Single cell type - UNC13D - The Human Protein Atlas

UNC13D

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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.	UNC13D
Gene descriptionⁱ Full gene name according to HGNC.	Unc-13 homolog D
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes Plasma proteins
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.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	11

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.	NK-cells - Adaptive immune response (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 (Alveolar cells type 1, Hofbauer cells, NK-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.	0.64
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.	Cell type enhanced (Leukocyte, Central nervous system macrophage)
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 (Alveolar cells type 1, Hofbauer cells, NK-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: Cell type enhanced (Leukocyte, Central nervous system macrophage)

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

UNC13D is part of cluster 19 NK-cells - Adaptive immune response with confidenceⁱ 0.99
266 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.
CATSPER1	Cation channel sperm associated 1	0.5703	30
RNPEPL1	Arginyl aminopeptidase like 1	0.5492	33
RPS6KA1	Ribosomal protein S6 kinase A1	0.5308	74
RAC2	Rac family small GTPase 2	0.5288	19
SH3BGRL3	SH3 domain binding glutamate rich protein like 3	0.5256	45
CC2D1B	Coiled-coil and C2 domain containing 1B	0.5251	33
CEACAM6	CEA cell adhesion molecule 6	0.5197	45
SPN	Sialophorin	0.5108	19
CCND3	Cyclin D3	0.5002	19
MYO1F	Myosin IF	0.4985	19
DOK2	Docking protein 2	0.4972	19
VAV1	Vav guanine nucleotide exchange factor 1	0.4948	29
TSPAN32	Tetraspanin 32	0.4929	19
SHKBP1	SH3KBP1 binding protein 1	0.4888	29
PKN1	Protein kinase N1	0.4883	33

IMMUNE CELLS

UNC13D is part of cluster 42 Non-specific - Vesicular transport with confidenceⁱ 0.84
519 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.
RBM7	RNA binding motif protein 7	0.9524	21
RASSF5	Ras association domain family member 5	0.9286	42
CTDSP1	CTD small phosphatase 1	0.9048	21
OSTF1	Osteoclast stimulating factor 1	0.9048	21
RBM18	RNA binding motif protein 18	0.9048	45
ITGB1BP1	Integrin subunit beta 1 binding protein 1	0.8810	42
PSMB9	Proteasome 20S subunit beta 9	0.8810	42
GNB2	G protein subunit beta 2	0.8810	21
TRERF1	Transcriptional regulating factor 1	0.8810	3
LCP2	Lymphocyte cytosolic protein 2	0.8810	45
SLC9A3R1	SLC9A3 regulator 1	0.8810	42
NAA60	N-alpha-acetyltransferase 60, NatF catalytic subunit	0.8571	25
RHEB	Ras homolog, mTORC1 binding	0.8571	42
TAX1BP1	Tax1 binding protein 1	0.8571	42
MED4	Mediator complex subunit 4	0.8571	42

Adipocytes	3.7 nTPM
Adipose tissue	5.1 nTPM
Breast	2.3 nTPM

Alveolar cells type 1	131.0 nTPM
Lung	131.0 nTPM

Alveolar cells type 2	6.9 nTPM
Lung	6.9 nTPM

Astrocytes	6.5 nTPM
Brain	6.5 nTPM

B-cells	13.7 nTPM
Thymus	22.5 nTPM
PBMC	21.6 nTPM
Kidney	20.8 nTPM
Stomach	19.4 nTPM
Lung	18.8 nTPM
Bone marrow	18.3 nTPM
Spleen	15.8 nTPM
Salivary gland	12.9 nTPM
Lymph node	12.0 nTPM
Adipose tissue	8.2 nTPM
Liver	4.8 nTPM
Skin	3.4 nTPM
Esophagus	0.0 nTPM

Ciliated cells	2.3 nTPM
Bronchus	3.7 nTPM
Lung	3.1 nTPM
Endometrium	1.2 nTPM
Fallopian tube	1.1 nTPM

Club cells	2.9 nTPM
Lung	3.4 nTPM
Prostate	3.1 nTPM
Bronchus	2.4 nTPM

Endothelial cells	4.8 nTPM
Liver	10.1 nTPM
Heart muscle	9.2 nTPM
Skin	7.6 nTPM
Breast	7.0 nTPM
Lung	6.9 nTPM
Skeletal muscle	6.6 nTPM
Ovary	4.8 nTPM
Prostate	4.6 nTPM
Placenta	4.5 nTPM
Tongue	4.2 nTPM
Thymus	3.8 nTPM
Vascular	3.6 nTPM
Esophagus	3.5 nTPM
Salivary gland	2.8 nTPM
Endometrium	2.2 nTPM
Testis	2.1 nTPM
Fallopian tube	2.0 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	5.1 nTPM
Rectum	6.7 nTPM
Colon	5.1 nTPM
Small intestine	3.4 nTPM

Fibroblasts	2.6 nTPM
Placenta	11.4 nTPM
Lung	6.4 nTPM
Liver	4.7 nTPM
Prostate	4.6 nTPM
Breast	2.6 nTPM
Fallopian tube	2.2 nTPM
Skin	1.9 nTPM
Thymus	1.5 nTPM
Stomach	1.4 nTPM
Skeletal muscle	1.3 nTPM
Pancreas	1.0 nTPM
Salivary gland	1.0 nTPM
Vascular	0.8 nTPM
Heart muscle	0.5 nTPM
Adipose tissue	0.5 nTPM
Esophagus	0.4 nTPM

Granulocytes	37.1 nTPM
Lung	73.1 nTPM
Fallopian tube	33.4 nTPM
Tongue	4.9 nTPM

Intestinal goblet cells	2.2 nTPM
Small intestine	3.6 nTPM
Rectum	1.6 nTPM
Colon	1.5 nTPM

Lymphatic endothelial cells	10.4 nTPM
Ovary	10.9 nTPM
Fallopian tube	9.9 nTPM

Macrophages	17.5 nTPM
Lung	41.3 nTPM
Pancreas	34.9 nTPM
Kidney	31.0 nTPM
Stomach	20.6 nTPM
Skeletal muscle	20.5 nTPM
Bone marrow	19.3 nTPM
Testis	18.0 nTPM
Fallopian tube	17.5 nTPM
Thymus	15.9 nTPM
Salivary gland	15.2 nTPM
Vascular	15.1 nTPM
Spleen	15.0 nTPM
Prostate	14.5 nTPM
Adipose tissue	14.0 nTPM
Endometrium	11.1 nTPM
Breast	10.2 nTPM
Tongue	9.6 nTPM
Esophagus	5.1 nTPM
Skin	3.3 nTPM

Paneth cells	26.1 nTPM
Colon	57.9 nTPM
Small intestine	10.4 nTPM
Rectum	10.0 nTPM

Basal prostatic cells	4.0 nTPM
Prostate	4.0 nTPM

Basal squamous epithelial cells	0.7 nTPM
Esophagus	0.7 nTPM

Collecting duct cells	5.8 nTPM
Kidney	5.8 nTPM

Cone photoreceptor cells	8.5 nTPM
Eye	8.5 nTPM

Plasma cells	20.5 nTPM
Stomach	28.9 nTPM
Thymus	26.9 nTPM
Bone marrow	25.7 nTPM
Spleen	22.9 nTPM
Salivary gland	20.1 nTPM
Liver	19.5 nTPM
Esophagus	10.4 nTPM
Fallopian tube	9.6 nTPM

Schwann cells	6.8 nTPM
Esophagus	12.0 nTPM
Adipose tissue	4.3 nTPM
Vascular	4.2 nTPM

Serous glandular cells	1.6 nTPM
Salivary gland	3.3 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	2.5 nTPM
Liver	10.6 nTPM
Breast	3.4 nTPM
Skeletal muscle	3.0 nTPM
Tongue	2.7 nTPM
Placenta	2.5 nTPM
Skin	2.4 nTPM
Esophagus	2.4 nTPM
Lung	2.4 nTPM
Ovary	2.2 nTPM
Endometrium	1.7 nTPM
Salivary gland	1.4 nTPM
Prostate	1.2 nTPM
Thymus	1.0 nTPM
Vascular	1.0 nTPM
Adipose tissue	0.9 nTPM
Fallopian tube	0.7 nTPM

T-cells	27.4 nTPM
Liver	44.8 nTPM
PBMC	42.7 nTPM
Bone marrow	39.7 nTPM
Lung	36.7 nTPM
Stomach	34.8 nTPM
Colon	33.1 nTPM
Skeletal muscle	31.0 nTPM
Spleen	30.5 nTPM
Kidney	28.4 nTPM
Skin	27.3 nTPM
Thymus	26.0 nTPM
Vascular	25.3 nTPM
Lymph node	24.8 nTPM
Endometrium	22.2 nTPM
Salivary gland	21.4 nTPM
Adipose tissue	20.3 nTPM
Tongue	20.3 nTPM
Breast	20.0 nTPM
Fallopian tube	18.3 nTPM
Esophagus	14.6 nTPM
Prostate	12.6 nTPM

Undifferentiated cells	2.4 nTPM
Colon	3.1 nTPM
Rectum	2.1 nTPM
Small intestine	1.9 nTPM

Amygdala excitatory	1.6 nTPM
Thalamus	2.7 nTPM
Hypothalamus	1.7 nTPM
Amygdala	1.6 nTPM
Basal ganglia	1.1 nTPM
Cerebral cortex	1.1 nTPM
Hippocampus	1.1 nTPM

Astrocyte	14.3 nTPM
Spinal cord	19.0 nTPM
Pons	18.9 nTPM
Midbrain	17.0 nTPM
Basal ganglia	15.6 nTPM
Hippocampus	15.4 nTPM
Thalamus	14.0 nTPM
Cerebellum	13.8 nTPM
Medulla oblongata	12.9 nTPM
Amygdala	11.4 nTPM
Cerebral cortex	11.2 nTPM
Hypothalamus	8.1 nTPM

Bergmann glia	9.6 nTPM
Cerebellum	13.0 nTPM
Pons	11.5 nTPM
Medulla oblongata	4.3 nTPM

Central nervous system macrophage	26.1 nTPM
Hippocampus	35.9 nTPM
Cerebellum	35.7 nTPM
Cerebral cortex	31.5 nTPM
Midbrain	28.4 nTPM
Amygdala	26.0 nTPM
Pons	25.4 nTPM
Basal ganglia	24.3 nTPM
Spinal cord	23.0 nTPM
Thalamus	22.4 nTPM
Medulla oblongata	20.4 nTPM
Hypothalamus	13.9 nTPM

Cerebellar inhibitory	3.0 nTPM
Cerebellum	4.2 nTPM
Midbrain	4.0 nTPM
Medulla oblongata	3.9 nTPM
Pons	2.7 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	2.1 nTPM
Hypothalamus	2.4 nTPM
Thalamus	2.4 nTPM
Amygdala	2.3 nTPM
Cerebral cortex	2.1 nTPM
Basal ganglia	2.0 nTPM
Hippocampus	1.7 nTPM
Midbrain	1.5 nTPM

Choroid plexus epithelial cell	1.2 nTPM
Medulla oblongata	3.4 nTPM
Basal ganglia	1.6 nTPM
Hippocampus	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	5.0 nTPM
Thalamus	9.2 nTPM
Cerebral cortex	8.9 nTPM
Hypothalamus	7.5 nTPM
Amygdala	5.6 nTPM
Midbrain	5.0 nTPM
Medulla oblongata	3.9 nTPM
Basal ganglia	3.8 nTPM
Spinal cord	3.7 nTPM
Hippocampus	3.4 nTPM
Pons	2.7 nTPM
Cerebellum	1.6 nTPM

Deep-layer corticothalamic and 6b	1.2 nTPM
Hypothalamus	1.9 nTPM
Hippocampus	1.5 nTPM
Basal ganglia	1.3 nTPM
Cerebral cortex	1.2 nTPM
Amygdala	1.0 nTPM
Midbrain	0.0 nTPM

Deep-layer intratelencephalic	1.1 nTPM
Hypothalamus	1.4 nTPM
Cerebral cortex	1.2 nTPM
Amygdala	1.0 nTPM
Basal ganglia	1.0 nTPM
Hippocampus	0.7 nTPM

Deep-layer near-projecting	1.4 nTPM
Hypothalamus	2.8 nTPM
Basal ganglia	1.7 nTPM
Cerebral cortex	1.7 nTPM
Amygdala	1.1 nTPM
Hippocampus	0.0 nTPM

Eccentric medium spiny neuron	1.9 nTPM
Hypothalamus	2.4 nTPM
Cerebral cortex	2.3 nTPM
Amygdala	2.1 nTPM
Basal ganglia	2.0 nTPM
Thalamus	1.3 nTPM
Hippocampus	1.2 nTPM

Endothelial cell	3.7 nTPM
Hypothalamus	6.2 nTPM
Amygdala	5.6 nTPM
Spinal cord	5.2 nTPM
Midbrain	4.7 nTPM
Hippocampus	4.2 nTPM
Basal ganglia	3.7 nTPM
Cerebral cortex	3.2 nTPM
Cerebellum	3.1 nTPM
Medulla oblongata	2.1 nTPM
Pons	1.9 nTPM
Thalamus	0.6 nTPM

Ependymal cell	4.7 nTPM
Spinal cord	7.7 nTPM
Basal ganglia	6.8 nTPM
Hippocampus	5.9 nTPM
Hypothalamus	5.4 nTPM
Amygdala	5.1 nTPM
Medulla oblongata	3.7 nTPM
Thalamus	2.8 nTPM
Midbrain	2.5 nTPM
Pons	2.0 nTPM