Single cell type - EEA1 - 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.	EEA1
Gene descriptionⁱ Full gene name according to HGNC.	Early endosome antigen 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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
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	Low cell type specificity
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	Not detected in immune cells
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	Not detected
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	Low cell line specificity
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: Low cell type specificity

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

EEA1 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
FBN1	Fibrillin 1	0.5826	50
ADGRG2	Adhesion G protein-coupled receptor G2	0.5590	50
MFAP5	Microfibril associated protein 5	0.5499	50
FGF16	Fibroblast growth factor 16	0.5490	50
DNAJC13	DnaJ heat shock protein family (Hsp40) member C13	0.5458	10
PCOLCE2	Procollagen C-endopeptidase enhancer 2	0.5417	50
ADAMTS5	ADAM metallopeptidase with thrombospondin type 1 motif 5	0.5379	50
ITGA11	Integrin subunit alpha 11	0.5291	50
EBF2	EBF transcription factor 2	0.5111	50
FAM43B	Family with sequence similarity 43 member B	0.5075	50
COL12A1	Collagen type XII alpha 1 chain	0.5074	50
GAS7	Growth arrest specific 7	0.5071	50
MORC3	MORC family CW-type zinc finger 3	0.5012	10
PI16	Peptidase inhibitor 16	0.4997	50
ACKR3	Atypical chemokine receptor 3	0.4996	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	58.3 nTPM
Adipose tissue	63.6 nTPM
Breast	53.0 nTPM

Alveolar cells type 1	99.3 nTPM
Lung	99.3 nTPM

Alveolar cells type 2	59.8 nTPM
Lung	59.8 nTPM

Astrocytes	60.7 nTPM
Brain	60.7 nTPM

B-cells	36.4 nTPM
Kidney	57.1 nTPM
Adipose tissue	56.6 nTPM
Breast	48.1 nTPM
Spleen	45.7 nTPM
Stomach	35.9 nTPM
Bone marrow	30.2 nTPM
Lymph node	26.8 nTPM
PBMC	24.3 nTPM
Liver	20.0 nTPM
Colon	19.2 nTPM

Dendritic cells	39.4 nTPM
PBMC	47.8 nTPM
Adipose tissue	39.4 nTPM
Breast	31.0 nTPM

Endothelial cells	58.9 nTPM
Endometrium	151.7 nTPM
Lung	77.9 nTPM
Heart muscle	76.1 nTPM
Liver	65.1 nTPM
Ovary	63.5 nTPM
Prostate	60.7 nTPM
Skeletal muscle	57.0 nTPM
Eye	55.8 nTPM
Placenta	48.3 nTPM
Testis	38.0 nTPM
Esophagus	37.2 nTPM
Breast	36.8 nTPM
Skin	33.2 nTPM
Pancreas	23.1 nTPM

Fibroblasts	81.1 nTPM
Adipose tissue	168.4 nTPM
Skeletal muscle	131.3 nTPM
Heart muscle	91.6 nTPM
Breast	87.7 nTPM
Prostate	79.7 nTPM
Esophagus	76.4 nTPM
Skin	73.2 nTPM
Lung	65.9 nTPM
Stomach	60.9 nTPM
Placenta	34.4 nTPM
Ovary	22.8 nTPM

Intestinal goblet cells	26.6 nTPM
Small intestine	27.6 nTPM
Colon	27.1 nTPM
Rectum	24.9 nTPM

Macrophages	44.5 nTPM
Lung	74.2 nTPM
Ovary	68.7 nTPM
Adipose tissue	65.2 nTPM
Esophagus	59.8 nTPM
Skeletal muscle	58.9 nTPM
Testis	53.5 nTPM
Pancreas	51.0 nTPM
Endometrium	47.9 nTPM
Breast	41.4 nTPM
Spleen	36.3 nTPM
Stomach	35.1 nTPM
Bone marrow	26.2 nTPM
Kidney	25.7 nTPM
Prostate	24.1 nTPM
PBMC	0.0 nTPM

Paneth cells	35.9 nTPM
Small intestine	56.3 nTPM
Rectum	38.2 nTPM
Colon	13.2 nTPM

Plasma cells	19.8 nTPM
Adipose tissue	29.7 nTPM
Spleen	22.4 nTPM
Esophagus	18.4 nTPM
Bone marrow	14.8 nTPM
Stomach	13.8 nTPM

Respiratory ciliated cells	26.4 nTPM
Bronchus	26.6 nTPM
Lung	26.2 nTPM

Smooth muscle cells	71.0 nTPM
Bronchus	92.8 nTPM
Heart muscle	89.8 nTPM
Adipose tissue	86.1 nTPM
Skeletal muscle	85.5 nTPM
Endometrium	85.4 nTPM
Breast	75.4 nTPM
Ovary	65.5 nTPM
Prostate	59.4 nTPM
Esophagus	54.3 nTPM
Pancreas	46.7 nTPM
Skin	40.4 nTPM

T-cells	29.8 nTPM
Skeletal muscle	51.7 nTPM
Lung	50.1 nTPM
Adipose tissue	43.5 nTPM
PBMC	37.8 nTPM
Endometrium	36.9 nTPM
Colon	33.2 nTPM
Prostate	33.1 nTPM
Breast	29.7 nTPM
Lymph node	28.3 nTPM
Kidney	27.4 nTPM
Stomach	26.3 nTPM
Spleen	21.7 nTPM
Bone marrow	21.4 nTPM
Skin	19.8 nTPM
Liver	16.3 nTPM
Ovary	15.6 nTPM
Esophagus	13.1 nTPM

Basal keratinocytes	37.9 nTPM
Skin	37.9 nTPM

Basal prostatic cells	57.6 nTPM
Prostate	57.6 nTPM

Basal respiratory cells	25.2 nTPM
Bronchus	25.2 nTPM

Cholangiocytes	17.2 nTPM
Liver	17.2 nTPM

Undifferentiated cells	30.7 nTPM
Colon	37.1 nTPM
Rectum	31.9 nTPM
Small intestine	23.2 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