Cell type atlas - PAICS - The Human Protein Atlas

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PAICS

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.	PAICS
Gene descriptionⁱ Full gene name according to HGNC.	Phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Plasma proteins
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.	5

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 (Extravillous trophoblasts)
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 many
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: Cell type enhanced (Extravillous trophoblasts)

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	21 NX
Lung	21 NX

Alveolar cells type 2	19 NX
Lung	19 NX

B-cells	32 NX
Liver	63 NX
Kidney	36 NX
Colon	27 NX

Basal glandular cells	58 NX
Prostate	58 NX

Basal keratinocytes	50 NX
Skin	50 NX

Bipolar cells	26 NX
Eye	26 NX

Cardiomyocytes	21 NX
Heart muscle	21 NX

Cholangiocytes	56 NX
Liver	56 NX

Ciliated cells	21 NX
Lung	21 NX

Club cells	32 NX
Lung	32 NX

Collecting duct cells	31 NX
Kidney	31 NX

Cone photoreceptor cells	6 NX
Eye	6 NX

Cytotrophoblasts	117 NX
Placenta	117 NX

Distal tubular cells	32 NX
Kidney	32 NX

Ductal cells	31 NX
Pancreas	31 NX

Early spermatids	46 NX
Testis	46 NX

Endothelial cells	22 NX
Placenta	43 NX
Prostate	38 NX
Heart muscle	25 NX
Testis	24 NX
Pancreas	22 NX
Lung	20 NX
Skin	19 NX
Eye	17 NX
Liver	7 NX

Enterocytes	14 NX
Small intestine	16 NX
Rectum	12 NX
Colon	6 NX

Erythroid cells	47 NX
Liver	47 NX

Exocrine glandular cells	23 NX
Pancreas	23 NX

Extravillous trophoblasts	137 NX
Placenta	137 NX

Fibroblasts	36 NX
Placenta	51 NX
Lung	50 NX
Heart muscle	36 NX
Prostate	35 NX
Skin	15 NX

Glandular cells	29 NX
Prostate	29 NX

Granulocytes	21 NX
Colon	28 NX
Lung	14 NX

Hepatocytes	69 NX
Liver	69 NX

Hofbauer cells	46 NX
Placenta	46 NX

Horizontal cells	27 NX
Eye	27 NX

Intestinal endocrine cells	24 NX
Rectum	37 NX
Colon	10 NX

Ito cells	12 NX
Liver	12 NX

Kupffer cells	16 NX
Liver	16 NX

Late spermatids	7 NX
Testis	7 NX

Leydig cells	28 NX
Testis	28 NX

Macrophages	17 NX
Kidney	22 NX
Prostate	22 NX
Testis	18 NX
Lung	15 NX
Pancreas	14 NX
Skin	12 NX

Melanocytes	17 NX
Skin	17 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	23 NX
Pancreas	23 NX

Mucus-secreting cells	35 NX
Colon	36 NX
Rectum	34 NX
Small intestine	31 NX

Muller glia cells	13 NX
Eye	13 NX

Pancreatic endocrine cells	23 NX
Pancreas	23 NX

Paneth cells	7 NX
Rectum	38 NX
Small intestine	7 NX
Colon	6 NX

Peritubular cells	22 NX
Testis	22 NX

Proximal tubular cells	41 NX
Kidney	41 NX

Rod photoreceptor cells	23 NX
Eye	23 NX

Sertoli cells	0 NX
Testis	0 NX

Smooth muscle cells	18 NX
Pancreas	79 NX
Prostate	29 NX
Skin	17 NX
Heart muscle	12 NX

Spermatocytes	39 NX
Testis	39 NX

Spermatogonia	48 NX
Testis	48 NX

Suprabasal keratinocytes	44 NX
Skin	44 NX

Syncytiotrophoblasts	46 NX
Placenta	46 NX

T-cells	16 NX
Prostate	22 NX
Lung	17 NX
Colon	17 NX
Kidney	15 NX
Skin	15 NX
Liver	10 NX

Undifferentiated cells	65 NX
Small intestine	65 NX
Colon	65 NX
Rectum	53 NX

Urothelial cells	44 NX
Prostate	44 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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