Single cell type - EDEM2 - 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.	EDEM2
Gene descriptionⁱ Full gene name according to HGNC.	ER degradation enhancing alpha-mannosidase like protein 2
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	Plasma cells - Humoral immune response (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 (Extravillous trophoblasts, Syncytiotrophoblasts, Plasma 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	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: Cell type enhanced (Extravillous trophoblasts, Syncytiotrophoblasts, Plasma 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

EDEM2 is part of cluster 55 Plasma cells - Humoral immune response with confidenceⁱ 0.93
379 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
RPN2	Ribophorin II	0.7319	55
PDIA6	Protein disulfide isomerase family A member 6	0.6794	55
LMAN2	Lectin, mannose binding 2	0.6405	55
B4GALT7	Beta-1,4-galactosyltransferase 7	0.6213	38
CHPF	Chondroitin polymerizing factor	0.6051	55
TMED9	Transmembrane p24 trafficking protein 9	0.5968	55
DDOST	Dolichyl-diphosphooligosaccharide--protein glycosyltransferase non-catalytic subunit	0.5700	55
TMED10	Transmembrane p24 trafficking protein 10	0.5698	55
PRDX4	Peroxiredoxin 4	0.5642	55
OGFOD3	2-oxoglutarate and iron dependent oxygenase domain containing 3	0.5618	55
DPAGT1	Dolichyl-phosphate N-acetylglucosaminephosphotransferase 1	0.5551	55
SPCS2	Signal peptidase complex subunit 2	0.5515	55
AUP1	AUP1 lipid droplet regulating VLDL assembly factor	0.5500	55
DNASE2	Deoxyribonuclease 2, lysosomal	0.5479	4
ALG5	ALG5 dolichyl-phosphate beta-glucosyltransferase	0.5471	55

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	16.7 nTPM
Breast	18.4 nTPM
Adipose tissue	15.1 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	17.4 nTPM
Lung	17.4 nTPM

Astrocytes	6.8 nTPM
Brain	6.8 nTPM

B-cells	27.5 nTPM
Liver	76.9 nTPM
Breast	68.3 nTPM
Lymph node	21.1 nTPM
Spleen	19.0 nTPM
Bone marrow	18.8 nTPM
PBMC	17.1 nTPM
Colon	16.0 nTPM
Stomach	15.9 nTPM
Adipose tissue	12.6 nTPM
Kidney	9.5 nTPM

Dendritic cells	27.4 nTPM
PBMC	35.8 nTPM
Breast	30.3 nTPM
Adipose tissue	16.1 nTPM

Endothelial cells	16.4 nTPM
Placenta	29.0 nTPM
Eye	26.7 nTPM
Liver	20.2 nTPM
Ovary	18.3 nTPM
Breast	17.5 nTPM
Esophagus	15.9 nTPM
Testis	15.7 nTPM
Lung	15.6 nTPM
Endometrium	15.6 nTPM
Pancreas	15.5 nTPM
Skeletal muscle	10.7 nTPM
Prostate	10.4 nTPM
Skin	10.1 nTPM
Heart muscle	8.3 nTPM

Fibroblasts	14.1 nTPM
Stomach	26.7 nTPM
Adipose tissue	21.1 nTPM
Placenta	20.1 nTPM
Esophagus	19.2 nTPM
Breast	13.4 nTPM
Skeletal muscle	12.5 nTPM
Lung	10.1 nTPM
Skin	8.6 nTPM
Heart muscle	8.2 nTPM
Ovary	8.2 nTPM
Prostate	7.6 nTPM

Intestinal goblet cells	13.8 nTPM
Rectum	14.6 nTPM
Colon	13.6 nTPM
Small intestine	13.2 nTPM

Macrophages	28.3 nTPM
Pancreas	99.5 nTPM
Lung	37.3 nTPM
Ovary	32.3 nTPM
Breast	31.8 nTPM
Kidney	30.3 nTPM
Stomach	26.4 nTPM
Endometrium	24.9 nTPM
Testis	24.4 nTPM
Skeletal muscle	21.9 nTPM
Spleen	21.8 nTPM
Esophagus	20.4 nTPM
Prostate	19.5 nTPM
Adipose tissue	17.6 nTPM
Bone marrow	16.3 nTPM
PBMC	0.0 nTPM

Paneth cells	16.1 nTPM
Rectum	23.9 nTPM
Colon	13.2 nTPM
Small intestine	11.3 nTPM

Plasma cells	89.0 nTPM
Stomach	129.4 nTPM
Esophagus	117.0 nTPM
Spleen	106.7 nTPM
Bone marrow	70.9 nTPM
Adipose tissue	21.3 nTPM

Respiratory ciliated cells	15.3 nTPM
Bronchus	18.9 nTPM
Lung	11.7 nTPM

Smooth muscle cells	19.0 nTPM
Bronchus	83.1 nTPM
Pancreas	24.9 nTPM
Breast	19.5 nTPM
Adipose tissue	13.1 nTPM
Skeletal muscle	11.1 nTPM
Ovary	10.9 nTPM
Endometrium	10.2 nTPM
Skin	9.4 nTPM
Esophagus	9.3 nTPM
Prostate	9.1 nTPM
Heart muscle	8.6 nTPM

T-cells	18.7 nTPM
Ovary	33.3 nTPM
Liver	28.5 nTPM
Lung	27.4 nTPM
Breast	24.5 nTPM
Prostate	23.6 nTPM
PBMC	21.3 nTPM
Bone marrow	18.7 nTPM
Stomach	18.6 nTPM
Kidney	16.4 nTPM
Skin	16.1 nTPM
Spleen	16.1 nTPM
Endometrium	15.0 nTPM
Adipose tissue	13.9 nTPM
Colon	13.3 nTPM
Lymph node	13.3 nTPM
Skeletal muscle	11.6 nTPM
Esophagus	6.6 nTPM

Basal keratinocytes	4.0 nTPM
Skin	4.0 nTPM

Basal respiratory cells	34.7 nTPM
Bronchus	34.7 nTPM

Basal squamous epithelial cells	6.2 nTPM
Esophagus	6.2 nTPM

Cholangiocytes	24.3 nTPM
Liver	24.3 nTPM

Undifferentiated cells	17.3 nTPM
Small intestine	20.2 nTPM
Rectum	16.5 nTPM
Colon	15.2 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