Single cell type - NSMCE4A - 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.	NSMCE4A
Gene descriptionⁱ Full gene name according to HGNC.	NSE4 homolog A, SMC5-SMC6 complex component
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	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	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	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	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

NSMCE4A 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
HDDC3	HD domain containing 3	0.5583	39
MRPL37	Mitochondrial ribosomal protein L37	0.5445	12
TMEM223	Transmembrane protein 223	0.5377	39
CPSF4	Cleavage and polyadenylation specific factor 4	0.5232	47
HNRNPD	Heterogeneous nuclear ribonucleoprotein D	0.5072	10
STOML2	Stomatin like 2	0.5026	39
CTCF	CCCTC-binding factor	0.4892	10
NUDCD2	NudC domain containing 2	0.4885	39
METTL2A	Methyltransferase like 2A	0.4811	39
NUBP2	Nucleotide binding protein 2	0.4795	39
MRPS18B	Mitochondrial ribosomal protein S18B	0.4672	39
ANP32A	Acidic nuclear phosphoprotein 32 family member A	0.4485	47
OLFM4	Olfactomedin 4	0.4480	53
SKA2	Spindle and kinetochore associated complex subunit 2	0.4471	12
MRPL48	Mitochondrial ribosomal protein L48	0.4432	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	49.3 nTPM
Breast	54.4 nTPM
Adipose tissue	44.1 nTPM

Alveolar cells type 1	22.4 nTPM
Lung	22.4 nTPM

Alveolar cells type 2	33.1 nTPM
Lung	33.1 nTPM

Astrocytes	9.4 nTPM
Brain	9.4 nTPM

B-cells	35.5 nTPM
Liver	43.9 nTPM
Stomach	41.8 nTPM
Breast	40.2 nTPM
PBMC	40.0 nTPM
Bone marrow	36.8 nTPM
Kidney	33.4 nTPM
Spleen	32.5 nTPM
Lymph node	29.7 nTPM
Colon	28.7 nTPM
Adipose tissue	28.5 nTPM

Dendritic cells	40.0 nTPM
PBMC	47.8 nTPM
Adipose tissue	38.2 nTPM
Breast	33.9 nTPM

Endothelial cells	33.9 nTPM
Pancreas	57.9 nTPM
Placenta	52.3 nTPM
Ovary	46.3 nTPM
Skeletal muscle	45.6 nTPM
Breast	42.5 nTPM
Prostate	37.5 nTPM
Testis	37.3 nTPM
Skin	29.4 nTPM
Heart muscle	25.5 nTPM
Endometrium	23.7 nTPM
Eye	21.0 nTPM
Liver	20.2 nTPM
Esophagus	19.1 nTPM
Lung	15.6 nTPM

Fibroblasts	25.9 nTPM
Ovary	34.0 nTPM
Adipose tissue	32.5 nTPM
Skeletal muscle	29.5 nTPM
Breast	27.9 nTPM
Heart muscle	27.8 nTPM
Skin	26.7 nTPM
Placenta	24.4 nTPM
Prostate	24.4 nTPM
Stomach	23.7 nTPM
Esophagus	18.1 nTPM
Lung	15.7 nTPM

Intestinal goblet cells	35.1 nTPM
Small intestine	38.6 nTPM
Rectum	34.7 nTPM
Colon	32.2 nTPM

Macrophages	22.4 nTPM
Ovary	33.4 nTPM
Spleen	30.0 nTPM
Breast	30.0 nTPM
Adipose tissue	27.2 nTPM
Prostate	25.3 nTPM
Endometrium	22.9 nTPM
Lung	22.3 nTPM
Bone marrow	21.2 nTPM
Testis	20.3 nTPM
Skeletal muscle	19.8 nTPM
Kidney	19.6 nTPM
Stomach	17.6 nTPM
Esophagus	17.3 nTPM
Pancreas	15.3 nTPM
PBMC	13.6 nTPM

Paneth cells	37.0 nTPM
Small intestine	56.3 nTPM
Rectum	41.5 nTPM
Colon	13.2 nTPM

Plasma cells	36.3 nTPM
Spleen	51.7 nTPM
Bone marrow	46.2 nTPM
Stomach	43.5 nTPM
Adipose tissue	27.7 nTPM
Esophagus	12.3 nTPM

Respiratory ciliated cells	21.6 nTPM
Bronchus	24.3 nTPM
Lung	19.0 nTPM

Smooth muscle cells	31.3 nTPM
Ovary	42.7 nTPM
Skeletal muscle	39.5 nTPM
Breast	38.4 nTPM
Heart muscle	38.3 nTPM
Esophagus	32.5 nTPM
Adipose tissue	30.9 nTPM
Pancreas	28.4 nTPM
Skin	27.9 nTPM
Prostate	26.3 nTPM
Bronchus	19.7 nTPM
Endometrium	19.7 nTPM

T-cells	29.3 nTPM
Ovary	71.2 nTPM
Adipose tissue	34.5 nTPM
PBMC	33.9 nTPM
Bone marrow	33.6 nTPM
Lung	33.4 nTPM
Breast	30.3 nTPM
Kidney	30.2 nTPM
Stomach	28.7 nTPM
Liver	28.3 nTPM
Colon	28.0 nTPM
Spleen	26.7 nTPM
Skeletal muscle	26.6 nTPM
Skin	24.4 nTPM
Lymph node	22.3 nTPM
Endometrium	19.8 nTPM
Prostate	19.0 nTPM
Esophagus	6.6 nTPM

Basal keratinocytes	17.0 nTPM
Skin	17.0 nTPM

Basal prostatic cells	45.0 nTPM
Prostate	45.0 nTPM

Basal respiratory cells	47.0 nTPM
Bronchus	47.0 nTPM

Basal squamous epithelial cells	23.9 nTPM
Esophagus	23.9 nTPM

Undifferentiated cells	44.8 nTPM
Small intestine	51.9 nTPM
Rectum	45.4 nTPM
Colon	37.1 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