Single cell type - SMAP2 - 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.	SMAP2
Gene descriptionⁱ Full gene name according to HGNC.	Small ArfGAP2
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 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	Non-specific - Transcription regulation (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 (B-cells, monocytes, Kupffer cells, dendritic cells, Macrophages, Plasma cells, T-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	Low immune cell specificity
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 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. Read more	Cell line enhanced (HDLM-2, THP-1)
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 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 (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 (B-cells, monocytes, Kupffer cells, dendritic cells, Macrophages, Plasma cells, T-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

SMAP2 is part of cluster 24 Non-specific - Transcription regulation with confidenceⁱ 1
415 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
RPS27AP5	Ribosomal protein S27a pseudogene 5	0.7424	24
SMCHD1	Structural maintenance of chromosomes flexible hinge domain containing 1	0.7411	24
STK17B	Serine/threonine kinase 17b	0.7351	24
H3C13	H3 clustered histone 13	0.7310	24
GPR132	G protein-coupled receptor 132	0.7208	41
CXCR4	C-X-C motif chemokine receptor 4	0.7061	24
SPATA48	Spermatogenesis associated 48	0.6887	24
DOCK2	Dedicator of cytokinesis 2	0.6724	19
H4-16	H4 histone 16	0.6578	24
H2AC15	H2A clustered histone 15	0.6566	24
RESF1	Retroelement silencing factor 1	0.6532	24
TARS3	Threonyl-tRNA synthetase 3	0.6514	24
IRAG2	Inositol 1,4,5-triphosphate receptor associated 2	0.6484	24
PLEKHA2	Pleckstrin homology domain containing A2	0.6479	24
ELF1	E74 like ETS transcription factor 1	0.6461	24

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	12.8 nTPM
Breast	13.2 nTPM
Adipose tissue	12.5 nTPM

Alveolar cells type 1	25.6 nTPM
Lung	25.6 nTPM

Alveolar cells type 2	28.4 nTPM
Lung	28.4 nTPM

Astrocytes	10.1 nTPM
Brain	10.1 nTPM

Basal keratinocytes	18.0 nTPM
Skin	18.0 nTPM

B-cells	338.4 nTPM
Adipose tissue	1250.2 nTPM
Stomach	359.7 nTPM
Lymph node	337.4 nTPM
Spleen	261.7 nTPM
PBMC	251.3 nTPM
Colon	222.1 nTPM
Kidney	199.9 nTPM
Breast	169.9 nTPM
Bone marrow	167.6 nTPM
Liver	164.2 nTPM

Dendritic cells	258.0 nTPM
Adipose tissue	643.9 nTPM
Breast	74.4 nTPM
PBMC	55.8 nTPM

Endothelial cells	18.7 nTPM
Eye	89.0 nTPM
Lung	34.3 nTPM
Liver	28.4 nTPM
Skin	19.0 nTPM
Ovary	12.8 nTPM
Testis	10.6 nTPM
Breast	10.5 nTPM
Skeletal muscle	9.5 nTPM
Heart muscle	9.2 nTPM
Prostate	8.8 nTPM
Endometrium	8.8 nTPM
Esophagus	8.2 nTPM
Pancreas	7.7 nTPM
Placenta	4.6 nTPM

Fibroblasts	17.1 nTPM
Lung	35.7 nTPM
Stomach	31.2 nTPM
Placenta	25.8 nTPM
Heart muscle	19.8 nTPM
Skin	13.8 nTPM
Esophagus	11.7 nTPM
Adipose tissue	11.6 nTPM
Breast	11.3 nTPM
Skeletal muscle	9.7 nTPM
Ovary	9.5 nTPM
Prostate	7.8 nTPM

Intestinal goblet cells	9.8 nTPM
Colon	12.1 nTPM
Rectum	12.0 nTPM
Small intestine	5.3 nTPM

Macrophages	256.8 nTPM
Adipose tissue	914.0 nTPM
Ovary	512.5 nTPM
Skeletal muscle	358.7 nTPM
Testis	342.8 nTPM
Stomach	254.9 nTPM
Prostate	252.1 nTPM
Spleen	214.7 nTPM
Kidney	186.1 nTPM
Bone marrow	177.4 nTPM
Lung	175.2 nTPM
Esophagus	155.7 nTPM
Endometrium	119.9 nTPM
Breast	90.3 nTPM
Pancreas	56.2 nTPM
PBMC	40.9 nTPM

Paneth cells	8.9 nTPM
Rectum	19.8 nTPM
Small intestine	3.7 nTPM
Colon	3.3 nTPM

Plasma cells	224.4 nTPM
Adipose tissue	510.2 nTPM
Esophagus	221.7 nTPM
Stomach	170.8 nTPM
Spleen	120.3 nTPM
Bone marrow	98.9 nTPM

Respiratory ciliated cells	70.2 nTPM
Lung	94.8 nTPM
Bronchus	45.7 nTPM

Smooth muscle cells	27.9 nTPM
Bronchus	55.9 nTPM
Endometrium	34.8 nTPM
Adipose tissue	32.1 nTPM
Breast	30.2 nTPM
Skeletal muscle	28.9 nTPM
Esophagus	26.4 nTPM
Prostate	25.0 nTPM
Skin	21.6 nTPM
Pancreas	20.5 nTPM
Heart muscle	18.0 nTPM
Ovary	13.1 nTPM

Cholangiocytes	30.0 nTPM
Liver	30.0 nTPM

Collecting duct cells	7.3 nTPM
Kidney	7.3 nTPM

Cone photoreceptor cells	22.9 nTPM
Eye	22.9 nTPM

Cytotrophoblasts	5.5 nTPM
Placenta	5.5 nTPM

T-cells	199.9 nTPM
Adipose tissue	924.8 nTPM
Lymph node	297.1 nTPM
Ovary	233.6 nTPM
Skeletal muscle	224.1 nTPM
Prostate	222.5 nTPM
Stomach	193.9 nTPM
Spleen	165.9 nTPM
PBMC	156.6 nTPM
Lung	150.4 nTPM
Esophagus	137.6 nTPM
Colon	105.9 nTPM
Endometrium	105.3 nTPM
Liver	104.7 nTPM
Skin	100.8 nTPM
Breast	99.5 nTPM
Bone marrow	95.0 nTPM
Kidney	80.7 nTPM

Undifferentiated cells	9.5 nTPM
Rectum	11.5 nTPM
Colon	9.6 nTPM
Small intestine	7.4 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