Single cell type - DCTN4 - The Human Protein Atlas

DCTN4

Search result

Field

Term

Cluster

Pathway

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.	DCTN4
Gene descriptionⁱ Full gene name according to HGNC.	Dynactin subunit 4
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.	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.	Non-specific - Transcription (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.	Low cell type specificity
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.	0.20
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: Low cell type specificity

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

DCTN4 is part of cluster 55 Non-specific - Transcription with confidenceⁱ 1
709 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.
WASHC2C	WASH complex subunit 2C	0.5969	49
YTHDF3	YTH N6-methyladenosine RNA binding protein 3	0.5781	29
RANBP2	RAN binding protein 2	0.5260	28
FBXO38	F-box protein 38	0.5121	74
C5orf22	Chromosome 5 open reading frame 22	0.5017	49
SERINC1	Serine incorporator 1	0.4947	55
WASHC5	WASH complex subunit 5	0.4858	51
MMGT1	Membrane magnesium transporter 1	0.4818	49
UBE4A	Ubiquitination factor E4A	0.4674	55
DNAJC13	DnaJ heat shock protein family (Hsp40) member C13	0.4626	58
MTMR6	Myotubularin related protein 6	0.4594	55
AGGF1	Angiogenic factor with G-patch and FHA domains 1	0.4592	49
MED14	Mediator complex subunit 14	0.4506	55
RPP14	Ribonuclease P/MRP subunit p14	0.4491	49
UBR4	Ubiquitin protein ligase E3 component n-recognin 4	0.4430	49

IMMUNE CELLS

DCTN4 is part of cluster 21 Neutrophils - Unknown function with confidenceⁱ 0.83
492 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.
FOLR3	Folate receptor gamma	1.0000	21
SGK1	Serum/glucocorticoid regulated kinase 1	0.9762	21
SIRPA	Signal regulatory protein alpha	0.9762	21
GPR141	G protein-coupled receptor 141	0.9762	38
ZNF467	Zinc finger protein 467	0.9762	38
AGTRAP	Angiotensin II receptor associated protein	0.9762	21
TALDO1	Transaldolase 1	0.9762	21
ANXA9	Annexin A9	0.9762	7
IL13RA1	Interleukin 13 receptor subunit alpha 1	0.9762	7
SIRPD	Signal regulatory protein delta	0.9762	7
TIMP2	TIMP metallopeptidase inhibitor 2	0.9762	7
ATP6V0B	ATPase H+ transporting V0 subunit b	0.9762	7
ERLIN1	ER lipid raft associated 1	0.9762	7
GLIPR2	GLI pathogenesis related 2	0.9524	21
CCNY	Cyclin Y	0.9524	38

Adipocytes	17.6 nTPM
Adipose tissue	19.0 nTPM
Breast	16.3 nTPM

Alveolar cells type 1	48.1 nTPM
Lung	48.1 nTPM

Alveolar cells type 2	32.0 nTPM
Lung	32.0 nTPM

Astrocytes	41.2 nTPM
Brain	41.2 nTPM

B-cells	27.4 nTPM
Stomach	72.6 nTPM
Spleen	48.9 nTPM
Thymus	41.8 nTPM
Esophagus	41.3 nTPM
Lymph node	38.4 nTPM
Bone marrow	32.0 nTPM
Adipose tissue	25.5 nTPM
Salivary gland	15.4 nTPM
Skin	11.9 nTPM
PBMC	10.8 nTPM
Liver	9.7 nTPM
Lung	8.0 nTPM
Kidney	0.0 nTPM

Ciliated cells	21.6 nTPM
Bronchus	22.1 nTPM
Endometrium	22.0 nTPM
Fallopian tube	21.3 nTPM
Lung	20.9 nTPM

Club cells	18.3 nTPM
Prostate	24.3 nTPM
Lung	16.6 nTPM
Bronchus	13.9 nTPM

Dendritic cells	43.7 nTPM
Adipose tissue	65.7 nTPM
PBMC	21.6 nTPM

Endothelial cells	20.2 nTPM
Thymus	30.6 nTPM
Esophagus	28.4 nTPM
Endometrium	24.4 nTPM
Lung	24.3 nTPM
Salivary gland	24.0 nTPM
Vascular	23.0 nTPM
Tongue	21.4 nTPM
Testis	21.1 nTPM
Heart muscle	19.8 nTPM
Prostate	19.3 nTPM
Breast	19.3 nTPM
Liver	18.9 nTPM
Fallopian tube	18.3 nTPM
Pancreas	15.5 nTPM
Skin	15.3 nTPM
Skeletal muscle	14.1 nTPM
Ovary	12.6 nTPM
Placenta	12.5 nTPM

Enteroendocrine cells	21.6 nTPM
Rectum	26.8 nTPM
Colon	20.7 nTPM
Small intestine	17.2 nTPM

Fibroblasts	25.9 nTPM
Esophagus	44.6 nTPM
Thymus	39.3 nTPM
Fallopian tube	39.3 nTPM
Vascular	31.9 nTPM
Adipose tissue	28.8 nTPM
Stomach	28.8 nTPM
Breast	24.7 nTPM
Salivary gland	24.2 nTPM
Placenta	24.1 nTPM
Liver	21.3 nTPM
Prostate	21.1 nTPM
Skin	19.6 nTPM
Heart muscle	19.0 nTPM
Lung	18.4 nTPM
Skeletal muscle	17.1 nTPM
Pancreas	12.9 nTPM

Granulocytes	37.3 nTPM
Fallopian tube	46.7 nTPM
Tongue	43.7 nTPM
Lung	21.7 nTPM

Intestinal goblet cells	29.5 nTPM
Rectum	32.4 nTPM
Small intestine	29.5 nTPM
Colon	26.6 nTPM

Lymphatic endothelial cells	25.5 nTPM
Fallopian tube	34.6 nTPM
Ovary	16.4 nTPM

Macrophages	42.3 nTPM
Fallopian tube	76.5 nTPM
Spleen	72.2 nTPM
Vascular	67.1 nTPM
Bone marrow	62.8 nTPM
Adipose tissue	60.2 nTPM
Thymus	57.3 nTPM
Stomach	51.4 nTPM
Esophagus	46.2 nTPM
Salivary gland	42.9 nTPM
Skin	41.2 nTPM
Prostate	38.1 nTPM
Skeletal muscle	31.2 nTPM
Endometrium	29.5 nTPM
Lung	28.6 nTPM
Tongue	27.9 nTPM
Kidney	24.8 nTPM
Breast	20.3 nTPM
Testis	19.8 nTPM
Pancreas	6.2 nTPM

Basal prostatic cells	21.2 nTPM
Prostate	21.2 nTPM

Basal squamous epithelial cells	40.3 nTPM
Esophagus	40.3 nTPM

Cholangiocytes	22.9 nTPM
Liver	22.9 nTPM

Collecting duct cells	11.7 nTPM
Kidney	11.7 nTPM

Paneth cells	18.8 nTPM
Colon	21.7 nTPM
Small intestine	20.7 nTPM
Rectum	14.1 nTPM

Plasma cells	29.5 nTPM
Fallopian tube	47.3 nTPM
Stomach	39.8 nTPM
Esophagus	36.4 nTPM
Thymus	30.6 nTPM
Salivary gland	26.9 nTPM
Spleen	24.5 nTPM
Bone marrow	16.6 nTPM
Liver	14.0 nTPM

Schwann cells	29.1 nTPM
Vascular	35.5 nTPM
Adipose tissue	27.7 nTPM
Esophagus	24.0 nTPM

Serous glandular cells	16.5 nTPM
Salivary gland	33.0 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	23.1 nTPM
Thymus	39.2 nTPM
Esophagus	34.8 nTPM
Vascular	31.3 nTPM
Fallopian tube	31.2 nTPM
Salivary gland	27.4 nTPM
Prostate	26.2 nTPM
Endometrium	23.6 nTPM
Adipose tissue	20.9 nTPM
Liver	20.8 nTPM
Placenta	18.5 nTPM
Tongue	18.3 nTPM
Ovary	17.6 nTPM
Breast	16.9 nTPM
Skin	15.3 nTPM
Lung	15.3 nTPM
Skeletal muscle	12.5 nTPM

Suprabasal keratinocytes	27.1 nTPM
Tongue	35.0 nTPM
Skin	19.3 nTPM

T-cells	26.5 nTPM
Stomach	67.4 nTPM
Spleen	47.2 nTPM
Esophagus	41.4 nTPM
Lymph node	37.3 nTPM
Bone marrow	37.3 nTPM
Fallopian tube	36.8 nTPM
Thymus	35.3 nTPM
Endometrium	31.8 nTPM
Adipose tissue	30.7 nTPM
Vascular	24.9 nTPM
Prostate	21.4 nTPM
Tongue	20.4 nTPM
Breast	18.7 nTPM
Salivary gland	17.2 nTPM
Skeletal muscle	16.3 nTPM
Colon	14.6 nTPM
Lung	14.4 nTPM
Liver	13.1 nTPM
Skin	11.6 nTPM
PBMC	11.2 nTPM
Kidney	7.1 nTPM

Undifferentiated cells	18.0 nTPM
Small intestine	20.5 nTPM
Rectum	17.7 nTPM
Colon	15.9 nTPM

Amygdala excitatory	54.8 nTPM
Thalamus	55.8 nTPM
Cerebral cortex	55.7 nTPM
Amygdala	55.4 nTPM
Hippocampus	55.4 nTPM
Basal ganglia	55.3 nTPM
Hypothalamus	51.1 nTPM

Astrocyte	75.5 nTPM
Spinal cord	89.3 nTPM
Amygdala	84.3 nTPM
Cerebral cortex	83.0 nTPM
Hypothalamus	82.4 nTPM
Basal ganglia	78.4 nTPM
Hippocampus	73.4 nTPM
Thalamus	73.2 nTPM
Pons	69.2 nTPM
Medulla oblongata	68.1 nTPM
Midbrain	67.8 nTPM
Cerebellum	61.3 nTPM

Bergmann glia	81.1 nTPM
Pons	90.6 nTPM
Cerebellum	82.4 nTPM
Medulla oblongata	70.3 nTPM

Central nervous system macrophage	163.4 nTPM
Spinal cord	198.7 nTPM
Amygdala	179.5 nTPM
Hypothalamus	175.3 nTPM
Hippocampus	168.8 nTPM
Basal ganglia	167.8 nTPM
Pons	159.6 nTPM
Cerebral cortex	157.8 nTPM
Midbrain	156.6 nTPM
Thalamus	149.5 nTPM
Cerebellum	144.3 nTPM
Medulla oblongata	140.0 nTPM

Cerebellar inhibitory	66.0 nTPM
Spinal cord	77.0 nTPM
Medulla oblongata	67.4 nTPM
Pons	64.0 nTPM
Cerebellum	61.6 nTPM
Midbrain	60.0 nTPM

Cge interneuron	63.7 nTPM
Thalamus	72.1 nTPM
Midbrain	67.2 nTPM
Amygdala	64.2 nTPM
Basal ganglia	61.7 nTPM
Hypothalamus	60.8 nTPM
Cerebral cortex	60.7 nTPM
Hippocampus	59.3 nTPM

Choroid plexus epithelial cell	79.2 nTPM
Hippocampus	97.1 nTPM
Basal ganglia	89.2 nTPM
Medulla oblongata	70.4 nTPM
Thalamus	60.3 nTPM

Committed oligodendrocyte precursor	74.0 nTPM
Spinal cord	88.3 nTPM
Midbrain	84.0 nTPM
Pons	76.1 nTPM
Cerebral cortex	74.7 nTPM
Thalamus	73.4 nTPM
Basal ganglia	72.8 nTPM
Hippocampus	72.2 nTPM
Cerebellum	71.3 nTPM
Amygdala	71.0 nTPM
Hypothalamus	70.3 nTPM
Medulla oblongata	59.4 nTPM

Deep-layer corticothalamic and 6b	60.8 nTPM
Midbrain	71.0 nTPM
Hippocampus	61.2 nTPM
Basal ganglia	60.7 nTPM
Amygdala	59.5 nTPM
Cerebral cortex	59.0 nTPM
Hypothalamus	53.2 nTPM

Deep-layer intratelencephalic	54.5 nTPM
Cerebral cortex	57.6 nTPM
Basal ganglia	56.6 nTPM
Amygdala	56.0 nTPM
Hippocampus	54.6 nTPM
Hypothalamus	47.5 nTPM

Deep-layer near-projecting	59.6 nTPM
Hypothalamus	64.4 nTPM
Cerebral cortex	62.1 nTPM
Amygdala	61.0 nTPM
Basal ganglia	58.1 nTPM
Hippocampus	52.4 nTPM

Eccentric medium spiny neuron	59.3 nTPM
Thalamus	63.0 nTPM
Hypothalamus	62.2 nTPM
Basal ganglia	61.9 nTPM
Amygdala	60.9 nTPM
Cerebral cortex	59.3 nTPM
Hippocampus	48.5 nTPM