Single cell type - EFNB1 - 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.	EFNB1
Gene descriptionⁱ Full gene name according to HGNC.	Ephrin B1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Human disease related genes 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	Granulosa cells - Unknown function (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 (Hepatic stellate cells, Granulosa cells, Suprabasal keratinocytes, Basal keratinocytes, Theca 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 (myeloid DC)
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 (HBEC3-KT, hTCEpi, PC-3)
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 (Hepatic stellate cells, Granulosa cells, Suprabasal keratinocytes, Basal keratinocytes, Theca 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

EFNB1 is part of cluster 40 Granulosa cells - Unknown function with confidenceⁱ 1
316 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
GJA1	Gap junction protein alpha 1	0.6319	40
PPARG	Peroxisome proliferator activated receptor gamma	0.6225	40
ZNF765	Zinc finger protein 765	0.6183	40
SCUBE1	Signal peptide, CUB domain and EGF like domain containing 1	0.6162	40
HSPG2	Heparan sulfate proteoglycan 2	0.6037	40
BMP3	Bone morphogenetic protein 3	0.6032	40
SERPINE2	Serpin family E member 2	0.5965	40
EGFL8	EGF like domain multiple 8	0.5873	40
ARMH4	Armadillo like helical domain containing 4	0.5816	52
INHA	Inhibin subunit alpha	0.5793	40
FHL2	Four and a half LIM domains 2	0.5787	22
HSD3B2	Hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 2	0.5772	52
SOWAHC	Sosondowah ankyrin repeat domain family member C	0.5766	40
ACSM3	Acyl-CoA synthetase medium chain family member 3	0.5732	40
ITGA6	Integrin subunit alpha 6	0.5672	22

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	81.1 nTPM
Adipose tissue	97.6 nTPM
Breast	64.6 nTPM

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	1.1 nTPM
Lung	1.1 nTPM

Astrocytes	2.6 nTPM
Brain	2.6 nTPM

B-cells	3.2 nTPM
Colon	6.4 nTPM
Kidney	4.8 nTPM
PBMC	4.3 nTPM
Liver	3.7 nTPM
Lymph node	3.6 nTPM
Spleen	3.1 nTPM
Breast	2.6 nTPM
Stomach	1.8 nTPM
Adipose tissue	1.0 nTPM
Bone marrow	0.8 nTPM

Dendritic cells	5.9 nTPM
Breast	8.8 nTPM
Adipose tissue	5.0 nTPM
PBMC	4.0 nTPM

Endothelial cells	42.4 nTPM
Ovary	88.3 nTPM
Prostate	78.2 nTPM
Heart muscle	72.4 nTPM
Skeletal muscle	68.7 nTPM
Pancreas	61.8 nTPM
Placenta	56.8 nTPM
Testis	37.7 nTPM
Esophagus	26.9 nTPM
Breast	26.8 nTPM
Endometrium	19.5 nTPM
Skin	19.1 nTPM
Liver	16.5 nTPM
Eye	11.3 nTPM
Lung	9.3 nTPM

Fibroblasts	20.5 nTPM
Ovary	50.0 nTPM
Prostate	47.9 nTPM
Placenta	30.0 nTPM
Breast	25.3 nTPM
Skin	16.2 nTPM
Stomach	13.4 nTPM
Adipose tissue	10.3 nTPM
Esophagus	9.0 nTPM
Heart muscle	8.4 nTPM
Skeletal muscle	7.9 nTPM
Lung	7.8 nTPM

Intestinal goblet cells	27.6 nTPM
Colon	30.7 nTPM
Rectum	27.7 nTPM
Small intestine	24.2 nTPM

Macrophages	8.6 nTPM
Prostate	17.2 nTPM
Breast	15.7 nTPM
PBMC	13.6 nTPM
Skeletal muscle	12.4 nTPM
Adipose tissue	12.0 nTPM
Testis	11.7 nTPM
Ovary	11.7 nTPM
Stomach	8.8 nTPM
Esophagus	7.9 nTPM
Endometrium	4.8 nTPM
Kidney	4.6 nTPM
Lung	3.3 nTPM
Pancreas	2.5 nTPM
Bone marrow	1.2 nTPM
Spleen	1.0 nTPM

Paneth cells	52.6 nTPM
Colon	69.2 nTPM
Rectum	51.0 nTPM
Small intestine	37.6 nTPM

Plasma cells	2.3 nTPM
Esophagus	6.1 nTPM
Adipose tissue	2.7 nTPM
Bone marrow	1.7 nTPM
Spleen	0.6 nTPM
Stomach	0.4 nTPM

Respiratory ciliated cells	2.8 nTPM
Bronchus	5.6 nTPM
Lung	0.0 nTPM

Smooth muscle cells	12.5 nTPM
Ovary	29.2 nTPM
Pancreas	18.1 nTPM
Adipose tissue	17.4 nTPM
Prostate	15.9 nTPM
Skin	11.8 nTPM
Breast	11.5 nTPM
Bronchus	9.5 nTPM
Skeletal muscle	8.6 nTPM
Endometrium	6.0 nTPM
Esophagus	4.6 nTPM
Heart muscle	4.4 nTPM

T-cells	4.7 nTPM
Prostate	14.2 nTPM
Ovary	8.9 nTPM
Skin	8.3 nTPM
Esophagus	6.6 nTPM
Breast	5.4 nTPM
Adipose tissue	4.4 nTPM
Colon	4.3 nTPM
Lymph node	4.2 nTPM
Skeletal muscle	3.8 nTPM
Spleen	3.4 nTPM
Endometrium	3.3 nTPM
PBMC	2.8 nTPM
Kidney	2.7 nTPM
Stomach	2.4 nTPM
Bone marrow	2.2 nTPM
Liver	1.9 nTPM
Lung	1.5 nTPM

Cholangiocytes	20.0 nTPM
Liver	20.0 nTPM

Collecting duct cells	22.0 nTPM
Kidney	22.0 nTPM

Cytotrophoblasts	11.4 nTPM
Placenta	11.4 nTPM

Distal enterocytes	59.4 nTPM
Rectum	69.6 nTPM
Colon	49.2 nTPM

Undifferentiated cells	29.8 nTPM
Colon	34.1 nTPM
Rectum	30.0 nTPM
Small intestine	25.3 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