Single cell type - NHSL1 - 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.	NHSL1
Gene descriptionⁱ Full gene name according to HGNC.	NHS like 1
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.	5

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	Astrocytes - Nervous system maintenance (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 enriched (Astrocytes)
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	Immune cell enhanced (non-classical monocyte, intermediate monocyte)
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 some
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, TIME)
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 many
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 enriched (Astrocytes)

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

NHSL1 is part of cluster 64 Astrocytes - Nervous system maintenance with confidenceⁱ 1
169 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
FGFR3	Fibroblast growth factor receptor 3	0.7374	64
PRODH	Proline dehydrogenase 1	0.7051	64
NTSR2	Neurotensin receptor 2	0.6863	64
GLI3	GLI family zinc finger 3	0.6704	64
SLC1A2	Solute carrier family 1 member 2	0.6691	64
GFAP	Glial fibrillary acidic protein	0.6645	64
GPC5	Glypican 5	0.6599	64
RANBP3L	RAN binding protein 3 like	0.6597	64
PSD2	Pleckstrin and Sec7 domain containing 2	0.6560	64
ETNPPL	Ethanolamine-phosphate phospho-lyase	0.6556	64
ATP13A4	ATPase 13A4	0.6514	64
EYA1	EYA transcriptional coactivator and phosphatase 1	0.6484	64
NCAN	Neurocan	0.6410	64
SLCO1C1	Solute carrier organic anion transporter family member 1C1	0.6405	64
ADGRV1	Adhesion G protein-coupled receptor V1	0.6402	64

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	6.2 nTPM
Adipose tissue	8.1 nTPM
Breast	4.2 nTPM

Alveolar cells type 1	60.9 nTPM
Lung	60.9 nTPM

Alveolar cells type 2	66.9 nTPM
Lung	66.9 nTPM

B-cells	0.5 nTPM
Liver	2.5 nTPM
Colon	1.6 nTPM
Stomach	0.5 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Breast	0.0 nTPM

Basal keratinocytes	42.8 nTPM
Skin	42.8 nTPM

Dendritic cells	0.1 nTPM
Adipose tissue	0.4 nTPM
PBMC	0.0 nTPM
Breast	0.0 nTPM

Endothelial cells	9.3 nTPM
Liver	26.6 nTPM
Pancreas	15.5 nTPM
Ovary	15.2 nTPM
Endometrium	13.6 nTPM
Skin	12.9 nTPM
Lung	9.3 nTPM
Eye	8.9 nTPM
Placenta	6.2 nTPM
Heart muscle	4.5 nTPM
Skeletal muscle	4.5 nTPM
Prostate	4.3 nTPM
Breast	4.1 nTPM
Esophagus	3.6 nTPM
Testis	1.4 nTPM

Fibroblasts	15.6 nTPM
Adipose tissue	53.6 nTPM
Skeletal muscle	29.5 nTPM
Placenta	15.6 nTPM
Heart muscle	14.8 nTPM
Skin	13.4 nTPM
Esophagus	13.4 nTPM
Breast	11.4 nTPM
Lung	11.1 nTPM
Stomach	4.4 nTPM
Ovary	2.3 nTPM
Prostate	2.1 nTPM

Intestinal goblet cells	32.3 nTPM
Small intestine	52.2 nTPM
Rectum	31.2 nTPM
Colon	13.6 nTPM

Macrophages	7.5 nTPM
Ovary	38.8 nTPM
Adipose tissue	22.9 nTPM
Skeletal muscle	8.3 nTPM
Esophagus	7.9 nTPM
Testis	7.5 nTPM
Endometrium	6.8 nTPM
Breast	5.9 nTPM
Lung	4.9 nTPM
Prostate	4.6 nTPM
Stomach	2.9 nTPM
Kidney	2.3 nTPM
PBMC	0.0 nTPM
Pancreas	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Paneth cells	43.0 nTPM
Rectum	50.5 nTPM
Small intestine	48.8 nTPM
Colon	29.6 nTPM

Plasma cells	0.1 nTPM
Adipose tissue	0.6 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Respiratory ciliated cells	22.0 nTPM
Lung	27.7 nTPM
Bronchus	16.3 nTPM

Smooth muscle cells	4.7 nTPM
Adipose tissue	13.5 nTPM
Heart muscle	9.9 nTPM
Skin	5.9 nTPM
Pancreas	5.2 nTPM
Ovary	4.2 nTPM
Prostate	3.2 nTPM
Bronchus	2.9 nTPM
Endometrium	2.8 nTPM
Skeletal muscle	2.1 nTPM
Breast	1.7 nTPM
Esophagus	0.0 nTPM

T-cells	1.8 nTPM
Prostate	9.5 nTPM
Lung	7.6 nTPM
Skin	6.9 nTPM
Endometrium	3.0 nTPM
Colon	1.0 nTPM
Kidney	0.7 nTPM
Liver	0.6 nTPM
Skeletal muscle	0.5 nTPM
Adipose tissue	0.3 nTPM
Stomach	0.2 nTPM
PBMC	0.1 nTPM
Breast	0.1 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Cholangiocytes	15.7 nTPM
Liver	15.7 nTPM

Cone photoreceptor cells	29.2 nTPM
Eye	29.2 nTPM

Cytotrophoblasts	14.2 nTPM
Placenta	14.2 nTPM

Distal enterocytes	84.1 nTPM
Rectum	125.8 nTPM
Colon	42.4 nTPM

Undifferentiated cells	45.4 nTPM
Small intestine	57.3 nTPM
Rectum	42.1 nTPM
Colon	36.7 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