Single cell type - NREP - 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.	NREP
Gene descriptionⁱ Full gene name according to HGNC.	Neuronal regeneration related protein
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.	17

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	Neurons & Oligodendrocytes - Neuronal signaling (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 (Theca cells, Cytotrophoblasts, Excitatory neurons)
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	Group enriched (plasmacytoid DC, myeloid DC, NK-cell)
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 (AF22, SH-SY5Y)
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 enhanced (Theca cells, Cytotrophoblasts, Excitatory neurons)

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

NREP is part of cluster 21 Neurons & Oligodendrocytes - Neuronal signaling with confidenceⁱ 1
589 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
CDH11	Cadherin 11	0.6026	33
MYH10	Myosin heavy chain 10	0.5281	47
BEX3	Brain expressed X-linked 3	0.5227	47
MAGED1	MAGE family member D1	0.4918	47
OR51B5	Olfactory receptor family 51 subfamily B member 5	0.4818	21
RPE	Ribulose-5-phosphate-3-epimerase	0.4796	21
ATP5F1A	ATP synthase F1 subunit alpha	0.4771	7
OR3A1	Olfactory receptor family 3 subfamily A member 1	0.4704	21
BLMH	Bleomycin hydrolase	0.4700	24
DIRAS2	DIRAS family GTPase 2	0.4691	21
KCNMB4	Potassium calcium-activated channel subfamily M regulatory beta subunit 4	0.4644	21
ZC3HAV1L	Zinc finger CCCH-type containing, antiviral 1 like	0.4643	68
GALNT9	Polypeptide N-acetylgalactosaminyltransferase 9	0.4641	21
TRPM3	Transient receptor potential cation channel subfamily M member 3	0.4600	21
TCEAL9	Transcription elongation factor A like 9	0.4592	47

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	20.8 nTPM
Breast	22.4 nTPM
Adipose tissue	19.1 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	30.8 nTPM
Lung	30.8 nTPM

Astrocytes	43.1 nTPM
Brain	43.1 nTPM

B-cells	3.6 nTPM
Kidney	9.5 nTPM
PBMC	5.7 nTPM
Bone marrow	4.1 nTPM
Spleen	3.8 nTPM
Lymph node	3.2 nTPM
Stomach	3.2 nTPM
Liver	2.0 nTPM
Colon	1.6 nTPM
Adipose tissue	1.5 nTPM
Breast	1.3 nTPM

Dendritic cells	12.9 nTPM
PBMC	31.8 nTPM
Adipose tissue	4.2 nTPM
Breast	2.5 nTPM

Endothelial cells	38.9 nTPM
Endometrium	139.5 nTPM
Ovary	99.9 nTPM
Placenta	71.1 nTPM
Breast	33.2 nTPM
Esophagus	30.9 nTPM
Skeletal muscle	28.1 nTPM
Skin	27.8 nTPM
Heart muscle	25.9 nTPM
Lung	21.8 nTPM
Liver	19.2 nTPM
Eye	13.7 nTPM
Testis	13.6 nTPM
Pancreas	11.6 nTPM
Prostate	8.3 nTPM

Fibroblasts	31.7 nTPM
Placenta	95.4 nTPM
Ovary	59.3 nTPM
Skin	39.3 nTPM
Lung	30.1 nTPM
Esophagus	22.5 nTPM
Breast	21.9 nTPM
Skeletal muscle	21.3 nTPM
Stomach	20.8 nTPM
Adipose tissue	19.2 nTPM
Heart muscle	13.3 nTPM
Prostate	6.2 nTPM

Intestinal goblet cells	9.3 nTPM
Rectum	15.0 nTPM
Small intestine	7.1 nTPM
Colon	5.8 nTPM

Macrophages	14.9 nTPM
PBMC	54.6 nTPM
Ovary	34.7 nTPM
Kidney	22.7 nTPM
Esophagus	20.4 nTPM
Skeletal muscle	16.1 nTPM
Endometrium	15.1 nTPM
Adipose tissue	12.7 nTPM
Testis	9.2 nTPM
Bone marrow	8.7 nTPM
Spleen	7.2 nTPM
Breast	7.0 nTPM
Prostate	5.7 nTPM
Lung	3.8 nTPM
Stomach	2.9 nTPM
Pancreas	2.5 nTPM

Paneth cells	2.0 nTPM
Rectum	6.1 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	0.9 nTPM
Bone marrow	1.7 nTPM
Spleen	1.6 nTPM
Adipose tissue	1.3 nTPM
Esophagus	0.0 nTPM
Stomach	0.0 nTPM

Respiratory ciliated cells	0.5 nTPM
Bronchus	1.0 nTPM
Lung	0.0 nTPM

Smooth muscle cells	51.8 nTPM
Endometrium	195.3 nTPM
Pancreas	128.2 nTPM
Esophagus	52.7 nTPM
Ovary	46.1 nTPM
Adipose tissue	36.9 nTPM
Heart muscle	24.6 nTPM
Skin	24.4 nTPM
Skeletal muscle	21.7 nTPM
Breast	19.7 nTPM
Prostate	19.6 nTPM
Bronchus	0.9 nTPM

T-cells	3.2 nTPM
Endometrium	14.2 nTPM
Lung	7.6 nTPM
Esophagus	6.6 nTPM
Kidney	5.5 nTPM
Skin	5.5 nTPM
PBMC	3.2 nTPM
Liver	2.7 nTPM
Colon	1.9 nTPM
Breast	1.9 nTPM
Lymph node	1.8 nTPM
Skeletal muscle	1.3 nTPM
Spleen	1.2 nTPM
Bone marrow	0.4 nTPM
Adipose tissue	0.2 nTPM
Stomach	0.2 nTPM
Prostate	0.0 nTPM
Ovary	0.0 nTPM

Basal keratinocytes	18.1 nTPM
Skin	18.1 nTPM

Basal respiratory cells	4.5 nTPM
Bronchus	4.5 nTPM

Cholangiocytes	8.6 nTPM
Liver	8.6 nTPM

Cone photoreceptor cells	87.6 nTPM
Eye	87.6 nTPM

Undifferentiated cells	11.3 nTPM
Rectum	16.1 nTPM
Small intestine	12.3 nTPM
Colon	5.5 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