Single cell type - SOCS5 - The Human Protein Atlas

SOCS5

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.	SOCS5
Gene descriptionⁱ Full gene name according to HGNC.	Suppressor of cytokine signaling 5
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.	3

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.	Dendritic cells - Antigen presentation (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.	0.38
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 (Upper rhombic lip)
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: Cell type enhanced (Upper rhombic lip)

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

SOCS5 is part of cluster 28 Dendritic cells - Antigen presentation with confidenceⁱ 1
245 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.
BMPR2	Bone morphogenetic protein receptor type 2	0.5432	41
LRCH1	Leucine rich repeats and calponin homology domain containing 1	0.5325	8
TCF4	Transcription factor 4	0.5219	41
KRT71	Keratin 71	0.4845	28
RIPOR1	RHO family interacting cell polarization regulator 1	0.4575	41
WWTR1	WW domain containing transcription regulator 1	0.4454	37
RELL1	RELT like 1	0.4424	41
TSHZ3	Teashirt zinc finger homeobox 3	0.4406	8
DKK2	Dickkopf WNT signaling pathway inhibitor 2	0.4358	41
CCDC50	Coiled-coil domain containing 50	0.4350	28
KCTD10	Potassium channel tetramerization domain containing 10	0.4343	32
ERG	ETS transcription factor ERG	0.4332	41
ZEB1	Zinc finger E-box binding homeobox 1	0.4315	76
AIDA	Axin interactor, dorsalization associated	0.4299	32
SIDT1	SID1 transmembrane family member 1	0.4287	28

IMMUNE CELLS

SOCS5 is part of cluster 3 Non-specific - Nuclear processes with confidenceⁱ 0.96
471 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.
RHOH	Ras homolog family member H	0.9762	3
CCDC127	Coiled-coil domain containing 127	0.9762	3
ZNF138	Zinc finger protein 138	0.9524	3
ZNF33B	Zinc finger protein 33B	0.9524	3
CCNC	Cyclin C	0.9524	3
NUPR2	Nuclear protein 2, transcriptional regulator	0.9524	3
LIPT2	Lipoyl(octanoyl) transferase 2	0.9524	3
EXOSC8	Exosome component 8	0.9524	3
MTRFR	Mitochondrial translation release factor in rescue	0.9524	3
RPS2	Ribosomal protein S2	0.9524	3
POLR2M	RNA polymerase II subunit M	0.9286	3
PPIH	Peptidylprolyl isomerase H	0.9286	3
FIP1L1	Factor interacting with PAPOLA and CPSF1	0.9286	3
ERG28	Ergosterol biosynthesis 28 homolog	0.9286	3
PEX12	Peroxisomal biogenesis factor 12	0.9286	3

Adipocytes	17.8 nTPM
Adipose tissue	21.2 nTPM
Breast	14.5 nTPM

Alveolar cells type 1	19.6 nTPM
Lung	19.6 nTPM

Alveolar cells type 2	18.6 nTPM
Lung	18.6 nTPM

Astrocytes	18.0 nTPM
Brain	18.0 nTPM

B-cells	13.7 nTPM
Esophagus	41.3 nTPM
Adipose tissue	21.4 nTPM
Lymph node	20.7 nTPM
Salivary gland	19.8 nTPM
Bone marrow	10.8 nTPM
Lung	10.7 nTPM
Liver	9.7 nTPM
Stomach	9.7 nTPM
Thymus	8.6 nTPM
Skin	6.8 nTPM
Spleen	6.7 nTPM
PBMC	6.2 nTPM
Kidney	5.2 nTPM

Ciliated cells	6.9 nTPM
Endometrium	8.9 nTPM
Lung	7.7 nTPM
Fallopian tube	6.1 nTPM
Bronchus	5.0 nTPM

Club cells	8.2 nTPM
Prostate	9.7 nTPM
Lung	8.7 nTPM
Bronchus	6.2 nTPM

Endothelial cells	24.7 nTPM
Vascular	41.5 nTPM
Salivary gland	38.8 nTPM
Endometrium	38.1 nTPM
Prostate	37.8 nTPM
Fallopian tube	34.9 nTPM
Esophagus	33.2 nTPM
Thymus	32.3 nTPM
Skin	30.4 nTPM
Skeletal muscle	24.9 nTPM
Tongue	24.9 nTPM
Heart muscle	23.5 nTPM
Lung	17.4 nTPM
Placenta	15.3 nTPM
Testis	14.0 nTPM
Liver	13.9 nTPM
Ovary	11.5 nTPM
Breast	7.0 nTPM
Pancreas	5.2 nTPM

Enteroendocrine cells	5.6 nTPM
Rectum	8.4 nTPM
Colon	5.1 nTPM
Small intestine	3.4 nTPM

Fibroblasts	19.0 nTPM
Skin	37.9 nTPM
Prostate	26.4 nTPM
Salivary gland	24.3 nTPM
Vascular	23.4 nTPM
Adipose tissue	21.8 nTPM
Esophagus	19.6 nTPM
Skeletal muscle	19.2 nTPM
Lung	18.4 nTPM
Breast	16.9 nTPM
Liver	16.6 nTPM
Fallopian tube	16.6 nTPM
Thymus	14.5 nTPM
Stomach	14.4 nTPM
Pancreas	12.2 nTPM
Heart muscle	11.7 nTPM
Placenta	9.7 nTPM

Granulocytes	6.7 nTPM
Fallopian tube	11.9 nTPM
Lung	8.1 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	6.3 nTPM
Rectum	8.4 nTPM
Small intestine	7.4 nTPM
Colon	3.0 nTPM

Lymphatic endothelial cells	20.1 nTPM
Fallopian tube	34.7 nTPM
Ovary	5.5 nTPM

Macrophages	9.3 nTPM
Skin	21.2 nTPM
Salivary gland	14.3 nTPM
Prostate	13.7 nTPM
Tongue	11.9 nTPM
Testis	11.8 nTPM
Endometrium	11.7 nTPM
Adipose tissue	11.3 nTPM
Vascular	10.6 nTPM
Spleen	10.0 nTPM
Skeletal muscle	7.7 nTPM
Esophagus	7.7 nTPM
Fallopian tube	7.3 nTPM
Lung	6.5 nTPM
Kidney	6.2 nTPM
Bone marrow	6.1 nTPM
Thymus	6.0 nTPM
Breast	5.9 nTPM
Stomach	5.1 nTPM
Pancreas	2.1 nTPM

Paneth cells	6.8 nTPM
Rectum	10.0 nTPM
Small intestine	6.9 nTPM
Colon	3.6 nTPM

Basal prostatic cells	13.3 nTPM
Prostate	13.3 nTPM

Basal squamous epithelial cells	13.1 nTPM
Esophagus	13.1 nTPM

Cholangiocytes	19.1 nTPM
Liver	19.1 nTPM

Collecting duct cells	5.8 nTPM
Kidney	5.8 nTPM

Plasma cells	6.4 nTPM
Salivary gland	11.6 nTPM
Esophagus	10.4 nTPM
Bone marrow	7.6 nTPM
Fallopian tube	7.4 nTPM
Stomach	4.6 nTPM
Spleen	3.8 nTPM
Liver	3.0 nTPM
Thymus	2.8 nTPM

Schwann cells	8.4 nTPM
Vascular	16.2 nTPM
Adipose tissue	9.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	10.5 nTPM
Salivary gland	16.6 nTPM
Tongue	4.4 nTPM

Smooth muscle cells	20.8 nTPM
Vascular	35.0 nTPM
Salivary gland	32.4 nTPM
Tongue	30.8 nTPM
Skeletal muscle	27.3 nTPM
Lung	23.5 nTPM
Endometrium	21.9 nTPM
Thymus	21.2 nTPM
Adipose tissue	20.7 nTPM
Prostate	19.5 nTPM
Liver	19.1 nTPM
Skin	16.0 nTPM
Fallopian tube	16.0 nTPM
Breast	13.7 nTPM
Esophagus	13.2 nTPM
Ovary	13.2 nTPM
Placenta	9.2 nTPM

T-cells	8.1 nTPM
Esophagus	14.6 nTPM
Salivary gland	12.0 nTPM
Endometrium	11.4 nTPM
Adipose tissue	10.9 nTPM
Prostate	10.9 nTPM
Vascular	10.9 nTPM
Skeletal muscle	9.8 nTPM
Tongue	8.5 nTPM
Thymus	8.3 nTPM
Lymph node	8.2 nTPM
Fallopian tube	7.9 nTPM
Lung	7.4 nTPM
Liver	7.3 nTPM
Spleen	7.0 nTPM
Skin	6.3 nTPM
Stomach	6.0 nTPM
Kidney	5.3 nTPM
Colon	4.9 nTPM
Breast	4.5 nTPM
PBMC	4.4 nTPM
Bone marrow	3.3 nTPM

Undifferentiated cells	6.2 nTPM
Rectum	6.9 nTPM
Small intestine	6.2 nTPM
Colon	5.6 nTPM

Amygdala excitatory	0.2 nTPM
Thalamus	0.5 nTPM
Amygdala	0.2 nTPM
Hippocampus	0.2 nTPM
Basal ganglia	0.1 nTPM
Cerebral cortex	0.1 nTPM
Hypothalamus	0.1 nTPM

Astrocyte	0.2 nTPM
Pons	0.3 nTPM
Amygdala	0.2 nTPM
Basal ganglia	0.2 nTPM
Midbrain	0.2 nTPM
Thalamus	0.2 nTPM
Cerebellum	0.1 nTPM
Cerebral cortex	0.1 nTPM
Hippocampus	0.1 nTPM
Hypothalamus	0.1 nTPM
Medulla oblongata	0.1 nTPM
Spinal cord	0.1 nTPM

Bergmann glia	0.1 nTPM
Cerebellum	0.2 nTPM
Medulla oblongata	0.0 nTPM
Pons	0.0 nTPM

Central nervous system macrophage	0.3 nTPM
Amygdala	0.4 nTPM
Hypothalamus	0.4 nTPM
Medulla oblongata	0.4 nTPM
Midbrain	0.4 nTPM
Cerebellum	0.3 nTPM
Pons	0.3 nTPM
Spinal cord	0.3 nTPM
Basal ganglia	0.2 nTPM
Cerebral cortex	0.2 nTPM
Hippocampus	0.2 nTPM
Thalamus	0.2 nTPM

Cerebellar inhibitory	0.2 nTPM
Medulla oblongata	0.4 nTPM
Pons	0.3 nTPM
Cerebellum	0.1 nTPM
Midbrain	0.0 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	0.4 nTPM
Thalamus	0.7 nTPM
Midbrain	0.5 nTPM
Amygdala	0.4 nTPM
Hippocampus	0.4 nTPM
Basal ganglia	0.3 nTPM
Cerebral cortex	0.3 nTPM
Hypothalamus	0.1 nTPM

Choroid plexus epithelial cell	0.8 nTPM
Thalamus	2.7 nTPM
Medulla oblongata	0.3 nTPM
Basal ganglia	0.2 nTPM
Hippocampus	0.0 nTPM

Committed oligodendrocyte precursor	0.2 nTPM
Medulla oblongata	1.3 nTPM
Thalamus	0.5 nTPM
Hippocampus	0.3 nTPM
Amygdala	0.0 nTPM
Basal ganglia	0.0 nTPM
Cerebellum	0.0 nTPM
Cerebral cortex	0.0 nTPM
Hypothalamus	0.0 nTPM
Midbrain	0.0 nTPM
Pons	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	0.3 nTPM
Midbrain	1.1 nTPM
Basal ganglia	0.3 nTPM
Amygdala	0.1 nTPM
Cerebral cortex	0.1 nTPM
Hippocampus	0.1 nTPM
Hypothalamus	0.0 nTPM

Deep-layer intratelencephalic	0.1 nTPM
Amygdala	0.1 nTPM
Basal ganglia	0.1 nTPM
Cerebral cortex	0.1 nTPM
Hippocampus	0.1 nTPM
Hypothalamus	0.0 nTPM

Deep-layer near-projecting	0.2 nTPM
Amygdala	0.4 nTPM
Basal ganglia	0.4 nTPM
Hypothalamus	0.2 nTPM
Cerebral cortex	0.1 nTPM
Hippocampus	0.0 nTPM

Eccentric medium spiny neuron	0.2 nTPM
Cerebral cortex	0.4 nTPM
Amygdala	0.3 nTPM
Hypothalamus	0.3 nTPM
Basal ganglia	0.2 nTPM
Thalamus	0.2 nTPM
Hippocampus	0.0 nTPM

Endothelial cell	0.3 nTPM
Medulla oblongata	2.1 nTPM
Amygdala	1.1 nTPM
Hippocampus	0.3 nTPM
Basal ganglia	0.0 nTPM
Cerebellum	0.0 nTPM
Cerebral cortex	0.0 nTPM
Hypothalamus	0.0 nTPM
Midbrain	0.0 nTPM
Pons	0.0 nTPM
Spinal cord	0.0 nTPM
Thalamus	0.0 nTPM

Ependymal cell	0.1 nTPM
Medulla oblongata	0.4 nTPM
Hippocampus	0.2 nTPM
Amygdala	0.0 nTPM
Basal ganglia	0.0 nTPM
Hypothalamus	0.0 nTPM
Midbrain	0.0 nTPM
Pons	0.0 nTPM
Spinal cord	0.0 nTPM
Thalamus	0.0 nTPM