Single cell type - EMC1 - The Human Protein Atlas

EMC1

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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.	EMC1
Gene descriptionⁱ Full gene name according to HGNC.	ER membrane protein complex subunit 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes Potential drug targets 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.	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	7

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.	Extravillous trophoblasts - 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.	Cell type enhanced (Rod photoreceptor cells)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.37
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	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.	Low immune cell specificity
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized 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 RNA single cell type specificity: Cell type enhanced (Rod photoreceptor cells)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

EMC1 is part of cluster 4 Extravillous trophoblasts - Unknown function with confidenceⁱ 1
182 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CTSV	Cathepsin V	0.5786	4
RTN2	Reticulon 2	0.5405	4
TMEM138	Transmembrane protein 138	0.5339	66
CHST14	Carbohydrate sulfotransferase 14	0.5280	24
RNF26	Ring finger protein 26	0.5110	4
CTSL	Cathepsin L	0.5088	58
FAM89A	Family with sequence similarity 89 member A	0.5030	58
GANAB	Glucosidase II alpha subunit	0.5002	4
PLOD1	Procollagen-lysine,2-oxoglutarate 5-dioxygenase 1	0.4984	4
DDB1	Damage specific DNA binding protein 1	0.4940	24
PSRC1	Proline and serine rich coiled-coil 1	0.4902	66
TMED1	Transmembrane p24 trafficking protein 1	0.4902	50
SLC29A1	Solute carrier family 29 member 1 (Augustine blood group)	0.4901	4
MYO7A	Myosin VIIA	0.4865	24
ALG10B	ALG10 alpha-1,2-glucosyltransferase B	0.4865	24

IMMUNE CELLS

EMC1 is part of cluster 33 Non-specific - ATP binding with confidenceⁱ 0.98
757 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ZNF408	Zinc finger protein 408	0.9762	33
TRMT2A	TRNA methyltransferase 2 homolog A	0.9762	33
CSNK2A1	Casein kinase 2 alpha 1	0.9762	33
GIT1	GIT ArfGAP 1	0.9762	33
OPA3	Outer mitochondrial membrane lipid metabolism regulator OPA3	0.9762	33
ZMYM2	Zinc finger MYM-type containing 2	0.9762	33
IQCG	IQ motif containing G	0.9524	33
ATP2A2	ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 2	0.9524	33
CAPN2	Calpain 2	0.9524	33
HSPA9	Heat shock protein family A (Hsp70) member 9	0.9524	33
ZNF862	Zinc finger protein 862	0.9524	33
DOP1A	DOP1 leucine zipper like protein A	0.9524	33
WDR3	WD repeat domain 3	0.9286	33
GNPDA1	Glucosamine-6-phosphate deaminase 1	0.9286	33
CSE1L	Chromosome segregation 1 like	0.9286	33

Adipocytes	11.7 nTPM
Adipose tissue	12.5 nTPM
Breast	11.0 nTPM

Alveolar cells type 1	23.8 nTPM
Lung	23.8 nTPM

Alveolar cells type 2	16.8 nTPM
Lung	16.8 nTPM

Astrocytes	7.7 nTPM
Brain	7.7 nTPM

B-cells	9.0 nTPM
Kidney	15.6 nTPM
Thymus	15.0 nTPM
Lung	14.8 nTPM
Salivary gland	14.6 nTPM
Stomach	11.0 nTPM
Bone marrow	10.9 nTPM
Adipose tissue	9.5 nTPM
Lymph node	9.5 nTPM
PBMC	7.7 nTPM
Spleen	6.7 nTPM
Skin	1.7 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM

Ciliated cells	9.0 nTPM
Endometrium	9.8 nTPM
Bronchus	8.9 nTPM
Lung	8.8 nTPM
Fallopian tube	8.3 nTPM

Club cells	12.7 nTPM
Bronchus	15.3 nTPM
Lung	12.1 nTPM
Prostate	10.6 nTPM

Endothelial cells	14.0 nTPM
Pancreas	25.9 nTPM
Liver	23.9 nTPM
Lung	19.3 nTPM
Placenta	18.7 nTPM
Endometrium	17.7 nTPM
Thymus	14.5 nTPM
Heart muscle	13.9 nTPM
Fallopian tube	13.2 nTPM
Testis	12.8 nTPM
Skeletal muscle	12.4 nTPM
Vascular	12.2 nTPM
Esophagus	11.2 nTPM
Salivary gland	11.1 nTPM
Prostate	10.6 nTPM
Breast	9.7 nTPM
Ovary	9.2 nTPM
Tongue	9.0 nTPM
Skin	7.2 nTPM

Enteroendocrine cells	14.6 nTPM
Rectum	15.1 nTPM
Colon	15.0 nTPM
Small intestine	13.7 nTPM

Fibroblasts	18.5 nTPM
Pancreas	28.0 nTPM
Stomach	23.1 nTPM
Adipose tissue	22.8 nTPM
Skeletal muscle	22.3 nTPM
Thymus	21.0 nTPM
Lung	20.7 nTPM
Esophagus	20.1 nTPM
Placenta	19.3 nTPM
Fallopian tube	19.1 nTPM
Vascular	17.7 nTPM
Salivary gland	17.4 nTPM
Breast	17.1 nTPM
Liver	15.4 nTPM
Skin	12.6 nTPM
Prostate	11.9 nTPM
Heart muscle	8.3 nTPM

Granulocytes	9.9 nTPM
Fallopian tube	10.8 nTPM
Tongue	9.7 nTPM
Lung	9.1 nTPM

Intestinal goblet cells	9.4 nTPM
Rectum	13.9 nTPM
Colon	8.6 nTPM
Small intestine	5.8 nTPM

Lymphatic endothelial cells	11.4 nTPM
Fallopian tube	12.0 nTPM
Ovary	10.9 nTPM

Macrophages	12.7 nTPM
Lung	22.1 nTPM
Kidney	15.0 nTPM
Salivary gland	14.9 nTPM
Endometrium	14.1 nTPM
Thymus	14.0 nTPM
Breast	13.9 nTPM
Adipose tissue	13.2 nTPM
Tongue	13.1 nTPM
Spleen	13.0 nTPM
Vascular	13.0 nTPM
Fallopian tube	12.6 nTPM
Skeletal muscle	11.8 nTPM
Esophagus	11.6 nTPM
Testis	11.2 nTPM
Prostate	10.9 nTPM
Pancreas	10.3 nTPM
Stomach	10.3 nTPM
Skin	10.0 nTPM
Bone marrow	7.1 nTPM

Paneth cells	10.1 nTPM
Rectum	16.0 nTPM
Colon	7.2 nTPM
Small intestine	6.9 nTPM

Basal respiratory cells	16.7 nTPM
Bronchus	16.7 nTPM

Bipolar cells	19.6 nTPM
Eye	19.6 nTPM

Cone photoreceptor cells	10.2 nTPM
Eye	10.2 nTPM

Cytotrophoblasts	39.7 nTPM
Placenta	39.7 nTPM

Plasma cells	16.7 nTPM
Thymus	37.5 nTPM
Bone marrow	24.2 nTPM
Liver	21.0 nTPM
Spleen	13.7 nTPM
Salivary gland	12.5 nTPM
Fallopian tube	10.3 nTPM
Stomach	9.2 nTPM
Esophagus	5.2 nTPM

Schwann cells	8.2 nTPM
Vascular	15.7 nTPM
Adipose tissue	9.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	7.4 nTPM
Salivary gland	14.9 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	13.5 nTPM
Placenta	22.9 nTPM
Lung	17.6 nTPM
Thymus	16.5 nTPM
Endometrium	15.3 nTPM
Salivary gland	15.3 nTPM
Adipose tissue	15.1 nTPM
Vascular	14.5 nTPM
Skeletal muscle	13.0 nTPM
Fallopian tube	12.4 nTPM
Tongue	12.0 nTPM
Liver	11.5 nTPM
Breast	11.5 nTPM
Esophagus	10.8 nTPM
Ovary	9.9 nTPM
Prostate	9.7 nTPM
Skin	7.7 nTPM

Suprabasal keratinocytes	11.4 nTPM
Tongue	12.6 nTPM
Skin	10.1 nTPM

T-cells	9.8 nTPM
Salivary gland	13.5 nTPM
Endometrium	13.4 nTPM
Thymus	13.0 nTPM
Vascular	12.5 nTPM
Breast	11.6 nTPM
Skeletal muscle	11.0 nTPM
Tongue	10.9 nTPM
Lung	10.7 nTPM
Kidney	10.6 nTPM
Prostate	10.2 nTPM
Fallopian tube	10.2 nTPM
Adipose tissue	9.6 nTPM
Spleen	9.4 nTPM
PBMC	9.2 nTPM
Lymph node	8.9 nTPM
Stomach	8.6 nTPM
Liver	8.5 nTPM
Bone marrow	8.2 nTPM
Skin	6.0 nTPM
Colon	5.8 nTPM
Esophagus	4.9 nTPM

Undifferentiated cells	14.3 nTPM
Colon	17.0 nTPM
Rectum	14.2 nTPM
Small intestine	11.7 nTPM

Amygdala excitatory	17.9 nTPM
Hypothalamus	19.2 nTPM
Thalamus	19.1 nTPM
Hippocampus	18.7 nTPM
Cerebral cortex	17.7 nTPM
Amygdala	17.3 nTPM
Basal ganglia	15.5 nTPM

Astrocyte	20.8 nTPM
Thalamus	22.6 nTPM
Amygdala	22.2 nTPM
Cerebral cortex	22.2 nTPM
Midbrain	22.0 nTPM
Pons	21.6 nTPM
Medulla oblongata	21.5 nTPM
Basal ganglia	20.6 nTPM
Hypothalamus	20.6 nTPM
Hippocampus	20.0 nTPM
Cerebellum	18.9 nTPM
Spinal cord	16.6 nTPM

Bergmann glia	29.5 nTPM
Medulla oblongata	40.5 nTPM
Pons	27.3 nTPM
Cerebellum	20.6 nTPM

Central nervous system macrophage	18.4 nTPM
Hypothalamus	23.3 nTPM
Medulla oblongata	20.0 nTPM
Pons	19.9 nTPM
Thalamus	19.8 nTPM
Spinal cord	18.3 nTPM
Cerebellum	18.2 nTPM
Midbrain	17.5 nTPM
Amygdala	17.2 nTPM
Basal ganglia	16.3 nTPM
Cerebral cortex	16.2 nTPM
Hippocampus	15.8 nTPM

Cerebellar inhibitory	22.3 nTPM
Spinal cord	24.7 nTPM
Cerebellum	24.0 nTPM
Midbrain	22.1 nTPM
Pons	20.4 nTPM
Medulla oblongata	20.3 nTPM

Cge interneuron	23.9 nTPM
Hypothalamus	25.6 nTPM
Thalamus	24.9 nTPM
Amygdala	24.4 nTPM
Basal ganglia	24.3 nTPM
Cerebral cortex	23.3 nTPM
Hippocampus	22.6 nTPM
Midbrain	22.3 nTPM

Choroid plexus epithelial cell	14.9 nTPM
Hippocampus	16.6 nTPM
Thalamus	16.4 nTPM
Medulla oblongata	14.0 nTPM
Basal ganglia	12.3 nTPM

Committed oligodendrocyte precursor	16.2 nTPM
Pons	23.0 nTPM
Cerebral cortex	19.6 nTPM
Thalamus	19.4 nTPM
Hippocampus	18.9 nTPM
Midbrain	18.5 nTPM
Amygdala	18.0 nTPM
Medulla oblongata	14.2 nTPM
Cerebellum	12.7 nTPM
Basal ganglia	11.5 nTPM
Spinal cord	11.0 nTPM
Hypothalamus	10.9 nTPM

Deep-layer corticothalamic and 6b	17.9 nTPM
Hypothalamus	18.8 nTPM
Cerebral cortex	18.5 nTPM
Amygdala	18.3 nTPM
Hippocampus	17.8 nTPM
Basal ganglia	17.5 nTPM
Midbrain	16.6 nTPM

Deep-layer intratelencephalic	18.1 nTPM
Hypothalamus	20.2 nTPM
Cerebral cortex	18.1 nTPM
Hippocampus	18.0 nTPM
Amygdala	17.2 nTPM
Basal ganglia	16.9 nTPM

Deep-layer near-projecting	19.4 nTPM
Cerebral cortex	21.7 nTPM
Hypothalamus	19.7 nTPM
Amygdala	19.6 nTPM
Hippocampus	18.9 nTPM
Basal ganglia	17.3 nTPM

Eccentric medium spiny neuron	20.0 nTPM
Hypothalamus	21.7 nTPM
Thalamus	20.8 nTPM
Cerebral cortex	19.7 nTPM
Hippocampus	19.5 nTPM
Amygdala	19.1 nTPM
Basal ganglia	19.1 nTPM

Endothelial cell	13.9 nTPM
Cerebellum	20.9 nTPM
Midbrain	19.8 nTPM
Pons	17.5 nTPM
Hypothalamus	16.1 nTPM
Thalamus	15.8 nTPM
Spinal cord	15.5 nTPM
Hippocampus	12.2 nTPM
Cerebral cortex	12.1 nTPM
Amygdala	10.1 nTPM
Medulla oblongata	8.2 nTPM
Basal ganglia	4.7 nTPM