Single cell type - EMC9 - 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.	EMC9
Gene descriptionⁱ Full gene name according to HGNC.	ER membrane protein complex subunit 9
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Transporters
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.	3

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 - Basic cellular processes (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 (Late spermatids)
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 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	Cell line enhanced (Hep G2)
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 (Late spermatids)

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

EMC9 is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 1
586 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
RITA1	RBPJ interacting and tubulin associated 1	0.5767	67
TREH	Trehalase	0.5679	45
R3HCC1	R3H domain and coiled-coil containing 1	0.5481	46
NDUFB10	NADH:ubiquinone oxidoreductase subunit B10	0.4887	39
CCDC167	Coiled-coil domain containing 167	0.4882	12
TUSC2	Tumor suppressor 2, mitochondrial calcium regulator	0.4846	31
NABP2	Nucleic acid binding protein 2	0.4755	25
PRADC1	Protease associated domain containing 1	0.4646	25
ACE	Angiotensin I converting enzyme	0.4613	45
GPX4	Glutathione peroxidase 4	0.4566	31
FIBP	FGF1 intracellular binding protein	0.4475	25
USP2	Ubiquitin specific peptidase 2	0.4467	31
ZNF688	Zinc finger protein 688	0.4466	31
PSMD8	Proteasome 26S subunit, non-ATPase 8	0.4454	31
NDUFS8	NADH:ubiquinone oxidoreductase core subunit S8	0.4393	39

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	14.1 nTPM
Breast	21.0 nTPM
Adipose tissue	7.3 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	7.0 nTPM
Lung	7.0 nTPM

Astrocytes	3.9 nTPM
Brain	3.9 nTPM

B-cells	17.3 nTPM
Liver	40.0 nTPM
Breast	29.4 nTPM
Colon	20.8 nTPM
Lymph node	20.0 nTPM
Kidney	19.0 nTPM
Bone marrow	13.1 nTPM
Spleen	9.7 nTPM
PBMC	8.5 nTPM
Stomach	8.1 nTPM
Adipose tissue	4.5 nTPM

Dendritic cells	17.3 nTPM
Breast	27.7 nTPM
PBMC	16.0 nTPM
Adipose tissue	8.3 nTPM

Endothelial cells	12.3 nTPM
Placenta	22.1 nTPM
Ovary	20.4 nTPM
Skin	18.9 nTPM
Breast	17.3 nTPM
Endometrium	14.7 nTPM
Testis	13.3 nTPM
Prostate	11.6 nTPM
Eye	9.7 nTPM
Heart muscle	9.5 nTPM
Esophagus	9.3 nTPM
Skeletal muscle	8.0 nTPM
Liver	7.3 nTPM
Lung	6.2 nTPM
Pancreas	3.9 nTPM

Fibroblasts	16.6 nTPM
Ovary	37.1 nTPM
Placenta	27.0 nTPM
Skin	24.3 nTPM
Prostate	24.1 nTPM
Breast	19.0 nTPM
Heart muscle	10.4 nTPM
Lung	10.1 nTPM
Skeletal muscle	9.5 nTPM
Esophagus	9.0 nTPM
Adipose tissue	6.1 nTPM
Stomach	6.0 nTPM

Intestinal goblet cells	29.6 nTPM
Colon	43.6 nTPM
Small intestine	31.8 nTPM
Rectum	13.6 nTPM

Macrophages	11.4 nTPM
Ovary	24.3 nTPM
Kidney	18.9 nTPM
Breast	18.8 nTPM
Testis	18.0 nTPM
Esophagus	14.2 nTPM
Prostate	12.6 nTPM
Endometrium	11.9 nTPM
Spleen	10.4 nTPM
Bone marrow	10.0 nTPM
Lung	7.9 nTPM
Skeletal muscle	7.6 nTPM
Stomach	5.9 nTPM
Pancreas	5.1 nTPM
Adipose tissue	4.8 nTPM
PBMC	0.0 nTPM

Paneth cells	14.0 nTPM
Colon	19.7 nTPM
Small intestine	11.3 nTPM
Rectum	10.9 nTPM

Plasma cells	21.6 nTPM
Esophagus	30.7 nTPM
Spleen	29.0 nTPM
Bone marrow	23.0 nTPM
Stomach	12.8 nTPM
Adipose tissue	12.2 nTPM

Respiratory ciliated cells	18.6 nTPM
Bronchus	25.6 nTPM
Lung	11.7 nTPM

Smooth muscle cells	18.5 nTPM
Skin	29.3 nTPM
Ovary	24.9 nTPM
Pancreas	24.5 nTPM
Breast	22.3 nTPM
Esophagus	20.1 nTPM
Prostate	18.7 nTPM
Bronchus	16.9 nTPM
Heart muscle	16.1 nTPM
Endometrium	14.6 nTPM
Skeletal muscle	9.1 nTPM
Adipose tissue	7.5 nTPM

T-cells	13.4 nTPM
Skin	26.2 nTPM
Breast	24.9 nTPM
Colon	20.5 nTPM
Kidney	20.5 nTPM
Lymph node	15.8 nTPM
Liver	14.7 nTPM
Endometrium	14.0 nTPM
Lung	13.6 nTPM
Ovary	13.4 nTPM
Bone marrow	12.9 nTPM
Skeletal muscle	11.2 nTPM
PBMC	10.1 nTPM
Spleen	9.4 nTPM
Adipose tissue	7.3 nTPM
Stomach	7.0 nTPM
Esophagus	6.6 nTPM
Prostate	0.0 nTPM

Basal keratinocytes	18.1 nTPM
Skin	18.1 nTPM

Basal respiratory cells	24.7 nTPM
Bronchus	24.7 nTPM

Cholangiocytes	17.2 nTPM
Liver	17.2 nTPM

Collecting duct cells	23.9 nTPM
Kidney	23.9 nTPM

Undifferentiated cells	30.9 nTPM
Small intestine	40.0 nTPM
Colon	33.6 nTPM
Rectum	19.1 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