Single cell type - DEGS2 - The Human Protein Atlas

DEGS2

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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.	DEGS2
Gene descriptionⁱ Full gene name according to HGNC.	Delta 4-desaturase, sphingolipid 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes Metabolic 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, 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.	Proximal enterocytes - Digestion (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 (Proximal enterocytes, Suprabasal keratinocytes, Squamous epithelial cells, Oocytes)
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.	0.68
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 (Endothelial cell)
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.	Group enriched (memory B-cell, naive B-cell, eosinophil, 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: Cell type enhanced (Proximal enterocytes, Suprabasal keratinocytes, Squamous epithelial cells, Oocytes)

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 (Endothelial cell)

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: Group enriched (memory B-cell, naive B-cell, eosinophil, 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

DEGS2 is part of cluster 22 Proximal enterocytes - Digestion with confidenceⁱ 1
255 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.
PLCB3	Phospholipase C beta 3	0.8009	22
CES2	Carboxylesterase 2	0.8003	22
CCL25	C-C motif chemokine ligand 25	0.7645	22
CLDN15	Claudin 15	0.7581	22
KCNJ13	Potassium inwardly rectifying channel subfamily J member 13	0.7426	22
ESPL1	Extra spindle pole bodies like 1, separase	0.7368	59
SLC5A1	Solute carrier family 5 member 1	0.7322	22
NAALADL1	N-acetylated alpha-linked acidic dipeptidase like 1	0.7252	22
FADS6	Fatty acid desaturase 6	0.7233	22
RBP2	Retinol binding protein 2	0.7183	22
CEACAM18	CEA cell adhesion molecule 18	0.7170	22
CEACAM20	CEA cell adhesion molecule 20	0.7098	22
FABP6	Fatty acid binding protein 6	0.7092	22
C17orf78	Chromosome 17 open reading frame 78	0.7039	22
TM4SF20	Transmembrane 4 L six family member 20	0.6975	22

IMMUNE CELLS

DEGS2 is part of cluster 22 Eosinophils - Transcription with confidenceⁱ 1
357 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.
AREG	Amphiregulin	1.0000	22
XPNPEP3	X-prolyl aminopeptidase 3	1.0000	22
ZNF417	Zinc finger protein 417	1.0000	22
SORD	Sorbitol dehydrogenase	1.0000	22
RCOR3	REST corepressor 3	1.0000	22
PIP5K1B	Phosphatidylinositol-4-phosphate 5-kinase type 1 beta	1.0000	22
DEPDC5	DEP domain containing 5, GATOR1 subcomplex subunit	0.9762	22
MLYCD	Malonyl-CoA decarboxylase	0.9762	22
HSD3B7	Hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 7	0.9762	22
KMT2E	Lysine methyltransferase 2E (inactive)	0.9762	22
IL5RA	Interleukin 5 receptor subunit alpha	0.9762	22
CACNG6	Calcium voltage-gated channel auxiliary subunit gamma 6	0.9762	22
PCBD2	Pterin-4 alpha-carbinolamine dehydratase 2	0.9762	22
STX6	Syntaxin 6	0.9762	22
ATP6V1G1	ATPase H+ transporting V1 subunit G1	0.9762	22

Adipocytes	1.1 nTPM
Breast	1.8 nTPM
Adipose tissue	0.4 nTPM

Alveolar cells type 1	1.1 nTPM
Lung	1.1 nTPM

Alveolar cells type 2	4.0 nTPM
Lung	4.0 nTPM

Astrocytes	5.0 nTPM
Brain	5.0 nTPM

B-cells	5.1 nTPM
Esophagus	17.7 nTPM
Stomach	11.0 nTPM
Salivary gland	9.4 nTPM
Thymus	8.4 nTPM
Adipose tissue	5.8 nTPM
Spleen	5.2 nTPM
Lung	2.7 nTPM
Bone marrow	1.9 nTPM
Lymph node	1.8 nTPM
Skin	1.7 nTPM
PBMC	1.5 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM

Ciliated cells	82.2 nTPM
Bronchus	175.4 nTPM
Lung	132.8 nTPM
Endometrium	14.5 nTPM
Fallopian tube	6.0 nTPM

Club cells	53.8 nTPM
Prostate	62.1 nTPM
Bronchus	54.7 nTPM
Lung	44.5 nTPM

Endothelial cells	6.0 nTPM
Fallopian tube	22.7 nTPM
Breast	15.8 nTPM
Tongue	14.0 nTPM
Testis	11.0 nTPM
Ovary	10.4 nTPM
Prostate	6.2 nTPM
Esophagus	6.1 nTPM
Pancreas	5.2 nTPM
Salivary gland	4.4 nTPM
Thymus	3.5 nTPM
Endometrium	3.2 nTPM
Vascular	1.3 nTPM
Skin	1.1 nTPM
Lung	1.0 nTPM
Placenta	0.6 nTPM
Skeletal muscle	0.5 nTPM
Heart muscle	0.1 nTPM
Liver	0.0 nTPM

Enteroendocrine cells	73.8 nTPM
Small intestine	99.6 nTPM
Rectum	62.1 nTPM
Colon	59.7 nTPM

Fibroblasts	1.1 nTPM
Stomach	4.3 nTPM
Adipose tissue	2.5 nTPM
Salivary gland	2.5 nTPM
Prostate	2.0 nTPM
Pancreas	1.2 nTPM
Thymus	1.1 nTPM
Breast	0.9 nTPM
Fallopian tube	0.7 nTPM
Placenta	0.6 nTPM
Lung	0.6 nTPM
Vascular	0.6 nTPM
Esophagus	0.5 nTPM
Skin	0.4 nTPM
Skeletal muscle	0.3 nTPM
Heart muscle	0.2 nTPM
Liver	0.0 nTPM

Granulocytes	1.8 nTPM
Lung	4.5 nTPM
Fallopian tube	0.8 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	55.8 nTPM
Small intestine	86.8 nTPM
Rectum	42.8 nTPM
Colon	37.6 nTPM

Lymphatic endothelial cells	7.8 nTPM
Fallopian tube	15.6 nTPM
Ovary	0.0 nTPM

Macrophages	1.9 nTPM
Tongue	11.4 nTPM
Prostate	8.2 nTPM
Salivary gland	4.0 nTPM
Endometrium	2.5 nTPM
Breast	2.2 nTPM
Adipose tissue	1.3 nTPM
Thymus	1.2 nTPM
Skin	1.1 nTPM
Skeletal muscle	1.1 nTPM
Lung	0.7 nTPM
Fallopian tube	0.7 nTPM
Testis	0.6 nTPM
Vascular	0.3 nTPM
Kidney	0.0 nTPM
Pancreas	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	72.6 nTPM
Small intestine	131.2 nTPM
Rectum	46.6 nTPM
Colon	39.8 nTPM

Basal respiratory cells	22.8 nTPM
Bronchus	22.8 nTPM

Bipolar cells	3.0 nTPM
Eye	3.0 nTPM

Cholangiocytes	32.4 nTPM
Liver	32.4 nTPM

Collecting duct cells	81.7 nTPM
Kidney	81.7 nTPM

Plasma cells	4.2 nTPM
Fallopian tube	21.6 nTPM
Esophagus	5.2 nTPM
Salivary gland	3.6 nTPM
Stomach	2.9 nTPM
Thymus	0.2 nTPM
Liver	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Schwann cells	0.8 nTPM
Adipose tissue	2.0 nTPM
Vascular	0.5 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	4.5 nTPM
Salivary gland	4.6 nTPM
Tongue	4.4 nTPM

Smooth muscle cells	1.3 nTPM
Tongue	6.0 nTPM
Salivary gland	3.5 nTPM
Lung	2.4 nTPM
Prostate	2.4 nTPM
Endometrium	1.4 nTPM
Fallopian tube	1.1 nTPM
Placenta	0.9 nTPM
Adipose tissue	0.9 nTPM
Breast	0.6 nTPM
Vascular	0.5 nTPM
Thymus	0.4 nTPM
Ovary	0.2 nTPM
Skeletal muscle	0.1 nTPM
Liver	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM

Suprabasal keratinocytes	137.1 nTPM
Tongue	259.0 nTPM
Skin	15.1 nTPM

T-cells	2.6 nTPM
Tongue	9.3 nTPM
Endometrium	7.4 nTPM
Adipose tissue	6.4 nTPM
Salivary gland	4.7 nTPM
Prostate	4.5 nTPM
Vascular	4.4 nTPM
Fallopian tube	4.1 nTPM
Lung	3.4 nTPM
Thymus	3.1 nTPM
Colon	2.9 nTPM
Liver	1.5 nTPM
Skeletal muscle	1.1 nTPM
Skin	0.7 nTPM
Breast	0.5 nTPM
PBMC	0.4 nTPM
Bone marrow	0.3 nTPM
Stomach	0.2 nTPM
Kidney	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Spleen	0.0 nTPM

Undifferentiated cells	69.0 nTPM
Small intestine	114.8 nTPM
Rectum	46.6 nTPM
Colon	45.7 nTPM

Amygdala excitatory	3.4 nTPM
Thalamus	5.9 nTPM
Hippocampus	3.9 nTPM
Cerebral cortex	3.6 nTPM
Amygdala	2.9 nTPM
Basal ganglia	2.2 nTPM
Hypothalamus	2.0 nTPM

Astrocyte	4.5 nTPM
Spinal cord	8.1 nTPM
Midbrain	5.2 nTPM
Pons	5.1 nTPM
Cerebellum	4.3 nTPM
Cerebral cortex	4.3 nTPM
Medulla oblongata	4.3 nTPM
Thalamus	4.3 nTPM
Hippocampus	3.9 nTPM
Basal ganglia	3.4 nTPM
Hypothalamus	3.4 nTPM
Amygdala	2.7 nTPM

Bergmann glia	4.9 nTPM
Medulla oblongata	8.5 nTPM
Cerebellum	3.3 nTPM
Pons	2.9 nTPM

Central nervous system macrophage	13.0 nTPM
Basal ganglia	20.4 nTPM
Medulla oblongata	18.6 nTPM
Spinal cord	15.3 nTPM
Thalamus	14.5 nTPM
Hypothalamus	13.6 nTPM
Pons	12.3 nTPM
Midbrain	11.8 nTPM
Cerebellum	11.0 nTPM
Hippocampus	10.0 nTPM
Amygdala	8.2 nTPM
Cerebral cortex	7.6 nTPM

Cerebellar inhibitory	5.3 nTPM
Spinal cord	13.7 nTPM
Medulla oblongata	5.7 nTPM
Cerebellum	3.1 nTPM
Pons	2.8 nTPM
Midbrain	0.9 nTPM

Cge interneuron	2.6 nTPM
Thalamus	3.3 nTPM
Amygdala	2.9 nTPM
Midbrain	2.9 nTPM
Hippocampus	2.8 nTPM
Basal ganglia	2.4 nTPM
Cerebral cortex	2.4 nTPM
Hypothalamus	1.6 nTPM

Choroid plexus epithelial cell	0.8 nTPM
Medulla oblongata	2.1 nTPM
Basal ganglia	1.0 nTPM
Hippocampus	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	2.6 nTPM
Spinal cord	7.4 nTPM
Cerebral cortex	5.1 nTPM
Basal ganglia	4.4 nTPM
Hypothalamus	2.7 nTPM
Pons	2.7 nTPM
Thalamus	2.7 nTPM
Hippocampus	2.1 nTPM
Medulla oblongata	1.3 nTPM
Amygdala	0.6 nTPM
Cerebellum	0.0 nTPM
Midbrain	0.0 nTPM

Deep-layer corticothalamic and 6b	6.0 nTPM
Basal ganglia	7.6 nTPM
Hippocampus	6.5 nTPM
Amygdala	6.4 nTPM
Cerebral cortex	5.5 nTPM
Midbrain	5.5 nTPM
Hypothalamus	4.5 nTPM

Deep-layer intratelencephalic	3.8 nTPM
Hippocampus	5.6 nTPM
Basal ganglia	4.0 nTPM
Amygdala	3.6 nTPM
Cerebral cortex	3.4 nTPM
Hypothalamus	2.4 nTPM

Deep-layer near-projecting	11.2 nTPM
Hippocampus	22.4 nTPM
Basal ganglia	9.8 nTPM
Amygdala	8.9 nTPM
Cerebral cortex	8.5 nTPM
Hypothalamus	6.2 nTPM

Eccentric medium spiny neuron	8.2 nTPM
Basal ganglia	10.5 nTPM
Thalamus	9.5 nTPM
Hypothalamus	8.9 nTPM
Cerebral cortex	8.3 nTPM
Amygdala	6.2 nTPM
Hippocampus	5.8 nTPM

Endothelial cell	78.0 nTPM
Medulla oblongata	112.8 nTPM
Thalamus	104.5 nTPM
Cerebellum	95.2 nTPM
Pons	86.1 nTPM
Hippocampus	82.7 nTPM
Cerebral cortex	81.2 nTPM
Midbrain	71.8 nTPM
Spinal cord	69.0 nTPM
Amygdala	65.9 nTPM
Basal ganglia	51.3 nTPM
Hypothalamus	37.2 nTPM