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SLC35F5
HPA
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                                        • SUMMARY

                                        • TISSUE

                                        • BRAIN

                                        • SINGLE CELL

                                        • SUBCELL

                                        • CANCER

                                        • BLOOD

                                        • CELL LINE

                                        • STRUCT & INT

                                        • SLC35F5
                                        SINGLE CELL EYE Show tissue menu
                                        ADIPOSE TISSUE ADRENAL GLAND BONE MARROW BRAIN BREAST BRONCHUS COLON ENDOMETRIUM ESOPHAGUS EYE
                                        FALLOPIAN TUBE HEART MUSCLE KIDNEY LIVER LUNG LYMPH NODE OVARY PANCREAS PBMC PITUITARY GLAND
                                        PLACENTA PROSTATE RECTUM SALIVARY GLAND SKELETAL MUSCLE SKIN SMALL INTESTINE SPLEEN STOMACH TESTIS
                                        THYMUS THYROID GLAND TONGUE VASCULAR
                                        Single cell type
                                        Tabula sapiens
                                        Tissue cell type
                                        SINGLE CELL TYPE TABULA SAPIENS CELL TYPE MARKERS
                                        Cell type proteome
                                        Neuronal cells
                                        Glial cells
                                        SINGLE CELL TYPE - EYEi

                                        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%,โ‰ฅ75%)


                                        - 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 (nTPM)
                                        0 40
                                        c-0 Rod photoreceptor cells
                                        c-1 Bipolar cells
                                        c-2 Muller glia cells
                                        c-3 Bipolar cells
                                        c-4 Rod photoreceptor cells
                                        c-5 Horizontal cells
                                        c-6 Muller glia cells
                                        c-7 Muller glia cells
                                        c-8 Rod photoreceptor cells
                                        c-9 Muller glia cells
                                        c-10 Cone photoreceptor cells
                                        c-11 Bipolar cells
                                        SINGLE CELL TYPE TABULA SAPIENS - EYEi

                                        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%,โ‰ฅ75%)


                                          - 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.
                                        Read more
                                        Cell type color
                                        Cluster color
                                        Colored according to cell type group
                                        Colored according to clusters
                                        Read count filter: 0
                                         
                                        Cluster Cell type Expression (nTPM)
                                        0 130
                                        c-0 Conjunctival epithelial cell
                                        c-1 Monocyte
                                        c-2 Microglial cell
                                        c-3 Eye photoreceptor cell
                                        c-4 Muller cell
                                        c-5 Fibroblast
                                        c-6 T cell
                                        c-7 Limbal stem cell
                                        c-8 Retinal blood vessel endothelial cell
                                        c-9 Epithelial cell of lacrimal sac
                                        c-10 Corneal keratocyte
                                        c-11 B cell
                                        c-12 Retinal pigment epithelial cell
                                        c-13 Corneal epithelial cell
                                        c-14 Limbal stromal cell
                                        c-15 Melanocyte
                                        c-16 Retinal bipolar neuron
                                        c-17 Dendritic cell
                                        c-18 Plasma cell
                                        c-19 Lacrimal gland functional unit cell
                                        c-20 Macrophage
                                        c-21 Erythroid lineage cell
                                        c-22 Radial glial cell
                                        c-23 Ocular surface cell
                                        c-24 Cd8-positive, alpha-beta t cell
                                        c-25 Endothelial cell
                                        c-26 Retina horizontal cell
                                        c-27 Ciliary body
                                        c-28 Cd4-positive, alpha-beta t cell
                                        c-29 Mast cell
                                        c-30 Adipocyte
                                        c-31 Retinal ganglion cell
                                        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
                                        Max-norm
                                        Z-score
                                        Fraction of highest expression (โ‰ฅ1 nTPM)
                                        log2(nTPM+1) z-score
                                        SLC35F5CD19CR2MS4A1GZMBIL3RACEBPEHDCMS4A2CD163CD68MARCOMRC1MSR1FCGR3AKIR2DL4PIM2CD3ECD4CD8AFOXP3IL17ACD34PECAM1SELESLC2A1VWFAPOECLUGLULMBPMPZS100BSOX10COL3A1FBN1LUMACTA2ACTG2CNN1MYH11CAMK2BGRM6TRPM1GNAT2OPN1LWOPN1MWLHX1ONECUT1ONECUT2NR2E3PDE6ASAGRod photoreceptor cells c-0Bipolar cells c-1Muller glia cells c-2Bipolar cells c-3Rod photoreceptor cells c-4Horizontal cells c-5Muller glia cells c-6Muller glia cells c-7Rod photoreceptor cells c-8Muller glia cells c-9Cone photoreceptor cells c-10Bipolar cells c-11Current geneB-cellsDendritic cellsGranulocytesMacrophagesMonocytesNK-cellsPlasma cellsT-cellsEndothelial cellsMuller glia cellsSchwann cellsFibroblastsSmooth muscle cellsBipolar cellsCone photoreceptor cellsHorizontal cellsRod photoreceptor cells00.250.50.751-4-2024
                                        Max-norm
                                        Z-score
                                        Fraction of highest expression (โ‰ฅ1 nTPM)
                                        log2(nTPM+1) z-score
                                        SLC35F5CD19CR2MS4A1GZMBIL3RACEBPEHDCMS4A2CD163CD68MARCOMRC1MSR1FCGR3AKIR2DL4PIM2CD3ECD4CD8AFOXP3IL17ACD34PECAM1SELESLC2A1VWFAPOECLUGLULMBPMPZS100BSOX10COL3A1FBN1LUMACTA2ACTG2CNN1MYH11CAMK2BGRM6TRPM1GNAT2OPN1LWOPN1MWLHX1ONECUT1ONECUT2NR2E3PDE6ASAGConjunctival epithelial cell c-0Monocyte c-1Microglial cell c-2Eye photoreceptor cell c-3Muller cell c-4Fibroblast c-5T cell c-6Limbal stem cell c-7Retinal blood vessel endothelial cell c-8Epithelial cell of lacrimal sac c-9Corneal keratocyte c-10B cell c-11Retinal pigment epithelial cell c-12Corneal epithelial cell c-13Limbal stromal cell c-14Melanocyte c-15Retinal bipolar neuron c-16Dendritic cell c-17Plasma cell c-18Lacrimal gland functional unit cell c-19Macrophage c-20Erythroid lineage cell c-21Radial glial cell c-22Ocular surface cell c-23Cd8-positive, alpha-beta t cell c-24Endothelial cell c-25Retina horizontal cell c-26Ciliary body c-27Cd4-positive, alpha-beta t cell c-28Mast cell c-29Adipocyte c-30Retinal ganglion cell c-31Current geneB-cellsDendritic cellsGranulocytesMacrophagesMonocytesNK-cellsPlasma cellsT-cellsEndothelial cellsMuller glia cellsSchwann cellsFibroblastsSmooth muscle cellsBipolar cellsCone photoreceptor cellsHorizontal cellsRod photoreceptor cells00.250.50.751-4-2024
                                         

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