Single cell type - CYTH3 - The Human Protein Atlas

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.	CYTH3
Gene descriptionⁱ Full gene name according to HGNC.	Cytohesin 3
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.	2

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity. Read more	Fibroblasts - ECM organization (mainly)
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 (Inhibitory neurons, Excitatory neurons, Microglial cells)
Immune 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	Immune cell enhanced (MAIT T-cell)
Immune 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. Read more	Cell line enhanced (WM-115)
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. Read more	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

SINGLE CELL TYPESⁱ A summary of single cell RNA (nTPM) 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 (Inhibitory neurons, Excitatory neurons, Microglial cells)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

CYTH3 is part of cluster 50 Fibroblasts - ECM organization with confidenceⁱ 1
441 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
FBLN7	Fibulin 7	0.6058	8
LAMC1	Laminin subunit gamma 1	0.5828	50
ABCA9	ATP binding cassette subfamily A member 9	0.5682	50
PTPN9	Protein tyrosine phosphatase non-receptor type 9	0.5597	50
CYGB	Cytoglobin	0.5551	50
LAMB2	Laminin subunit beta 2	0.5519	50
ANGPT1	Angiopoietin 1	0.5412	48
TMTC1	Transmembrane O-mannosyltransferase targeting cadherins 1	0.5390	8
GALNT16	Polypeptide N-acetylgalactosaminyltransferase 16	0.5353	50
RBMS3	RNA binding motif single stranded interacting protein 3	0.5351	8
HUNK	Hormonally up-regulated Neu-associated kinase	0.5341	8
AGTR1	Angiotensin II receptor type 1	0.5335	50
SETBP1	SET binding protein 1	0.5258	8
COL12A1	Collagen type XII alpha 1 chain	0.5257	50
THY1	Thy-1 cell surface antigen	0.5254	50

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated 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 Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	40.1 nTPM
Adipose tissue	44.2 nTPM
Breast	35.9 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	5.8 nTPM
Lung	5.8 nTPM

Astrocytes	14.7 nTPM
Brain	14.7 nTPM

B-cells	3.1 nTPM
Breast	5.3 nTPM
Kidney	4.8 nTPM
Adipose tissue	4.5 nTPM
Colon	3.2 nTPM
Stomach	3.2 nTPM
PBMC	2.8 nTPM
Lymph node	2.7 nTPM
Liver	1.7 nTPM
Bone marrow	1.7 nTPM
Spleen	1.4 nTPM

Dendritic cells	8.7 nTPM
Adipose tissue	20.4 nTPM
Breast	5.8 nTPM
PBMC	0.0 nTPM

Endothelial cells	14.6 nTPM
Eye	34.0 nTPM
Heart muscle	28.1 nTPM
Skeletal muscle	22.7 nTPM
Breast	18.2 nTPM
Testis	18.1 nTPM
Ovary	17.5 nTPM
Skin	14.1 nTPM
Liver	12.8 nTPM
Endometrium	10.9 nTPM
Esophagus	9.3 nTPM
Prostate	8.0 nTPM
Pancreas	7.7 nTPM
Placenta	2.9 nTPM
Lung	0.0 nTPM

Fibroblasts	24.0 nTPM
Adipose tissue	66.5 nTPM
Skeletal muscle	38.7 nTPM
Esophagus	30.9 nTPM
Skin	22.0 nTPM
Heart muscle	21.9 nTPM
Breast	21.4 nTPM
Ovary	16.4 nTPM
Lung	15.7 nTPM
Stomach	11.9 nTPM
Placenta	10.0 nTPM
Prostate	8.2 nTPM

Intestinal goblet cells	5.5 nTPM
Small intestine	8.9 nTPM
Rectum	5.5 nTPM
Colon	2.2 nTPM

Macrophages	5.9 nTPM
Esophagus	12.6 nTPM
Adipose tissue	12.0 nTPM
Skeletal muscle	10.7 nTPM
Ovary	10.3 nTPM
Breast	8.2 nTPM
Endometrium	5.8 nTPM
Prostate	5.7 nTPM
Pancreas	5.1 nTPM
Lung	4.1 nTPM
Testis	4.0 nTPM
Kidney	3.8 nTPM
Spleen	3.1 nTPM
Stomach	2.9 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM

Paneth cells	5.4 nTPM
Colon	6.5 nTPM
Rectum	5.8 nTPM
Small intestine	3.7 nTPM

Plasma cells	4.4 nTPM
Adipose tissue	18.8 nTPM
Stomach	3.0 nTPM
Spleen	0.3 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	3.7 nTPM
Bronchus	4.5 nTPM
Lung	2.9 nTPM

Smooth muscle cells	39.2 nTPM
Adipose tissue	114.9 nTPM
Heart muscle	74.2 nTPM
Skeletal muscle	51.1 nTPM
Breast	36.6 nTPM
Skin	33.8 nTPM
Endometrium	32.9 nTPM
Ovary	30.4 nTPM
Esophagus	29.4 nTPM
Pancreas	15.8 nTPM
Prostate	10.6 nTPM
Bronchus	1.0 nTPM

T-cells	10.2 nTPM
Adipose tissue	31.3 nTPM
Skin	26.2 nTPM
Stomach	16.1 nTPM
Endometrium	15.0 nTPM
Esophagus	13.1 nTPM
Colon	10.9 nTPM
Liver	9.6 nTPM
Skeletal muscle	7.7 nTPM
Spleen	7.7 nTPM
Breast	7.1 nTPM
Ovary	6.7 nTPM
Prostate	4.7 nTPM
Lung	4.5 nTPM
Lymph node	4.3 nTPM
Bone marrow	4.2 nTPM
PBMC	4.1 nTPM
Kidney	0.7 nTPM

Basal keratinocytes	15.2 nTPM
Skin	15.2 nTPM

Basal prostatic cells	2.1 nTPM
Prostate	2.1 nTPM

Basal respiratory cells	1.8 nTPM
Bronchus	1.8 nTPM

Cone photoreceptor cells	8.4 nTPM
Eye	8.4 nTPM

Undifferentiated cells	7.1 nTPM
Rectum	9.8 nTPM
Small intestine	9.2 nTPM
Colon	2.3 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC