Cell type atlas - MDK - The Human Protein Atlas

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MDK

SUMMARY

TISSUE

CELL TYPE

PATHOLOGY

BRAIN

BLOOD

CELL

GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	MDK
Gene descriptionⁱ Full gene name according to HGNC.	Midkine
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location. Read more	Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	9

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Cell type enhanced (Paneth cells, Intestinal endocrine cells, Urothelial cells)
Blood cell specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Cell type enhanced (neutrophil, memory B-cell)
Blood cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in some
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines.	Cell line enhanced (NTERA-2, REH, SH-SY5Y)
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines.	Detected in many
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data. Read more	Protein predicted to be secreted

SINGLE CELL TYPESⁱ A summary of single cell RNA (NX) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types Group Expression Alphabetical RNA single cell type specificity: Cell type enhanced (Paneth cells, Intestinal endocrine cells, Urothelial cells)

SINGLE CELL TISSUESⁱ Single cell RNA in cell types from tissue are shown separately for each analyzed tissue. For easier navigation across tissues, use the grey browser on the left side of the window. Barchart shows pTPM levels in each cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ RNA expression data (NX) of tissue culture cell lines.The analyzed cell lines are divided into 16 color-coded groups according to the organ they were obtained from. Detailed information about a specific cell line is revealed by hovering over the corresponding bar in the chart. The chart is clickable and redirects to more Cell Atlas data. Read more
Organ Expression Alphabetical

Alveolar cells type 1	0 NX
Lung	0 NX

Alveolar cells type 2	5 NX
Lung	5 NX

B-cells	2 NX
Colon	18 NX
Liver	2 NX
Kidney	0 NX

Basal glandular cells	143 NX
Prostate	143 NX

Basal keratinocytes	10 NX
Skin	10 NX

Bipolar cells	0 NX
Eye	0 NX

Cardiomyocytes	6 NX
Heart muscle	6 NX

Cholangiocytes	41 NX
Liver	41 NX

Ciliated cells	42 NX
Lung	42 NX

Club cells	47 NX
Lung	47 NX

Collecting duct cells	45 NX
Kidney	45 NX

Cone photoreceptor cells	0 NX
Eye	0 NX

Cytotrophoblasts	140 NX
Placenta	140 NX

Distal tubular cells	2 NX
Kidney	2 NX

Ductal cells	218 NX
Pancreas	218 NX

Early spermatids	16 NX
Testis	16 NX

Endothelial cells	56 NX
Placenta	560 NX
Skin	106 NX
Pancreas	104 NX
Prostate	59 NX
Liver	56 NX
Testis	45 NX
Eye	32 NX
Lung	29 NX
Heart muscle	23 NX

Enterocytes	414 NX
Small intestine	608 NX
Rectum	493 NX
Colon	125 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	92 NX
Pancreas	92 NX

Extravillous trophoblasts	98 NX
Placenta	98 NX

Fibroblasts	99 NX
Placenta	1243 NX
Prostate	92 NX
Lung	92 NX
Skin	74 NX
Heart muscle	30 NX

Glandular cells	136 NX
Prostate	136 NX

Granulocytes	5 NX
Colon	9 NX
Lung	0 NX

Hepatocytes	6 NX
Liver	6 NX

Hofbauer cells	43 NX
Placenta	43 NX

Horizontal cells	0 NX
Eye	0 NX

Intestinal endocrine cells	971 NX
Rectum	1161 NX
Colon	782 NX

Ito cells	77 NX
Liver	77 NX

Kupffer cells	4 NX
Liver	4 NX

Late spermatids	91 NX
Testis	91 NX

Leydig cells	102 NX
Testis	102 NX

Macrophages	7 NX
Prostate	18 NX
Skin	10 NX
Lung	7 NX
Kidney	5 NX
Pancreas	5 NX
Testis	3 NX

Melanocytes	35 NX
Skin	35 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	16 NX
Pancreas	16 NX

Mucus-secreting cells	246 NX
Small intestine	536 NX
Colon	270 NX
Rectum	178 NX

Muller glia cells	24 NX
Eye	24 NX

Pancreatic endocrine cells	204 NX
Pancreas	204 NX

Paneth cells	1226 NX
Small intestine	1792 NX
Colon	1226 NX
Rectum	449 NX

Peritubular cells	18 NX
Testis	18 NX

Proximal tubular cells	14 NX
Kidney	14 NX

Rod photoreceptor cells	1 NX
Eye	1 NX

Sertoli cells	84 NX
Testis	84 NX

Smooth muscle cells	57 NX
Pancreas	107 NX
Prostate	57 NX
Skin	53 NX
Heart muscle	31 NX

Spermatocytes	15 NX
Testis	15 NX

Spermatogonia	29 NX
Testis	29 NX

Suprabasal keratinocytes	7 NX
Skin	7 NX

Syncytiotrophoblasts	128 NX
Placenta	128 NX

T-cells	3 NX
Prostate	26 NX
Colon	16 NX
Skin	12 NX
Kidney	3 NX
Lung	2 NX
Liver	1 NX

Undifferentiated cells	127 NX
Small intestine	311 NX
Colon	96 NX
Rectum	75 NX

Urothelial cells	440 NX
Prostate	440 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.