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
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.
BULK RNA DECONVOLUTION
DVP - KIDNEYi
Relative protein amount measured using Deep Visual Proteomics. Here, on the detail page, all the biological replicates are shown, compared to the median value displayed on the gene summary page. The matched, selected single cell type clusters for the RNA-Protein comparison is also shown. The selected Cell Type clusters have the same name and ID as in the original dataset, above.
Below, we show a thumbnail overview of the tissue section used for the DVP, as well as smaller cropped area, that is clickable for a high-resolution zoomable image, where you can switch on and off the segmentation mask that was used for sample collection.
Learn more about the DVP method and different markers used the cell types here
Immunofluorescence image with DVP segmentation contours, high resolution cropped area with cell type markers (More info). This is kidney, and includes EpCAM as general epithelial marker as well as AQP1 labeling proximal tubules and L1CAM labeling of collecting ducts.
Cell type
Glomeruli
RNA
Cluster
Cell type
Expression (nCPM)
c-22
Podocytes
c-23
Glomerular capillary endoth...
Protein
Sample name
Intensity
Glomeruli_01
Glomeruli_02
Glomeruli_03
Glomeruli_04
Immunofluorescence image with DVP segmentation contours, high resolution cropped area with cell type markers (More info). This is kidney, and includes PODXL labeling of glomerular podocytes.
Cell type
Proximal tubules
RNA
Cluster
Cell type
Expression (nCPM)
c-0
Proximal tubule S1/2
c-14
Proximal tubule S3
Protein
Sample name
Intensity
Proximal tubules_01
Proximal tubules_02
Proximal tubules_03
Proximal tubules_04
Proximal tubules_05
Immunofluorescence image with DVP segmentation contours, high resolution cropped area with cell type markers (More info). This is kidney, and includes EpCAM as general epithelial marker as well as AQP1 labeling proximal tubules and L1CAM labeling of collecting ducts.
Cell type
Distal tubules
RNA
Cluster
Cell type
Expression (nCPM)
c-5
Distal convoluted tubule ce
c-26
Thick ascending limb (dedif...
Protein
Sample name
Intensity
Distal tubules_01
Distal tubules_02
Distal tubules_03
Distal tubules_04
Distal tubules_05
Immunofluorescence image with DVP segmentation contours, high resolution cropped area with cell type markers (More info). This is kidney, and includes EpCAM as general epithelial marker as well as AQP1 labeling proximal tubules and L1CAM labeling of collecting ducts.
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The Human Protein Atlas project is funded
