Single cell type - SERP2 - The Human Protein Atlas

SERP2

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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.	SERP2
Gene descriptionⁱ Full gene name according to HGNC.	Stress associated endoplasmic reticulum protein family member 2
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, 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.	Early spermatids - Spermatogenesis (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.	Group enriched (Early spermatids, Late spermatids)
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.	0.71
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.	Immune cell enhanced (basophil)
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: Group enriched (Early spermatids, Late spermatids)

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: Immune cell enhanced (basophil)
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

SERP2 is part of cluster 21 Early spermatids - Spermatogenesis with confidenceⁱ 1
337 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.
C20orf173	Chromosome 20 open reading frame 173	0.8570	21
TEKT5	Tektin 5	0.8538	21
DNAJB7	DnaJ heat shock protein family (Hsp40) member B7	0.8422	21
ACTL7B	Actin like 7B	0.8390	21
SLC25A41	Solute carrier family 25 member 41	0.8352	21
SPDYE10	Speedy/RINGO cell cycle regulator family member E10	0.8324	21
CCDC185	Coiled-coil domain containing 185	0.8267	21
CCIN	Calicin	0.8250	21
G2E3	G2/M-phase specific E3 ubiquitin protein ligase	0.8217	21
CCN6	Cellular communication network factor 6	0.8194	21
AOC2	Amine oxidase copper containing 2	0.8168	21
CEP76	Centrosomal protein 76	0.8140	21
TMCO2	Transmembrane and coiled-coil domains 2	0.8132	21
FAM170B	Family with sequence similarity 170 member B	0.8127	21
C10orf120	Chromosome 10 open reading frame 120	0.8062	21

Adipocytes	4.3 nTPM
Breast	7.4 nTPM
Adipose tissue	1.2 nTPM

Alveolar cells type 1	0.8 nTPM
Lung	0.8 nTPM

Alveolar cells type 2	8.9 nTPM
Lung	8.9 nTPM

Astrocytes	18.6 nTPM
Brain	18.6 nTPM

B-cells	0.4 nTPM
Skin	1.7 nTPM
PBMC	1.5 nTPM
Lung	1.3 nTPM
Salivary gland	0.4 nTPM
Bone marrow	0.2 nTPM
Thymus	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Ciliated cells	2.9 nTPM
Fallopian tube	4.8 nTPM
Lung	3.3 nTPM
Bronchus	2.8 nTPM
Endometrium	0.7 nTPM

Club cells	2.1 nTPM
Prostate	4.1 nTPM
Lung	1.9 nTPM
Bronchus	0.4 nTPM

Endothelial cells	2.6 nTPM
Testis	7.9 nTPM
Ovary	5.7 nTPM
Pancreas	5.2 nTPM
Prostate	3.8 nTPM
Fallopian tube	3.2 nTPM
Endometrium	3.0 nTPM
Heart muscle	2.8 nTPM
Placenta	2.3 nTPM
Skin	2.3 nTPM
Breast	1.8 nTPM
Skeletal muscle	1.6 nTPM
Vascular	1.4 nTPM
Liver	1.3 nTPM
Lung	1.2 nTPM
Salivary gland	1.2 nTPM
Tongue	1.0 nTPM
Thymus	0.7 nTPM
Esophagus	0.5 nTPM

Enteroendocrine cells	15.8 nTPM
Small intestine	27.5 nTPM
Rectum	15.1 nTPM
Colon	4.7 nTPM

Fibroblasts	10.3 nTPM
Breast	24.6 nTPM
Prostate	19.1 nTPM
Esophagus	18.5 nTPM
Skin	17.3 nTPM
Fallopian tube	13.9 nTPM
Skeletal muscle	11.9 nTPM
Adipose tissue	8.8 nTPM
Heart muscle	8.2 nTPM
Salivary gland	8.0 nTPM
Vascular	6.8 nTPM
Pancreas	6.3 nTPM
Lung	6.1 nTPM
Thymus	5.3 nTPM
Stomach	4.3 nTPM
Placenta	3.9 nTPM
Liver	1.2 nTPM

Granulocytes	23.1 nTPM
Lung	37.8 nTPM
Fallopian tube	26.7 nTPM
Tongue	4.9 nTPM

Intestinal goblet cells	3.3 nTPM
Colon	5.4 nTPM
Rectum	2.8 nTPM
Small intestine	1.7 nTPM

Lymphatic endothelial cells	1.0 nTPM
Fallopian tube	2.0 nTPM
Ovary	0.0 nTPM

Macrophages	0.5 nTPM
Testis	3.1 nTPM
Kidney	1.8 nTPM
Endometrium	1.8 nTPM
Thymus	0.6 nTPM
Skeletal muscle	0.5 nTPM
Breast	0.4 nTPM
Fallopian tube	0.4 nTPM
Prostate	0.3 nTPM
Lung	0.2 nTPM
Tongue	0.2 nTPM
Vascular	0.2 nTPM
Adipose tissue	0.1 nTPM
Salivary gland	0.1 nTPM
Pancreas	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	0.4 nTPM
Rectum	1.2 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Bipolar cells	23.8 nTPM
Eye	23.8 nTPM

Collecting duct cells	7.8 nTPM
Kidney	7.8 nTPM

Cone photoreceptor cells	27.2 nTPM
Eye	27.2 nTPM

Distal tubular cells	9.2 nTPM
Kidney	9.2 nTPM

Plasma cells	0.5 nTPM
Fallopian tube	3.2 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

Schwann cells	10.3 nTPM
Vascular	18.8 nTPM
Esophagus	12.0 nTPM
Adipose tissue	0.0 nTPM

Serous glandular cells	0.5 nTPM
Salivary gland	1.0 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	12.4 nTPM
Ovary	23.7 nTPM
Esophagus	20.4 nTPM
Prostate	18.9 nTPM
Lung	18.8 nTPM
Breast	17.1 nTPM
Skeletal muscle	14.4 nTPM
Tongue	13.2 nTPM
Skin	12.9 nTPM
Fallopian tube	12.0 nTPM
Vascular	11.8 nTPM
Thymus	10.3 nTPM
Adipose tissue	8.2 nTPM
Endometrium	6.6 nTPM
Salivary gland	5.1 nTPM
Placenta	3.6 nTPM
Liver	0.8 nTPM

T-cells	1.4 nTPM
Vascular	3.6 nTPM
Colon	2.9 nTPM
Liver	2.3 nTPM
Endometrium	2.3 nTPM
Skin	2.1 nTPM
Bone marrow	2.1 nTPM
Kidney	1.8 nTPM
Spleen	1.8 nTPM
Stomach	1.6 nTPM
Fallopian tube	1.6 nTPM
Prostate	1.5 nTPM
Breast	1.3 nTPM
Lung	1.0 nTPM
Adipose tissue	0.9 nTPM
Tongue	0.8 nTPM
Salivary gland	0.7 nTPM
Thymus	0.5 nTPM
Lymph node	0.3 nTPM
PBMC	0.2 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	5.5 nTPM
Small intestine	9.4 nTPM
Rectum	4.4 nTPM
Colon	2.8 nTPM

Amygdala excitatory	47.5 nTPM
Hypothalamus	54.6 nTPM
Thalamus	49.9 nTPM
Basal ganglia	48.9 nTPM
Amygdala	44.7 nTPM
Cerebral cortex	44.7 nTPM
Hippocampus	42.3 nTPM

Astrocyte	31.0 nTPM
Hypothalamus	39.1 nTPM
Cerebellum	35.3 nTPM
Amygdala	33.0 nTPM
Hippocampus	32.8 nTPM
Thalamus	32.0 nTPM
Cerebral cortex	31.9 nTPM
Basal ganglia	30.8 nTPM
Midbrain	30.6 nTPM
Pons	27.6 nTPM
Medulla oblongata	25.0 nTPM
Spinal cord	23.2 nTPM

Bergmann glia	25.1 nTPM
Medulla oblongata	27.7 nTPM
Cerebellum	25.9 nTPM
Pons	21.6 nTPM

Central nervous system macrophage	4.3 nTPM
Cerebral cortex	10.6 nTPM
Hypothalamus	5.8 nTPM
Thalamus	5.8 nTPM
Hippocampus	5.3 nTPM
Pons	3.8 nTPM
Midbrain	3.1 nTPM
Amygdala	2.9 nTPM
Medulla oblongata	2.9 nTPM
Cerebellum	2.7 nTPM
Basal ganglia	2.3 nTPM
Spinal cord	2.1 nTPM

Cerebellar inhibitory	43.5 nTPM
Pons	50.9 nTPM
Medulla oblongata	50.6 nTPM
Midbrain	45.1 nTPM
Cerebellum	40.8 nTPM
Spinal cord	30.2 nTPM

Cge interneuron	59.9 nTPM
Thalamus	73.6 nTPM
Midbrain	66.7 nTPM
Amygdala	58.1 nTPM
Cerebral cortex	56.5 nTPM
Basal ganglia	55.9 nTPM
Hippocampus	55.6 nTPM
Hypothalamus	53.0 nTPM

Choroid plexus epithelial cell	19.4 nTPM
Basal ganglia	27.1 nTPM
Medulla oblongata	20.3 nTPM
Hippocampus	16.6 nTPM
Thalamus	13.7 nTPM

Committed oligodendrocyte precursor	32.0 nTPM
Cerebellum	38.1 nTPM
Cerebral cortex	35.5 nTPM
Amygdala	34.4 nTPM
Midbrain	34.4 nTPM
Thalamus	34.4 nTPM
Medulla oblongata	33.6 nTPM
Hypothalamus	33.5 nTPM
Hippocampus	32.6 nTPM
Pons	30.1 nTPM
Basal ganglia	26.8 nTPM
Spinal cord	18.4 nTPM

Deep-layer corticothalamic and 6b	52.0 nTPM
Midbrain	73.2 nTPM
Basal ganglia	52.6 nTPM
Amygdala	50.8 nTPM
Cerebral cortex	47.7 nTPM
Hippocampus	46.2 nTPM
Hypothalamus	41.7 nTPM

Deep-layer intratelencephalic	48.8 nTPM
Cerebral cortex	53.5 nTPM
Basal ganglia	51.1 nTPM
Hippocampus	48.2 nTPM
Amygdala	47.4 nTPM
Hypothalamus	43.7 nTPM

Deep-layer near-projecting	47.4 nTPM
Hippocampus	62.1 nTPM
Basal ganglia	49.4 nTPM
Amygdala	42.8 nTPM
Hypothalamus	42.2 nTPM
Cerebral cortex	40.5 nTPM

Eccentric medium spiny neuron	48.5 nTPM
Basal ganglia	51.1 nTPM
Hypothalamus	51.0 nTPM
Cerebral cortex	49.3 nTPM
Amygdala	47.4 nTPM
Hippocampus	46.4 nTPM
Thalamus	45.8 nTPM

Endothelial cell	17.9 nTPM
Midbrain	24.6 nTPM
Amygdala	23.5 nTPM
Pons	21.8 nTPM
Cerebellum	20.9 nTPM
Cerebral cortex	19.2 nTPM
Hippocampus	18.6 nTPM
Thalamus	18.6 nTPM
Basal ganglia	15.8 nTPM
Hypothalamus	12.4 nTPM
Spinal cord	12.1 nTPM
Medulla oblongata	9.2 nTPM

Ependymal cell	21.8 nTPM
Amygdala	30.7 nTPM
Hippocampus	25.0 nTPM
Hypothalamus	24.1 nTPM
Midbrain	23.5 nTPM
Thalamus	23.1 nTPM
Spinal cord	21.1 nTPM
Basal ganglia	19.6 nTPM
Medulla oblongata	16.7 nTPM
Pons	12.6 nTPM