Single cell type - PODXL2 - The Human Protein Atlas

PODXL2

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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.	PODXL2
Gene descriptionⁱ Full gene name according to HGNC.	Podocalyxin like 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
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	1

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.	Enteroendocrine cells - Hormone 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 (Late spermatids, Spermatogonia, Bipolar cells, Early spermatids, Horizontal cells, Cone 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.	0.56
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 (Late spermatids, Spermatogonia, Bipolar cells, Early spermatids, Horizontal cells, Cone 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

PODXL2 is part of cluster 20 Enteroendocrine cells - Hormone signaling with confidenceⁱ 1
85 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.
CHRNB2	Cholinergic receptor nicotinic beta 2 subunit	0.6051	71
MANEAL	Mannosidase endo-alpha like	0.5746	20
IGLON5	IgLON family member 5	0.5271	71
FBLL1	Fibrillarin like 1	0.5158	71
LY6H	Lymphocyte antigen 6 family member H	0.4971	69
ACSM4	Acyl-CoA synthetase medium chain family member 4	0.4924	67
GDAP1L1	Ganglioside induced differentiation associated protein 1 like 1	0.4890	10
BTBD17	BTB domain containing 17	0.4884	36
MATCAP1	Microtubule associated tyrosine carboxypeptidase 1	0.4809	71
SVOP	SV2 related protein	0.4799	65
SCG2	Secretogranin II	0.4736	20
SCG5	Secretogranin V	0.4713	20
VGF	VGF nerve growth factor inducible	0.4688	20
ZDHHC22	Zinc finger DHHC-type palmitoyltransferase 22	0.4639	69
AMER3	APC membrane recruitment protein 3	0.4622	20

Adipocytes	1.7 nTPM
Breast	2.7 nTPM
Adipose tissue	0.6 nTPM

Alveolar cells type 1	2.1 nTPM
Lung	2.1 nTPM

Alveolar cells type 2	4.4 nTPM
Lung	4.4 nTPM

Astrocytes	9.9 nTPM
Brain	9.9 nTPM

B-cells	3.0 nTPM
Liver	9.7 nTPM
Skin	8.5 nTPM
Adipose tissue	5.8 nTPM
Spleen	3.4 nTPM
PBMC	3.1 nTPM
Salivary gland	3.0 nTPM
Stomach	2.1 nTPM
Lung	1.3 nTPM
Lymph node	0.8 nTPM
Thymus	0.8 nTPM
Bone marrow	0.5 nTPM
Kidney	0.0 nTPM
Esophagus	0.0 nTPM

Ciliated cells	4.9 nTPM
Endometrium	8.4 nTPM
Fallopian tube	5.5 nTPM
Lung	4.4 nTPM
Bronchus	1.2 nTPM

Club cells	5.2 nTPM
Lung	6.8 nTPM
Prostate	5.2 nTPM
Bronchus	3.5 nTPM

Endothelial cells	1.8 nTPM
Pancreas	5.2 nTPM
Tongue	3.7 nTPM
Salivary gland	3.4 nTPM
Endometrium	2.8 nTPM
Ovary	2.1 nTPM
Skin	1.8 nTPM
Placenta	1.7 nTPM
Testis	1.5 nTPM
Vascular	1.5 nTPM
Liver	1.3 nTPM
Prostate	1.2 nTPM
Fallopian tube	1.1 nTPM
Thymus	0.9 nTPM
Breast	0.9 nTPM
Skeletal muscle	0.8 nTPM
Esophagus	0.8 nTPM
Lung	0.6 nTPM
Heart muscle	0.4 nTPM

Enteroendocrine cells	49.3 nTPM
Small intestine	79.0 nTPM
Rectum	48.6 nTPM
Colon	20.3 nTPM

Fibroblasts	6.0 nTPM
Stomach	13.0 nTPM
Breast	12.7 nTPM
Skin	12.6 nTPM
Adipose tissue	11.0 nTPM
Skeletal muscle	6.2 nTPM
Fallopian tube	6.1 nTPM
Thymus	6.0 nTPM
Esophagus	5.6 nTPM
Pancreas	4.8 nTPM
Lung	4.4 nTPM
Vascular	4.2 nTPM
Salivary gland	3.7 nTPM
Prostate	3.3 nTPM
Placenta	1.9 nTPM
Heart muscle	0.2 nTPM
Liver	0.0 nTPM

Granulocytes	1.9 nTPM
Lung	3.5 nTPM
Fallopian tube	2.1 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	16.4 nTPM
Colon	24.4 nTPM
Rectum	16.8 nTPM
Small intestine	8.2 nTPM

Lymphatic endothelial cells	6.2 nTPM
Ovary	10.9 nTPM
Fallopian tube	1.5 nTPM

Macrophages	1.6 nTPM
Endometrium	4.3 nTPM
Salivary gland	4.0 nTPM
Adipose tissue	3.5 nTPM
Breast	3.2 nTPM
Stomach	2.6 nTPM
Spleen	2.0 nTPM
Tongue	1.7 nTPM
Vascular	1.7 nTPM
Esophagus	1.3 nTPM
Fallopian tube	1.2 nTPM
Skin	1.1 nTPM
Lung	1.0 nTPM
Thymus	1.0 nTPM
Prostate	0.9 nTPM
Testis	0.6 nTPM
Skeletal muscle	0.5 nTPM
Kidney	0.0 nTPM
Pancreas	0.0 nTPM
Bone marrow	0.0 nTPM

Paneth cells	13.7 nTPM
Rectum	20.2 nTPM
Small intestine	17.3 nTPM
Colon	3.6 nTPM

Basal squamous epithelial cells	9.1 nTPM
Esophagus	9.1 nTPM

Cholangiocytes	5.7 nTPM
Liver	5.7 nTPM

Collecting duct cells	11.7 nTPM
Kidney	11.7 nTPM

Endometrial stromal cells	2.4 nTPM
Endometrium	2.4 nTPM

Plasma cells	13.6 nTPM
Fallopian tube	35.1 nTPM
Salivary gland	31.3 nTPM
Esophagus	26.0 nTPM
Stomach	11.3 nTPM
Liver	2.0 nTPM
Thymus	1.8 nTPM
Spleen	1.2 nTPM
Bone marrow	0.0 nTPM

Schwann cells	4.6 nTPM
Vascular	9.9 nTPM
Adipose tissue	3.9 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	20.5 nTPM
Salivary gland	27.8 nTPM
Tongue	13.3 nTPM

Smooth muscle cells	9.3 nTPM
Breast	24.7 nTPM
Lung	17.6 nTPM
Skin	17.0 nTPM
Esophagus	13.2 nTPM
Salivary gland	11.8 nTPM
Adipose tissue	10.9 nTPM
Thymus	10.5 nTPM
Skeletal muscle	9.4 nTPM
Endometrium	7.3 nTPM
Ovary	6.7 nTPM
Tongue	6.0 nTPM
Vascular	4.9 nTPM
Fallopian tube	3.5 nTPM
Placenta	2.7 nTPM
Prostate	1.8 nTPM
Liver	1.3 nTPM

T-cells	2.7 nTPM
Salivary gland	5.2 nTPM
Endometrium	4.6 nTPM
Thymus	4.4 nTPM
Skin	3.9 nTPM
PBMC	3.5 nTPM
Breast	3.3 nTPM
Spleen	3.2 nTPM
Lymph node	3.1 nTPM
Stomach	3.0 nTPM
Colon	2.9 nTPM
Lung	2.7 nTPM
Esophagus	2.4 nTPM
Bone marrow	2.1 nTPM
Fallopian tube	2.1 nTPM
Liver	1.9 nTPM
Adipose tissue	1.6 nTPM
Vascular	1.6 nTPM
Skeletal muscle	1.5 nTPM
Tongue	1.3 nTPM
Kidney	0.9 nTPM
Prostate	0.9 nTPM

Undifferentiated cells	24.6 nTPM
Rectum	26.4 nTPM
Colon	24.6 nTPM
Small intestine	22.6 nTPM

Amygdala excitatory	44.8 nTPM
Thalamus	87.6 nTPM
Basal ganglia	54.3 nTPM
Hypothalamus	40.2 nTPM
Amygdala	30.8 nTPM
Hippocampus	30.0 nTPM
Cerebral cortex	26.2 nTPM

Astrocyte	11.8 nTPM
Cerebral cortex	15.6 nTPM
Thalamus	13.6 nTPM
Pons	12.5 nTPM
Medulla oblongata	12.4 nTPM
Cerebellum	11.9 nTPM
Hypothalamus	11.4 nTPM
Hippocampus	11.3 nTPM
Midbrain	10.9 nTPM
Amygdala	10.8 nTPM
Basal ganglia	10.2 nTPM
Spinal cord	9.5 nTPM

Bergmann glia	6.4 nTPM
Cerebellum	6.9 nTPM
Medulla oblongata	6.4 nTPM
Pons	5.8 nTPM

Central nervous system macrophage	7.0 nTPM
Cerebral cortex	12.6 nTPM
Hypothalamus	9.4 nTPM
Spinal cord	8.5 nTPM
Thalamus	8.4 nTPM
Hippocampus	7.3 nTPM
Pons	6.2 nTPM
Medulla oblongata	6.1 nTPM
Amygdala	5.8 nTPM
Midbrain	5.0 nTPM
Cerebellum	4.2 nTPM
Basal ganglia	3.0 nTPM

Cerebellar inhibitory	113.4 nTPM
Cerebellum	126.7 nTPM
Midbrain	122.9 nTPM
Pons	117.4 nTPM
Medulla oblongata	103.5 nTPM
Spinal cord	96.2 nTPM

Cge interneuron	141.3 nTPM
Basal ganglia	158.1 nTPM
Midbrain	149.3 nTPM
Cerebral cortex	148.3 nTPM
Hippocampus	141.1 nTPM
Amygdala	133.1 nTPM
Thalamus	132.7 nTPM
Hypothalamus	126.6 nTPM

Choroid plexus epithelial cell	2.4 nTPM
Medulla oblongata	5.5 nTPM
Hippocampus	2.8 nTPM
Basal ganglia	1.2 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	42.3 nTPM
Pons	65.5 nTPM
Cerebellum	55.5 nTPM
Spinal cord	51.5 nTPM
Hippocampus	50.4 nTPM
Cerebral cortex	48.1 nTPM
Midbrain	41.2 nTPM
Hypothalamus	36.9 nTPM
Medulla oblongata	36.1 nTPM
Basal ganglia	28.5 nTPM
Thalamus	26.8 nTPM
Amygdala	24.8 nTPM

Deep-layer corticothalamic and 6b	81.2 nTPM
Midbrain	94.3 nTPM
Basal ganglia	86.8 nTPM
Hypothalamus	83.7 nTPM
Amygdala	79.3 nTPM
Hippocampus	73.3 nTPM
Cerebral cortex	69.8 nTPM

Deep-layer intratelencephalic	43.5 nTPM
Basal ganglia	47.5 nTPM
Hypothalamus	47.2 nTPM
Cerebral cortex	44.8 nTPM
Amygdala	40.0 nTPM
Hippocampus	38.1 nTPM

Deep-layer near-projecting	102.7 nTPM
Hypothalamus	113.0 nTPM
Basal ganglia	107.2 nTPM
Hippocampus	102.1 nTPM
Cerebral cortex	96.1 nTPM
Amygdala	95.1 nTPM

Eccentric medium spiny neuron	49.0 nTPM
Hippocampus	61.3 nTPM
Hypothalamus	57.4 nTPM
Amygdala	48.8 nTPM
Thalamus	46.1 nTPM
Cerebral cortex	43.3 nTPM
Basal ganglia	37.2 nTPM

Endothelial cell	4.2 nTPM
Thalamus	9.6 nTPM
Cerebellum	9.3 nTPM
Hypothalamus	6.2 nTPM
Cerebral cortex	4.5 nTPM
Medulla oblongata	4.1 nTPM
Hippocampus	3.5 nTPM
Pons	3.1 nTPM
Midbrain	1.9 nTPM
Spinal cord	1.7 nTPM
Amygdala	1.1 nTPM
Basal ganglia	0.9 nTPM

Ependymal cell	16.8 nTPM
Spinal cord	40.2 nTPM
Medulla oblongata	23.7 nTPM
Pons	18.5 nTPM
Midbrain	15.9 nTPM
Hippocampus	14.9 nTPM
Thalamus	10.5 nTPM
Hypothalamus	9.8 nTPM
Basal ganglia	9.0 nTPM
Amygdala	8.5 nTPM