Single cell type - UBA7 - The Human Protein Atlas

UBA7

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.	UBA7
Gene descriptionⁱ Full gene name according to HGNC.	Ubiquitin like modifier activating enzyme 7
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Metabolic proteins 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.	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	1

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.	Platelets - Hemostasis (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 (Gastric mucus-secreting cells, Granulocytes, Proximal enterocytes)
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.	0.49
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 (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 (Gastric mucus-secreting cells, Granulocytes, Proximal enterocytes)

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 (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

UBA7 is part of cluster 57 Platelets - Hemostasis with confidenceⁱ 1
173 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.
GRAP2	GRB2 related adaptor protein 2	0.8030	57
AQP10	Aquaporin 10	0.7975	57
LGALS12	Galectin 12	0.7826	57
SLC35D3	Solute carrier family 35 member D3	0.7477	57
MPIG6B	Megakaryocyte and platelet inhibitory receptor G6b	0.7296	57
INKA1	Inka box actin regulator 1	0.7252	57
RAB37	RAB37, member RAS oncogene family	0.7177	57
PTPN18	Protein tyrosine phosphatase non-receptor type 18	0.7117	57
TRAPPC3L	Trafficking protein particle complex subunit 3L	0.7079	57
ENSG00000225528	Novel protein similar to translation machinery associated 7 homolog (S. cerevisiae) TMA7	0.6997	57
TREML1	Triggering receptor expressed on myeloid cells like 1	0.6962	57
TUBB1	Tubulin beta 1 class VI	0.6950	57
PF4	Platelet factor 4	0.6929	57
LY6G6F	Lymphocyte antigen 6 family member G6F	0.6926	57
GP9	Glycoprotein IX platelet	0.6905	57

IMMUNE CELLS

UBA7 is part of cluster 42 Non-specific - Vesicular transport with confidenceⁱ 0.98
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.
VCP	Valosin containing protein	1.0000	42
TANGO2	Transport and golgi organization 2 homolog	0.9762	42
MED29	Mediator complex subunit 29	0.9762	42
YWHAB	Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta	0.9762	42
UBQLN1	Ubiquilin 1	0.9762	42
TMED5	Transmembrane p24 trafficking protein 5	0.9762	42
PSMF1	Proteasome inhibitor subunit 1	0.9524	42
PDE6D	Phosphodiesterase 6D	0.9524	42
P2RX4	Purinergic receptor P2X 4	0.9524	42
SH3BGRL	SH3 domain binding glutamate rich protein like	0.9524	42
STYXL1	Serine/threonine/tyrosine interacting like 1	0.9524	42
DERL2	Derlin 2	0.9524	42
CALCOCO1	Calcium binding and coiled-coil domain 1	0.9286	42
KLHL12	Kelch like family member 12	0.9286	42
UBE4A	Ubiquitination factor E4A	0.9286	42

Adipocytes	16.3 nTPM
Adipose tissue	17.0 nTPM
Breast	15.6 nTPM

Alveolar cells type 1	13.4 nTPM
Lung	13.4 nTPM

Alveolar cells type 2	8.4 nTPM
Lung	8.4 nTPM

Astrocytes	10.8 nTPM
Brain	10.8 nTPM

B-cells	25.6 nTPM
Kidney	57.2 nTPM
Stomach	33.7 nTPM
Bone marrow	31.2 nTPM
Lung	30.9 nTPM
PBMC	30.8 nTPM
Spleen	30.5 nTPM
Lymph node	30.4 nTPM
Thymus	29.1 nTPM
Liver	24.2 nTPM
Salivary gland	18.3 nTPM
Adipose tissue	14.8 nTPM
Skin	1.7 nTPM
Esophagus	0.0 nTPM

Ciliated cells	11.7 nTPM
Bronchus	20.9 nTPM
Lung	15.0 nTPM
Fallopian tube	6.0 nTPM
Endometrium	5.0 nTPM

Club cells	13.9 nTPM
Bronchus	21.7 nTPM
Lung	11.7 nTPM
Prostate	8.3 nTPM

Endothelial cells	11.9 nTPM
Placenta	21.0 nTPM
Skeletal muscle	20.2 nTPM
Ovary	18.2 nTPM
Liver	17.6 nTPM
Heart muscle	15.6 nTPM
Breast	13.2 nTPM
Esophagus	12.1 nTPM
Testis	11.6 nTPM
Salivary gland	11.3 nTPM
Thymus	10.9 nTPM
Lung	10.6 nTPM
Endometrium	10.1 nTPM
Tongue	8.5 nTPM
Fallopian tube	8.5 nTPM
Vascular	7.4 nTPM
Skin	6.9 nTPM
Prostate	5.5 nTPM
Pancreas	5.2 nTPM

Enteroendocrine cells	10.8 nTPM
Small intestine	13.7 nTPM
Colon	13.6 nTPM
Rectum	5.0 nTPM

Fibroblasts	9.1 nTPM
Liver	16.6 nTPM
Breast	16.2 nTPM
Esophagus	14.3 nTPM
Skeletal muscle	13.8 nTPM
Adipose tissue	12.7 nTPM
Thymus	9.8 nTPM
Skin	9.4 nTPM
Stomach	8.6 nTPM
Vascular	7.7 nTPM
Salivary gland	7.0 nTPM
Prostate	6.6 nTPM
Lung	5.3 nTPM
Fallopian tube	5.3 nTPM
Pancreas	5.1 nTPM
Heart muscle	4.3 nTPM
Placenta	2.4 nTPM

Granulocytes	47.1 nTPM
Lung	70.6 nTPM
Fallopian tube	41.7 nTPM
Tongue	29.1 nTPM

Intestinal goblet cells	26.5 nTPM
Small intestine	46.5 nTPM
Colon	17.2 nTPM
Rectum	15.7 nTPM

Lymphatic endothelial cells	10.2 nTPM
Ovary	10.9 nTPM
Fallopian tube	9.5 nTPM

Macrophages	17.5 nTPM
Stomach	41.2 nTPM
Breast	31.3 nTPM
Bone marrow	27.4 nTPM
Spleen	25.1 nTPM
Lung	21.9 nTPM
Esophagus	20.6 nTPM
Fallopian tube	17.0 nTPM
Skeletal muscle	16.7 nTPM
Prostate	16.7 nTPM
Kidney	15.0 nTPM
Thymus	14.4 nTPM
Adipose tissue	14.2 nTPM
Salivary gland	14.1 nTPM
Skin	12.3 nTPM
Testis	10.5 nTPM
Vascular	10.4 nTPM
Pancreas	8.2 nTPM
Tongue	7.5 nTPM
Endometrium	7.4 nTPM

Paneth cells	21.2 nTPM
Small intestine	27.6 nTPM
Colon	21.7 nTPM
Rectum	14.3 nTPM

Basal respiratory cells	9.7 nTPM
Bronchus	9.7 nTPM

Basal squamous epithelial cells	7.3 nTPM
Esophagus	7.3 nTPM

Bipolar cells	1.3 nTPM
Eye	1.3 nTPM

Cholangiocytes	15.3 nTPM
Liver	15.3 nTPM

Plasma cells	10.2 nTPM
Stomach	26.4 nTPM
Spleen	9.4 nTPM
Bone marrow	9.1 nTPM
Liver	9.0 nTPM
Salivary gland	9.0 nTPM
Fallopian tube	7.1 nTPM
Thymus	6.8 nTPM
Esophagus	5.2 nTPM

Schwann cells	6.1 nTPM
Adipose tissue	9.4 nTPM
Vascular	8.9 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	16.7 nTPM
Tongue	22.1 nTPM
Salivary gland	11.3 nTPM

Smooth muscle cells	8.6 nTPM
Liver	17.8 nTPM
Placenta	16.2 nTPM
Lung	11.8 nTPM
Breast	10.9 nTPM
Skeletal muscle	10.1 nTPM
Thymus	9.6 nTPM
Ovary	8.9 nTPM
Adipose tissue	8.5 nTPM
Skin	7.4 nTPM
Vascular	6.1 nTPM
Esophagus	6.0 nTPM
Endometrium	5.6 nTPM
Tongue	5.4 nTPM
Salivary gland	5.2 nTPM
Fallopian tube	4.4 nTPM
Prostate	3.0 nTPM

T-cells	15.6 nTPM
Spleen	25.4 nTPM
Bone marrow	23.8 nTPM
Colon	22.4 nTPM
PBMC	21.9 nTPM
Stomach	21.4 nTPM
Liver	19.5 nTPM
Breast	19.3 nTPM
Thymus	18.7 nTPM
Lymph node	18.0 nTPM
Kidney	16.8 nTPM
Lung	15.9 nTPM
Skeletal muscle	14.7 nTPM
Salivary gland	13.9 nTPM
Vascular	12.5 nTPM
Esophagus	12.2 nTPM
Adipose tissue	10.8 nTPM
Skin	10.2 nTPM
Fallopian tube	9.5 nTPM
Endometrium	7.5 nTPM
Prostate	6.5 nTPM
Tongue	6.2 nTPM

Undifferentiated cells	13.2 nTPM
Small intestine	21.1 nTPM
Rectum	11.8 nTPM
Colon	6.5 nTPM

Amygdala excitatory	0.4 nTPM
Basal ganglia	0.6 nTPM
Amygdala	0.5 nTPM
Hippocampus	0.5 nTPM
Thalamus	0.5 nTPM
Cerebral cortex	0.3 nTPM
Hypothalamus	0.3 nTPM

Astrocyte	17.7 nTPM
Spinal cord	24.6 nTPM
Cerebellum	24.2 nTPM
Pons	21.8 nTPM
Midbrain	21.2 nTPM
Hippocampus	20.0 nTPM
Thalamus	19.1 nTPM
Cerebral cortex	16.2 nTPM
Medulla oblongata	16.0 nTPM
Basal ganglia	14.8 nTPM
Amygdala	10.2 nTPM
Hypothalamus	6.9 nTPM

Bergmann glia	5.7 nTPM
Cerebellum	6.4 nTPM
Medulla oblongata	6.4 nTPM
Pons	4.3 nTPM

Central nervous system macrophage	45.7 nTPM
Hippocampus	70.0 nTPM
Cerebral cortex	58.2 nTPM
Cerebellum	54.9 nTPM
Midbrain	53.0 nTPM
Basal ganglia	48.4 nTPM
Spinal cord	43.3 nTPM
Amygdala	40.0 nTPM
Pons	39.0 nTPM
Thalamus	37.7 nTPM
Medulla oblongata	35.5 nTPM
Hypothalamus	22.4 nTPM

Cerebellar inhibitory	0.4 nTPM
Medulla oblongata	0.6 nTPM
Midbrain	0.6 nTPM
Cerebellum	0.3 nTPM
Pons	0.3 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	0.2 nTPM
Amygdala	0.3 nTPM
Thalamus	0.3 nTPM
Basal ganglia	0.2 nTPM
Cerebral cortex	0.2 nTPM
Hippocampus	0.2 nTPM
Hypothalamus	0.2 nTPM
Midbrain	0.2 nTPM

Choroid plexus epithelial cell	0.5 nTPM
Basal ganglia	1.3 nTPM
Medulla oblongata	0.7 nTPM
Hippocampus	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	2.3 nTPM
Spinal cord	7.4 nTPM
Basal ganglia	4.4 nTPM
Cerebral cortex	4.4 nTPM
Hippocampus	2.6 nTPM
Medulla oblongata	2.6 nTPM
Pons	1.8 nTPM
Hypothalamus	0.7 nTPM
Amygdala	0.6 nTPM
Thalamus	0.5 nTPM
Cerebellum	0.0 nTPM
Midbrain	0.0 nTPM

Deep-layer corticothalamic and 6b	0.6 nTPM
Midbrain	1.1 nTPM
Hypothalamus	0.8 nTPM
Basal ganglia	0.5 nTPM
Amygdala	0.4 nTPM
Cerebral cortex	0.3 nTPM
Hippocampus	0.3 nTPM

Deep-layer intratelencephalic	0.3 nTPM
Amygdala	0.3 nTPM
Basal ganglia	0.3 nTPM
Hippocampus	0.3 nTPM
Hypothalamus	0.3 nTPM
Cerebral cortex	0.2 nTPM

Deep-layer near-projecting	0.2 nTPM
Hippocampus	0.3 nTPM
Amygdala	0.2 nTPM
Basal ganglia	0.2 nTPM
Hypothalamus	0.2 nTPM
Cerebral cortex	0.1 nTPM

Eccentric medium spiny neuron	0.5 nTPM
Hippocampus	0.8 nTPM
Amygdala	0.5 nTPM
Basal ganglia	0.5 nTPM
Hypothalamus	0.5 nTPM
Cerebral cortex	0.4 nTPM
Thalamus	0.2 nTPM

Endothelial cell	19.6 nTPM
Medulla oblongata	26.7 nTPM
Hippocampus	25.6 nTPM
Midbrain	24.6 nTPM
Amygdala	22.4 nTPM
Pons	20.6 nTPM
Thalamus	20.3 nTPM
Cerebellum	20.1 nTPM
Spinal cord	17.3 nTPM
Cerebral cortex	16.6 nTPM
Basal ganglia	14.9 nTPM
Hypothalamus	6.2 nTPM

Ependymal cell	6.9 nTPM
Hippocampus	10.5 nTPM
Amygdala	9.7 nTPM
Basal ganglia	7.8 nTPM
Pons	7.5 nTPM
Hypothalamus	7.1 nTPM
Midbrain	5.7 nTPM
Medulla oblongata	5.0 nTPM
Thalamus	4.9 nTPM
Spinal cord	3.8 nTPM