Cell type atlas - C1R - The Human Protein Atlas

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C1R

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.	C1R
Gene descriptionⁱ Full gene name according to HGNC.	Complement C1r
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Enzymes FDA approved drug targets 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,Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	8

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	Group enriched (Hepatocytes, Leydig cells, Fibroblasts, Peritubular 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	Group enriched (memory CD8 T-cell, NK-cell, naive CD8 T-cell, naive CD4 T-cell, neutrophil, MAIT T-cell, eosinophil, gdT-cell, T-reg, memory CD4 T-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 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.	Cell line enhanced (ASC diff, ASC TERT1, BJ hTERT+, BJ hTERT+ SV40 Large T+ RasG12V, HSkMC)
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: Group enriched (Hepatocytes, Leydig cells, Fibroblasts, Peritubular 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	21 NX
Lung	21 NX

Alveolar cells type 2	85 NX
Lung	85 NX

B-cells	28 NX
Liver	63 NX
Kidney	0 NX
Colon	0 NX

Basal glandular cells	54 NX
Prostate	54 NX

Basal keratinocytes	49 NX
Skin	49 NX

Bipolar cells	0 NX
Eye	0 NX

Cardiomyocytes	15 NX
Heart muscle	15 NX

Cholangiocytes	168 NX
Liver	168 NX

Ciliated cells	7 NX
Lung	7 NX

Club cells	34 NX
Lung	34 NX

Collecting duct cells	17 NX
Kidney	17 NX

Cone photoreceptor cells	2 NX
Eye	2 NX

Cytotrophoblasts	3 NX
Placenta	3 NX

Distal tubular cells	3 NX
Kidney	3 NX

Ductal cells	164 NX
Pancreas	164 NX

Early spermatids	4 NX
Testis	4 NX

Endothelial cells	51 NX
Lung	82 NX
Eye	77 NX
Liver	59 NX
Testis	58 NX
Heart muscle	52 NX
Skin	47 NX
Prostate	39 NX
Pancreas	22 NX
Placenta	20 NX

Enterocytes	0 NX
Colon	1 NX
Rectum	0 NX
Small intestine	0 NX

Erythroid cells	23 NX
Liver	23 NX

Exocrine glandular cells	39 NX
Pancreas	39 NX

Extravillous trophoblasts	5 NX
Placenta	5 NX

Fibroblasts	463 NX
Prostate	1015 NX
Heart muscle	769 NX
Skin	510 NX
Lung	482 NX
Placenta	115 NX

Glandular cells	14 NX
Prostate	14 NX

Granulocytes	9 NX
Lung	19 NX
Colon	0 NX

Hepatocytes	1386 NX
Liver	1386 NX

Hofbauer cells	10 NX
Placenta	10 NX

Horizontal cells	0 NX
Eye	0 NX

Intestinal endocrine cells	0 NX
Rectum	0 NX
Colon	0 NX

Ito cells	129 NX
Liver	129 NX

Kupffer cells	25 NX
Liver	25 NX

Late spermatids	9 NX
Testis	9 NX

Leydig cells	1058 NX
Testis	1058 NX

Macrophages	10 NX
Skin	48 NX
Testis	11 NX
Lung	11 NX
Prostate	10 NX
Pancreas	2 NX
Kidney	1 NX

Melanocytes	51 NX
Skin	51 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	3 NX
Pancreas	3 NX

Mucus-secreting cells	1 NX
Colon	1 NX
Rectum	1 NX
Small intestine	1 NX

Muller glia cells	15 NX
Eye	15 NX

Pancreatic endocrine cells	74 NX
Pancreas	74 NX

Paneth cells	1 NX
Colon	3 NX
Rectum	1 NX
Small intestine	0 NX

Peritubular cells	365 NX
Testis	365 NX

Proximal tubular cells	5 NX
Kidney	5 NX

Rod photoreceptor cells	1 NX
Eye	1 NX

Sertoli cells	168 NX
Testis	168 NX

Smooth muscle cells	98 NX
Prostate	407 NX
Skin	146 NX
Heart muscle	98 NX
Pancreas	75 NX

Spermatocytes	6 NX
Testis	6 NX

Spermatogonia	4 NX
Testis	4 NX

Suprabasal keratinocytes	35 NX
Skin	35 NX

Syncytiotrophoblasts	4 NX
Placenta	4 NX

T-cells	13 NX
Skin	44 NX
Liver	25 NX
Prostate	13 NX
Lung	10 NX
Kidney	1 NX
Colon	1 NX

Undifferentiated cells	1 NX
Rectum	1 NX
Small intestine	1 NX
Colon	1 NX

Urothelial cells	10 NX
Prostate	10 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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