Cell type atlas - CRIPT - The Human Protein Atlas

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CRIPT

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.	CRIPT
Gene descriptionⁱ Full gene name according to HGNC.	CXXC repeat containing interactor of PDZ3 domain
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease 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	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	1

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	Low cell type specificity
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	Low cell type specificity
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 all
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.	Low cell line specificity
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 all
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

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: Low cell type specificity

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	18 NX
Lung	18 NX

Alveolar cells type 2	11 NX
Lung	11 NX

B-cells	43 NX
Liver	52 NX
Kidney	45 NX
Colon	31 NX

Basal glandular cells	56 NX
Prostate	56 NX

Basal keratinocytes	38 NX
Skin	38 NX

Bipolar cells	28 NX
Eye	28 NX

Cardiomyocytes	54 NX
Heart muscle	54 NX

Cholangiocytes	41 NX
Liver	41 NX

Ciliated cells	29 NX
Lung	29 NX

Club cells	31 NX
Lung	31 NX

Collecting duct cells	30 NX
Kidney	30 NX

Cone photoreceptor cells	24 NX
Eye	24 NX

Cytotrophoblasts	50 NX
Placenta	50 NX

Distal tubular cells	58 NX
Kidney	58 NX

Ductal cells	56 NX
Pancreas	56 NX

Early spermatids	25 NX
Testis	25 NX

Endothelial cells	30 NX
Pancreas	43 NX
Placenta	34 NX
Prostate	33 NX
Liver	32 NX
Skin	31 NX
Testis	26 NX
Eye	25 NX
Lung	20 NX
Heart muscle	13 NX

Enterocytes	50 NX
Small intestine	66 NX
Rectum	39 NX
Colon	20 NX

Erythroid cells	47 NX
Liver	47 NX

Exocrine glandular cells	35 NX
Pancreas	35 NX

Extravillous trophoblasts	69 NX
Placenta	69 NX

Fibroblasts	37 NX
Placenta	42 NX
Prostate	38 NX
Heart muscle	36 NX
Skin	33 NX
Lung	22 NX

Glandular cells	49 NX
Prostate	49 NX

Granulocytes	28 NX
Colon	28 NX
Lung	28 NX

Hepatocytes	50 NX
Liver	50 NX

Hofbauer cells	43 NX
Placenta	43 NX

Horizontal cells	16 NX
Eye	16 NX

Intestinal endocrine cells	63 NX
Colon	78 NX
Rectum	47 NX

Ito cells	26 NX
Liver	26 NX

Kupffer cells	42 NX
Liver	42 NX

Late spermatids	11 NX
Testis	11 NX

Leydig cells	34 NX
Testis	34 NX

Macrophages	29 NX
Pancreas	59 NX
Kidney	55 NX
Testis	31 NX
Prostate	27 NX
Skin	25 NX
Lung	24 NX

Melanocytes	29 NX
Skin	29 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	45 NX
Pancreas	45 NX

Mucus-secreting cells	35 NX
Small intestine	42 NX
Colon	35 NX
Rectum	29 NX

Muller glia cells	31 NX
Eye	31 NX

Pancreatic endocrine cells	60 NX
Pancreas	60 NX

Paneth cells	60 NX
Colon	63 NX
Small intestine	60 NX
Rectum	35 NX

Peritubular cells	24 NX
Testis	24 NX

Proximal tubular cells	73 NX
Kidney	73 NX

Rod photoreceptor cells	49 NX
Eye	49 NX

Sertoli cells	19 NX
Testis	19 NX

Smooth muscle cells	42 NX
Pancreas	65 NX
Prostate	42 NX
Heart muscle	42 NX
Skin	39 NX

Spermatocytes	56 NX
Testis	56 NX

Spermatogonia	45 NX
Testis	45 NX

Suprabasal keratinocytes	46 NX
Skin	46 NX

Syncytiotrophoblasts	80 NX
Placenta	80 NX

T-cells	36 NX
Prostate	65 NX
Colon	63 NX
Kidney	50 NX
Liver	35 NX
Skin	34 NX
Lung	26 NX

Undifferentiated cells	29 NX
Small intestine	42 NX
Rectum	29 NX
Colon	20 NX

Urothelial cells	52 NX
Prostate	52 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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