Single cell type - CD93 - 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.	CD93
Gene descriptionⁱ Full gene name according to HGNC.	CD93 molecule
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	CD markers 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	Membrane
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 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	Adipocytes & Endothelial cells - Angiogenesis (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 (Adipocytes, Endothelial cells, Hepatic stellate cells, Kupffer cells, monocytes, Macrophages)
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	Group enriched (neutrophil, classical monocyte, intermediate monocyte, myeloid DC, non-classical monocyte)
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 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. Read more	Group enriched (HUVEC TERT2, TIME, U-937)
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 some
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 (Adipocytes, Endothelial cells, Hepatic stellate cells, Kupffer cells, monocytes, Macrophages)

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

CD93 is part of cluster 14 Adipocytes & Endothelial cells - Angiogenesis with confidenceⁱ 1
354 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
FAM110D	Family with sequence similarity 110 member D	0.7721	14
RASIP1	Ras interacting protein 1	0.7685	14
PECAM1	Platelet and endothelial cell adhesion molecule 1	0.7581	14
ADGRL4	Adhesion G protein-coupled receptor L4	0.7557	14
MMRN2	Multimerin 2	0.7286	14
MEOX1	Mesenchyme homeobox 1	0.7254	14
BCL6B	BCL6B transcription repressor	0.7165	14
CYYR1	Cysteine and tyrosine rich 1	0.7021	14
SCARF1	Scavenger receptor class F member 1	0.7009	14
SOX18	SRY-box transcription factor 18	0.7001	14
FAM124B	Family with sequence similarity 124 member B	0.6989	14
CLEC14A	C-type lectin domain containing 14A	0.6955	14
CDH5	Cadherin 5	0.6872	14
PLVAP	Plasmalemma vesicle associated protein	0.6832	14
TIE1	Tyrosine kinase with immunoglobulin like and EGF like domains 1	0.6819	14

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

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	7.4 nTPM
Lung	7.4 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	2.4 nTPM
Colon	8.0 nTPM
PBMC	5.7 nTPM
Liver	5.5 nTPM
Breast	2.6 nTPM
Adipose tissue	1.0 nTPM
Lymph node	0.6 nTPM
Spleen	0.3 nTPM
Kidney	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Basal keratinocytes	15.0 nTPM
Skin	15.0 nTPM

Adipocytes	321.5 nTPM
Adipose tissue	441.8 nTPM
Breast	201.2 nTPM

Dendritic cells	5.0 nTPM
PBMC	8.0 nTPM
Breast	3.6 nTPM
Adipose tissue	3.4 nTPM

Endothelial cells	309.2 nTPM
Ovary	688.1 nTPM
Prostate	647.0 nTPM
Placenta	413.8 nTPM
Skeletal muscle	374.6 nTPM
Pancreas	312.7 nTPM
Esophagus	312.0 nTPM
Endometrium	273.6 nTPM
Lung	265.1 nTPM
Skin	256.1 nTPM
Heart muscle	230.2 nTPM
Breast	168.9 nTPM
Liver	155.0 nTPM
Testis	133.9 nTPM
Eye	97.1 nTPM

Fibroblasts	9.8 nTPM
Stomach	47.5 nTPM
Lung	17.9 nTPM
Heart muscle	14.4 nTPM
Skin	10.1 nTPM
Prostate	7.4 nTPM
Skeletal muscle	4.5 nTPM
Esophagus	1.6 nTPM
Placenta	1.5 nTPM
Breast	1.5 nTPM
Ovary	0.9 nTPM
Adipose tissue	0.6 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Macrophages	102.4 nTPM
Spleen	242.6 nTPM
Stomach	237.3 nTPM
Adipose tissue	211.5 nTPM
Skeletal muscle	171.5 nTPM
Bone marrow	125.0 nTPM
Esophagus	94.5 nTPM
Kidney	86.2 nTPM
Testis	80.2 nTPM
Prostate	75.7 nTPM
Endometrium	68.4 nTPM
Pancreas	40.8 nTPM
Lung	35.3 nTPM
Breast	30.2 nTPM
Ovary	23.1 nTPM
PBMC	13.6 nTPM

Paneth cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Plasma cells	2.1 nTPM
Esophagus	6.1 nTPM
Adipose tissue	3.9 nTPM
Stomach	0.4 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Respiratory ciliated cells	3.0 nTPM
Lung	5.8 nTPM
Bronchus	0.1 nTPM

Smooth muscle cells	8.0 nTPM
Skin	19.8 nTPM
Heart muscle	16.9 nTPM
Breast	16.8 nTPM
Prostate	10.3 nTPM
Skeletal muscle	8.6 nTPM
Endometrium	8.4 nTPM
Adipose tissue	3.3 nTPM
Ovary	2.0 nTPM
Esophagus	1.5 nTPM
Pancreas	0.0 nTPM
Bronchus	0.0 nTPM

Cytotrophoblasts	0.2 nTPM
Placenta	0.2 nTPM

Endometrial stromal cells	0.7 nTPM
Endometrium	0.7 nTPM

T-cells	2.4 nTPM
Skin	11.6 nTPM
PBMC	6.7 nTPM
Liver	6.0 nTPM
Bone marrow	3.3 nTPM
Lung	3.0 nTPM
Skeletal muscle	2.3 nTPM
Endometrium	2.0 nTPM
Breast	1.9 nTPM
Spleen	1.5 nTPM
Adipose tissue	1.2 nTPM
Stomach	1.0 nTPM
Kidney	0.7 nTPM
Lymph node	0.5 nTPM
Colon	0.0 nTPM
Prostate	0.0 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 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