Single cell type - GOLGA7B - The Human Protein Atlas

GOLGA7B

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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.	GOLGA7B
Gene descriptionⁱ Full gene name according to HGNC.	Golgin A7 family member B
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.	2

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.	Neurons - 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.	Cell type enhanced (Excitatory neurons, Astrocytes, Inhibitory neurons, Horizontal cells, Late spermatids, Melanocytes, Rod photoreceptor 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.	0.75
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.	Not detected in immune cells
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 (Excitatory neurons, Astrocytes, Inhibitory neurons, Horizontal cells, Late spermatids, Melanocytes, Rod photoreceptor 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: 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: Not detected in immune cells
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

GOLGA7B is part of cluster 34 Neurons - Neuronal signaling with confidenceⁱ 1
518 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.
KIAA0319	KIAA0319	0.6001	34
TRPM3	Transient receptor potential cation channel subfamily M member 3	0.5865	34
MAPK10	Mitogen-activated protein kinase 10	0.5645	34
ADAM11	ADAM metallopeptidase domain 11	0.5608	34
PHF24	PHD finger protein 24	0.5590	34
FMN2	Formin 2	0.5590	34
ASIC2	Acid sensing ion channel subunit 2	0.5448	34
OLFM3	Olfactomedin 3	0.5442	34
CALHM1	Calcium homeostasis modulator 1	0.5247	34
ADCY2	Adenylate cyclase 2	0.5244	34
NBPF6	NBPF member 6	0.5234	34
C11orf80	Chromosome 11 open reading frame 80	0.5176	69
ADAMTSL1	ADAMTS like 1	0.5150	34
DCHS2	Dachsous cadherin-related 2	0.5118	34
OTOL1	Otolin 1	0.5103	34

Adipocytes	0.2 nTPM
Breast	0.3 nTPM
Adipose tissue	0.2 nTPM

Alveolar cells type 1	0.1 nTPM
Lung	0.1 nTPM

Alveolar cells type 2	2.0 nTPM
Lung	2.0 nTPM

B-cells	0.2 nTPM
Skin	1.7 nTPM
Bone marrow	0.2 nTPM
Lymph node	0.1 nTPM
Salivary gland	0.1 nTPM
Thymus	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Basal keratinocytes	12.3 nTPM
Skin	21.3 nTPM
Tongue	3.2 nTPM

Ciliated cells	0.2 nTPM
Lung	0.7 nTPM
Endometrium	0.1 nTPM
Bronchus	0.1 nTPM
Fallopian tube	0.0 nTPM

Club cells	0.5 nTPM
Lung	0.7 nTPM
Bronchus	0.4 nTPM
Prostate	0.4 nTPM

Endothelial cells	1.2 nTPM
Heart muscle	14.2 nTPM
Tongue	2.1 nTPM
Lung	0.9 nTPM
Thymus	0.9 nTPM
Vascular	0.9 nTPM
Placenta	0.6 nTPM
Skin	0.6 nTPM
Esophagus	0.5 nTPM
Salivary gland	0.4 nTPM
Endometrium	0.2 nTPM
Skeletal muscle	0.1 nTPM
Fallopian tube	0.1 nTPM
Testis	0.0 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM
Prostate	0.0 nTPM
Breast	0.0 nTPM
Ovary	0.0 nTPM

Enteroendocrine cells	5.7 nTPM
Rectum	10.1 nTPM
Small intestine	6.9 nTPM
Colon	0.3 nTPM

Fibroblasts	0.2 nTPM
Pancreas	0.9 nTPM
Skin	0.5 nTPM
Thymus	0.5 nTPM
Fallopian tube	0.3 nTPM
Heart muscle	0.2 nTPM
Vascular	0.2 nTPM
Breast	0.2 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM
Salivary gland	0.0 nTPM

Granulocytes	0.0 nTPM
Lung	0.0 nTPM
Tongue	0.0 nTPM
Fallopian tube	0.0 nTPM

Intestinal goblet cells	1.1 nTPM
Rectum	1.6 nTPM
Colon	1.5 nTPM
Small intestine	0.1 nTPM

Lymphatic endothelial cells	0.1 nTPM
Fallopian tube	0.1 nTPM
Ovary	0.0 nTPM

Macrophages	1.1 nTPM
Thymus	8.4 nTPM
Vascular	3.7 nTPM
Skin	2.2 nTPM
Pancreas	2.1 nTPM
Lung	1.4 nTPM
Breast	0.9 nTPM
Tongue	0.7 nTPM
Salivary gland	0.5 nTPM
Adipose tissue	0.2 nTPM
Fallopian tube	0.1 nTPM
Testis	0.0 nTPM
Kidney	0.0 nTPM
Endometrium	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Prostate	0.0 nTPM

Paneth cells	0.1 nTPM
Rectum	0.2 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Astrocytes	24.2 nTPM
Brain	24.2 nTPM

Bipolar cells	3.0 nTPM
Eye	3.0 nTPM

Collecting duct cells	1.9 nTPM
Kidney	1.9 nTPM

Cone photoreceptor cells	5.1 nTPM
Eye	5.1 nTPM

Plasma cells	0.1 nTPM
Stomach	0.4 nTPM
Spleen	0.2 nTPM
Thymus	0.1 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Salivary gland	0.0 nTPM
Fallopian tube	0.0 nTPM

Schwann cells	2.3 nTPM
Vascular	6.8 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	0.5 nTPM
Salivary gland	0.9 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	0.4 nTPM
Liver	1.3 nTPM
Adipose tissue	1.3 nTPM
Esophagus	1.2 nTPM
Skin	0.6 nTPM
Tongue	0.6 nTPM
Salivary gland	0.4 nTPM
Thymus	0.3 nTPM
Breast	0.3 nTPM
Skeletal muscle	0.2 nTPM
Vascular	0.2 nTPM
Ovary	0.1 nTPM
Placenta	0.0 nTPM
Endometrium	0.0 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM
Fallopian tube	0.0 nTPM

T-cells	4.3 nTPM
Esophagus	12.2 nTPM
Kidney	8.0 nTPM
Bone marrow	7.1 nTPM
Spleen	6.7 nTPM
Lymph node	6.3 nTPM
Skeletal muscle	5.3 nTPM
Lung	4.5 nTPM
Thymus	4.4 nTPM
Stomach	4.2 nTPM
Fallopian tube	4.0 nTPM
Adipose tissue	3.9 nTPM
Breast	3.9 nTPM
Skin	3.2 nTPM
PBMC	2.8 nTPM
Tongue	2.8 nTPM
Vascular	2.8 nTPM
Liver	2.7 nTPM
Salivary gland	2.5 nTPM
Endometrium	1.9 nTPM
Prostate	0.2 nTPM
Colon	0.0 nTPM

Undifferentiated cells	0.4 nTPM
Small intestine	0.6 nTPM
Colon	0.4 nTPM
Rectum	0.2 nTPM

Amygdala excitatory	35.2 nTPM
Hypothalamus	48.0 nTPM
Cerebral cortex	38.7 nTPM
Basal ganglia	35.9 nTPM
Hippocampus	35.8 nTPM
Amygdala	26.9 nTPM
Thalamus	25.9 nTPM

Astrocyte	38.8 nTPM
Thalamus	51.5 nTPM
Midbrain	50.4 nTPM
Pons	43.7 nTPM
Cerebellum	42.9 nTPM
Medulla oblongata	40.2 nTPM
Hippocampus	36.9 nTPM
Cerebral cortex	36.1 nTPM
Amygdala	34.4 nTPM
Hypothalamus	33.1 nTPM
Basal ganglia	30.7 nTPM
Spinal cord	27.0 nTPM

Bergmann glia	83.0 nTPM
Cerebellum	92.4 nTPM
Pons	82.0 nTPM
Medulla oblongata	74.6 nTPM

Central nervous system macrophage	2.2 nTPM
Cerebral cortex	5.4 nTPM
Hippocampus	3.0 nTPM
Hypothalamus	2.8 nTPM
Cerebellum	2.2 nTPM
Spinal cord	2.1 nTPM
Amygdala	1.9 nTPM
Medulla oblongata	1.6 nTPM
Basal ganglia	1.4 nTPM
Pons	1.4 nTPM
Thalamus	1.4 nTPM
Midbrain	1.0 nTPM

Cerebellar inhibitory	27.6 nTPM
Spinal cord	38.5 nTPM
Medulla oblongata	26.9 nTPM
Pons	26.5 nTPM
Cerebellum	24.8 nTPM
Midbrain	21.2 nTPM

Cge interneuron	21.5 nTPM
Hypothalamus	28.7 nTPM
Amygdala	22.5 nTPM
Hippocampus	21.6 nTPM
Cerebral cortex	21.0 nTPM
Midbrain	20.3 nTPM
Basal ganglia	20.0 nTPM
Thalamus	16.0 nTPM

Choroid plexus epithelial cell	36.5 nTPM
Medulla oblongata	52.8 nTPM
Hippocampus	52.7 nTPM
Basal ganglia	27.0 nTPM
Thalamus	13.7 nTPM

Committed oligodendrocyte precursor	6.0 nTPM
Medulla oblongata	14.2 nTPM
Hypothalamus	10.9 nTPM
Pons	8.9 nTPM
Amygdala	7.9 nTPM
Basal ganglia	6.0 nTPM
Cerebral cortex	5.1 nTPM
Thalamus	4.5 nTPM
Hippocampus	3.9 nTPM
Midbrain	2.5 nTPM
Cerebellum	1.6 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	51.7 nTPM
Midbrain	62.1 nTPM
Cerebral cortex	53.9 nTPM
Hypothalamus	53.8 nTPM
Basal ganglia	49.7 nTPM
Amygdala	46.3 nTPM
Hippocampus	44.3 nTPM

Deep-layer intratelencephalic	30.6 nTPM
Hypothalamus	34.9 nTPM
Cerebral cortex	33.7 nTPM
Amygdala	31.9 nTPM
Hippocampus	27.2 nTPM
Basal ganglia	25.2 nTPM

Deep-layer near-projecting	69.2 nTPM
Cerebral cortex	78.9 nTPM
Amygdala	70.3 nTPM
Hippocampus	69.9 nTPM
Hypothalamus	65.1 nTPM
Basal ganglia	61.6 nTPM

Eccentric medium spiny neuron	34.8 nTPM
Hippocampus	40.6 nTPM
Amygdala	38.2 nTPM
Thalamus	34.7 nTPM
Cerebral cortex	34.2 nTPM
Hypothalamus	33.2 nTPM
Basal ganglia	28.0 nTPM

Endothelial cell	1.5 nTPM
Hypothalamus	5.0 nTPM
Cerebral cortex	3.8 nTPM
Hippocampus	2.2 nTPM
Pons	1.2 nTPM
Amygdala	1.1 nTPM
Basal ganglia	0.9 nTPM
Midbrain	0.9 nTPM
Cerebellum	0.8 nTPM
Thalamus	0.6 nTPM
Medulla oblongata	0.0 nTPM
Spinal cord	0.0 nTPM

Ependymal cell	23.2 nTPM
Pons	32.6 nTPM
Medulla oblongata	32.0 nTPM
Midbrain	27.9 nTPM
Hippocampus	24.7 nTPM
Thalamus	24.3 nTPM
Hypothalamus	23.2 nTPM
Amygdala	18.2 nTPM
Basal ganglia	17.8 nTPM
Spinal cord	7.7 nTPM