C1QCCD68FCER1GCPA3TPSAB1TPSB2CD3ECD6TRBC2IGKCJCHAINMZB1ADIPOQLIPEPLIN1CDH5ESAMMMRN2CNN1KCNMB1MYH11COL6A1COL6A2FKBP10C1QCCD68FCER1GCPA3TPSAB1TPSB2CD3ECD6TRBC2IGKCJCHAINMZB1Current geneAdipocytes (Subcutaneous)Endothelial cellsSmooth muscle cellsAdipose progenitor cellsMacrophagesMast cellsT-cellsPlasma cells<00.250.50.751
                                          GET1 ADIPOQLIPEPLIN1KRT19MSLNUPK3BCDH5ESAMMMRN2CNN1KCNMB1MYH11COL6A1COL6A2FKBP10C1QCCD68FCER1GCSF3RCXCR2FCGR3BCPA3TPSAB1TPSB2CD3ECD6TRBC2IGKCJCHAINMZB1ADIPOQLIPEPLIN1KRT19MSLNUPK3BCDH5ESAMMMRN2CNN1KCNMB1MYH11COL6A1COL6A2FKBP10C1QCCD68FCER1GCSF3RCXCR2FCGR3BCPA3TPSAB1TPSB2CD3ECD6TRBC2IGKCJCHAINMZB1Current geneAdipocytes (Visceral)Mesothelial cellsEndothelial cellsSmooth muscle cellsAdipose progenitor cellsMacrophagesNeutrophilsMast cellsT-cellsPlasma cells<00.250.50.751
                                           

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