Single cell type - SGPL1 - The Human Protein Atlas

SGPL1

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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.	SGPL1
Gene descriptionⁱ Full gene name according to HGNC.	Sphingosine-1-phosphate lyase 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Enzymes Human disease related genes Metabolic proteins Potential drug targets
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.	10

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.	Non-specific - Mixed function (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.	0.30
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.	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: 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: 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

SGPL1 is part of cluster 45 Non-specific - Mixed function with confidenceⁱ 1
349 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.
VNN1	Vanin 1	0.5230	45
CDH1	Cadherin 1	0.5065	37
ADGRF1	Adhesion G protein-coupled receptor F1	0.4674	35
SRD5A3	Steroid 5 alpha-reductase 3	0.4529	35
NT5DC3	5'-nucleotidase domain containing 3	0.4512	37
CDCP1	CUB domain containing protein 1	0.4486	45
CLDN14	Claudin 14	0.4461	45
PHAF1	Phagosome assembly factor 1	0.4425	37
CST6	Cystatin E/M	0.4388	45
ADAM9	ADAM metallopeptidase domain 9	0.4374	45
USP43	Ubiquitin specific peptidase 43	0.4373	37
DDRGK1	DDRGK domain containing 1	0.4365	15
KRT80	Keratin 80	0.4349	45
WSB2	WD repeat and SOCS box containing 2	0.4348	45
AGRN	Agrin	0.4328	45

IMMUNE CELLS

SGPL1 is part of cluster 37 Monocytes & Neutrophils - Innate immune response with confidenceⁱ 1
275 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.
ZNF513	Zinc finger protein 513	1.0000	37
PDE8A	Phosphodiesterase 8A	1.0000	37
PGLYRP2	Peptidoglycan recognition protein 2	1.0000	37
TNF	Tumor necrosis factor	0.9762	37
CCDC71	Coiled-coil domain containing 71	0.9762	37
SEMA3A	Semaphorin 3A	0.9762	37
LY6E	Lymphocyte antigen 6 family member E	0.9762	37
RAD9B	RAD9 checkpoint clamp component B	0.9762	37
CLN6	CLN6 transmembrane ER protein	0.9762	37
FAM120B	Family with sequence similarity 120B	0.9762	37
RNF2	Ring finger protein 2	0.9762	37
NEURL1	Neuralized E3 ubiquitin protein ligase 1	0.9524	37
LTF	Lactotransferrin	0.9524	37
PPP1R17	Protein phosphatase 1 regulatory subunit 17	0.9524	37
ADAP1	ArfGAP with dual PH domains 1	0.9524	37

Adipocytes	3.9 nTPM
Breast	5.3 nTPM
Adipose tissue	2.6 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	11.7 nTPM
Lung	11.7 nTPM

Astrocytes	30.7 nTPM
Brain	30.7 nTPM

B-cells	8.5 nTPM
PBMC	29.2 nTPM
Salivary gland	11.2 nTPM
Skin	10.2 nTPM
Liver	9.7 nTPM
Thymus	8.3 nTPM
Lymph node	7.5 nTPM
Spleen	7.5 nTPM
Adipose tissue	7.4 nTPM
Lung	5.4 nTPM
Kidney	5.2 nTPM
Stomach	5.1 nTPM
Bone marrow	4.4 nTPM
Esophagus	0.0 nTPM

Ciliated cells	29.1 nTPM
Bronchus	37.9 nTPM
Endometrium	30.8 nTPM
Lung	27.7 nTPM
Fallopian tube	19.9 nTPM

Club cells	30.1 nTPM
Prostate	36.7 nTPM
Bronchus	29.6 nTPM
Lung	24.2 nTPM

Endothelial cells	6.6 nTPM
Tongue	8.9 nTPM
Heart muscle	8.4 nTPM
Endometrium	8.4 nTPM
Prostate	8.4 nTPM
Salivary gland	7.9 nTPM
Pancreas	7.8 nTPM
Lung	7.7 nTPM
Liver	7.6 nTPM
Fallopian tube	6.9 nTPM
Placenta	6.8 nTPM
Testis	6.7 nTPM
Ovary	6.5 nTPM
Vascular	6.0 nTPM
Skin	5.7 nTPM
Thymus	4.8 nTPM
Skeletal muscle	4.1 nTPM
Esophagus	3.9 nTPM
Breast	2.6 nTPM

Enteroendocrine cells	44.6 nTPM
Small intestine	92.7 nTPM
Rectum	21.8 nTPM
Colon	19.2 nTPM

Fibroblasts	9.7 nTPM
Pancreas	25.2 nTPM
Prostate	14.5 nTPM
Skin	12.1 nTPM
Vascular	11.2 nTPM
Liver	10.7 nTPM
Skeletal muscle	10.6 nTPM
Placenta	9.5 nTPM
Salivary gland	9.4 nTPM
Lung	8.8 nTPM
Adipose tissue	7.9 nTPM
Breast	7.5 nTPM
Fallopian tube	7.5 nTPM
Thymus	6.0 nTPM
Stomach	5.8 nTPM
Esophagus	5.7 nTPM
Heart muscle	2.0 nTPM

Granulocytes	8.7 nTPM
Fallopian tube	19.6 nTPM
Lung	6.6 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	20.8 nTPM
Small intestine	33.0 nTPM
Rectum	21.2 nTPM
Colon	8.1 nTPM

Lymphatic endothelial cells	3.5 nTPM
Fallopian tube	7.0 nTPM
Ovary	0.0 nTPM

Macrophages	26.5 nTPM
Spleen	41.1 nTPM
Vascular	34.1 nTPM
Prostate	33.0 nTPM
Stomach	30.9 nTPM
Endometrium	30.7 nTPM
Tongue	30.0 nTPM
Fallopian tube	29.7 nTPM
Thymus	28.6 nTPM
Kidney	26.6 nTPM
Salivary gland	26.2 nTPM
Skin	24.5 nTPM
Bone marrow	24.3 nTPM
Adipose tissue	24.0 nTPM
Esophagus	23.1 nTPM
Pancreas	22.6 nTPM
Skeletal muscle	21.8 nTPM
Lung	20.2 nTPM
Testis	16.1 nTPM
Breast	16.0 nTPM

Paneth cells	17.6 nTPM
Rectum	24.3 nTPM
Colon	18.1 nTPM
Small intestine	10.4 nTPM

Basal prostatic cells	19.3 nTPM
Prostate	19.3 nTPM

Bipolar cells	6.4 nTPM
Eye	6.4 nTPM

Collecting duct cells	37.0 nTPM
Kidney	37.0 nTPM

Cone photoreceptor cells	3.4 nTPM
Eye	3.4 nTPM

Plasma cells	6.5 nTPM
Liver	11.5 nTPM
Esophagus	10.4 nTPM
Salivary gland	8.5 nTPM
Spleen	6.3 nTPM
Thymus	5.3 nTPM
Fallopian tube	4.2 nTPM
Bone marrow	3.0 nTPM
Stomach	2.5 nTPM

Schwann cells	11.7 nTPM
Vascular	16.2 nTPM
Esophagus	12.0 nTPM
Adipose tissue	7.0 nTPM

Serous glandular cells	11.6 nTPM
Tongue	13.3 nTPM
Salivary gland	10.0 nTPM

Smooth muscle cells	10.4 nTPM
Salivary gland	16.5 nTPM
Skin	15.0 nTPM
Skeletal muscle	13.4 nTPM
Placenta	12.3 nTPM
Endometrium	11.9 nTPM
Adipose tissue	11.4 nTPM
Fallopian tube	11.4 nTPM
Vascular	10.0 nTPM
Ovary	10.0 nTPM
Tongue	9.6 nTPM
Thymus	8.5 nTPM
Lung	8.2 nTPM
Prostate	7.3 nTPM
Esophagus	7.2 nTPM
Breast	7.0 nTPM
Liver	6.4 nTPM

Suprabasal keratinocytes	30.2 nTPM
Tongue	38.3 nTPM
Skin	22.1 nTPM

T-cells	12.2 nTPM
Skin	19.6 nTPM
Liver	18.3 nTPM
Tongue	17.7 nTPM
Lung	15.2 nTPM
Prostate	14.7 nTPM
Kidney	14.2 nTPM
Adipose tissue	13.3 nTPM
Salivary gland	12.9 nTPM
Colon	12.7 nTPM
Skeletal muscle	12.5 nTPM
Fallopian tube	12.4 nTPM
Endometrium	12.1 nTPM
PBMC	11.2 nTPM
Thymus	9.8 nTPM
Vascular	9.6 nTPM
Spleen	9.5 nTPM
Breast	9.4 nTPM
Bone marrow	8.3 nTPM
Stomach	7.8 nTPM
Lymph node	7.4 nTPM
Esophagus	7.3 nTPM

Undifferentiated cells	15.7 nTPM
Rectum	17.2 nTPM
Small intestine	17.1 nTPM
Colon	12.9 nTPM

Amygdala excitatory	39.7 nTPM
Amygdala	49.5 nTPM
Hypothalamus	43.5 nTPM
Hippocampus	40.4 nTPM
Cerebral cortex	38.6 nTPM
Thalamus	36.3 nTPM
Basal ganglia	30.2 nTPM

Astrocyte	45.4 nTPM
Amygdala	56.1 nTPM
Hippocampus	52.2 nTPM
Hypothalamus	47.2 nTPM
Cerebral cortex	45.9 nTPM
Basal ganglia	44.6 nTPM
Midbrain	44.1 nTPM
Medulla oblongata	43.4 nTPM
Pons	42.3 nTPM
Cerebellum	41.7 nTPM
Spinal cord	41.3 nTPM
Thalamus	41.0 nTPM

Bergmann glia	47.2 nTPM
Pons	50.3 nTPM
Medulla oblongata	46.9 nTPM
Cerebellum	44.2 nTPM

Central nervous system macrophage	66.8 nTPM
Amygdala	88.2 nTPM
Hippocampus	72.0 nTPM
Basal ganglia	70.9 nTPM
Hypothalamus	70.8 nTPM
Midbrain	68.9 nTPM
Cerebellum	66.9 nTPM
Thalamus	64.7 nTPM
Cerebral cortex	63.2 nTPM
Pons	61.7 nTPM
Medulla oblongata	54.5 nTPM
Spinal cord	53.0 nTPM

Cerebellar inhibitory	28.9 nTPM
Spinal cord	38.5 nTPM
Medulla oblongata	28.9 nTPM
Cerebellum	27.1 nTPM
Midbrain	26.1 nTPM
Pons	24.0 nTPM

Cge interneuron	41.4 nTPM
Hypothalamus	47.3 nTPM
Amygdala	42.4 nTPM
Thalamus	41.9 nTPM
Midbrain	41.8 nTPM
Hippocampus	39.7 nTPM
Basal ganglia	38.9 nTPM
Cerebral cortex	38.0 nTPM

Choroid plexus epithelial cell	27.0 nTPM
Basal ganglia	31.7 nTPM
Thalamus	30.1 nTPM
Medulla oblongata	26.6 nTPM
Hippocampus	19.4 nTPM

Committed oligodendrocyte precursor	31.1 nTPM
Cerebellum	36.5 nTPM
Cerebral cortex	36.1 nTPM
Hippocampus	33.6 nTPM
Amygdala	32.7 nTPM
Hypothalamus	32.1 nTPM
Basal ganglia	30.7 nTPM
Spinal cord	29.4 nTPM
Midbrain	28.6 nTPM
Medulla oblongata	28.4 nTPM
Pons	28.3 nTPM
Thalamus	25.4 nTPM

Deep-layer corticothalamic and 6b	39.6 nTPM
Amygdala	48.5 nTPM
Basal ganglia	41.8 nTPM
Cerebral cortex	38.3 nTPM
Hypothalamus	37.9 nTPM
Midbrain	36.6 nTPM
Hippocampus	34.6 nTPM

Deep-layer intratelencephalic	51.2 nTPM
Amygdala	59.0 nTPM
Basal ganglia	52.0 nTPM
Hypothalamus	51.4 nTPM
Cerebral cortex	50.4 nTPM
Hippocampus	43.2 nTPM

Deep-layer near-projecting	21.8 nTPM
Amygdala	25.0 nTPM
Hypothalamus	22.9 nTPM
Basal ganglia	22.7 nTPM
Cerebral cortex	21.1 nTPM
Hippocampus	17.2 nTPM

Eccentric medium spiny neuron	32.8 nTPM
Amygdala	34.5 nTPM
Cerebral cortex	34.0 nTPM
Thalamus	33.9 nTPM
Hippocampus	33.2 nTPM
Hypothalamus	31.3 nTPM
Basal ganglia	30.1 nTPM

Endothelial cell	57.4 nTPM
Midbrain	78.4 nTPM
Hippocampus	68.9 nTPM
Thalamus	68.3 nTPM
Spinal cord	65.6 nTPM
Amygdala	60.4 nTPM
Cerebral cortex	56.3 nTPM
Basal ganglia	55.9 nTPM
Cerebellum	54.2 nTPM
Pons	49.9 nTPM
Medulla oblongata	37.9 nTPM
Hypothalamus	36.0 nTPM