Single cell type - PTK7 - The Human Protein Atlas

PTK7

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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.	PTK7
Gene descriptionⁱ Full gene name according to HGNC.	Protein tyrosine kinase 7 (inactive)
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes Plasma 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.	Secreted, 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.	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.	Cell type enhanced (Late spermatids, Early spermatids, Endometrial stromal 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.	0.60
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 (Choroid plexus epithelial cell, Fibroblast)
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 enriched (plasmacytoid DC)
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
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data.	Protein predicted to be secreted

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, Early spermatids, Endometrial stromal 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: Cell type enhanced (Choroid plexus epithelial cell, Fibroblast)

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 enriched (plasmacytoid DC)
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

PTK7 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.
PCDHA2	Protocadherin alpha 2	0.7158	13
DNAJB7	DnaJ heat shock protein family (Hsp40) member B7	0.6829	21
DCDC2C	Doublecortin domain containing 2C	0.6713	21
GBX2	Gastrulation brain homeobox 2	0.6697	13
C20orf173	Chromosome 20 open reading frame 173	0.6636	21
AOC2	Amine oxidase copper containing 2	0.6636	21
GPC2	Glypican 2	0.6605	21
XYLT2	Xylosyltransferase 2	0.6547	21
FAM170B	Family with sequence similarity 170 member B	0.6526	21
ACTL7B	Actin like 7B	0.6440	21
CCDC185	Coiled-coil domain containing 185	0.6386	21
TEKT5	Tektin 5	0.6371	21
C10orf120	Chromosome 10 open reading frame 120	0.6342	21
PRSS58	Serine protease 58	0.6310	21
WFDC11	WAP four-disulfide core domain 11	0.6306	21

IMMUNE CELLS

PTK7 is part of cluster 8 Plasmacytoid DCs - Unknown function with confidenceⁱ 1
236 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.
TRIP10	Thyroid hormone receptor interactor 10	1.0000	8
PTGES3L	Prostaglandin E synthase 3 like	1.0000	8
PARP10	Poly(ADP-ribose) polymerase family member 10	1.0000	8
CERS6	Ceramide synthase 6	1.0000	8
NPR2	Natriuretic peptide receptor 2	1.0000	8
STK32B	Serine/threonine kinase 32B	1.0000	8
DYRK3	Dual specificity tyrosine phosphorylation regulated kinase 3	1.0000	8
HSPG2	Heparan sulfate proteoglycan 2	1.0000	8
GARNL3	GTPase activating Rap/RanGAP domain like 3	1.0000	8
GSTM5	Glutathione S-transferase mu 5	1.0000	8
VIPR2	Vasoactive intestinal peptide receptor 2	1.0000	8
GRAMD1B	GRAM domain containing 1B	0.9762	8
NRP1	Neuropilin 1	0.9762	8
NCR2	Natural cytotoxicity triggering receptor 2	0.9762	8
TTC39A	Tetratricopeptide repeat domain 39A	0.9762	8

Adipocytes	3.1 nTPM
Breast	3.9 nTPM
Adipose tissue	2.4 nTPM

Alveolar cells type 1	20.9 nTPM
Lung	20.9 nTPM

Alveolar cells type 2	39.2 nTPM
Lung	39.2 nTPM

Astrocytes	10.2 nTPM
Brain	10.2 nTPM

B-cells	1.4 nTPM
Skin	6.8 nTPM
Esophagus	5.9 nTPM
Lung	2.7 nTPM
Salivary gland	0.9 nTPM
Bone marrow	0.7 nTPM
Adipose tissue	0.4 nTPM
Thymus	0.3 nTPM
Spleen	0.2 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Lymph node	0.0 nTPM
Stomach	0.0 nTPM

Ciliated cells	18.7 nTPM
Bronchus	30.1 nTPM
Endometrium	23.0 nTPM
Fallopian tube	12.3 nTPM
Lung	9.5 nTPM

Club cells	17.7 nTPM
Bronchus	22.5 nTPM
Lung	16.3 nTPM
Prostate	14.2 nTPM

Dendritic cells	20.1 nTPM
PBMC	21.6 nTPM
Adipose tissue	18.7 nTPM

Endothelial cells	8.2 nTPM
Endometrium	23.5 nTPM
Placenta	20.4 nTPM
Testis	16.2 nTPM
Ovary	15.2 nTPM
Breast	9.7 nTPM
Pancreas	7.8 nTPM
Prostate	7.2 nTPM
Fallopian tube	6.8 nTPM
Esophagus	6.4 nTPM
Vascular	5.8 nTPM
Tongue	5.6 nTPM
Skin	5.4 nTPM
Thymus	4.0 nTPM
Liver	3.8 nTPM
Lung	3.4 nTPM
Salivary gland	3.2 nTPM
Skeletal muscle	2.4 nTPM
Heart muscle	0.4 nTPM

Enteroendocrine cells	8.4 nTPM
Rectum	21.8 nTPM
Colon	3.4 nTPM
Small intestine	0.0 nTPM

Fibroblasts	32.6 nTPM
Pancreas	154.8 nTPM
Placenta	96.8 nTPM
Skin	53.0 nTPM
Fallopian tube	37.8 nTPM
Breast	28.5 nTPM
Prostate	26.4 nTPM
Esophagus	26.1 nTPM
Lung	22.8 nTPM
Stomach	18.7 nTPM
Adipose tissue	13.9 nTPM
Salivary gland	11.9 nTPM
Thymus	11.2 nTPM
Vascular	10.6 nTPM
Skeletal muscle	7.0 nTPM
Liver	1.2 nTPM
Heart muscle	0.5 nTPM

Granulocytes	0.4 nTPM
Fallopian tube	0.8 nTPM
Lung	0.5 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	4.2 nTPM
Rectum	9.0 nTPM
Colon	2.2 nTPM
Small intestine	1.3 nTPM

Lymphatic endothelial cells	12.9 nTPM
Ovary	21.8 nTPM
Fallopian tube	3.9 nTPM

Macrophages	1.6 nTPM
Endometrium	7.4 nTPM
Skin	5.6 nTPM
Tongue	3.1 nTPM
Pancreas	2.1 nTPM
Breast	1.9 nTPM
Skeletal muscle	1.3 nTPM
Esophagus	1.3 nTPM
Testis	1.2 nTPM
Prostate	1.2 nTPM
Bone marrow	1.0 nTPM
Spleen	1.0 nTPM
Fallopian tube	0.9 nTPM
Salivary gland	0.8 nTPM
Vascular	0.6 nTPM
Adipose tissue	0.3 nTPM
Lung	0.3 nTPM
Thymus	0.2 nTPM
Kidney	0.0 nTPM
Stomach	0.0 nTPM

Basal keratinocytes	15.6 nTPM
Skin	20.2 nTPM
Tongue	11.1 nTPM

Basal prostatic cells	7.7 nTPM
Prostate	7.7 nTPM

Basal respiratory cells	38.0 nTPM
Bronchus	38.0 nTPM

Bipolar cells	1.8 nTPM
Eye	1.8 nTPM

Paneth cells	2.8 nTPM
Rectum	8.3 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	1.4 nTPM
Esophagus	5.2 nTPM
Salivary gland	3.1 nTPM
Fallopian tube	2.3 nTPM
Stomach	0.4 nTPM
Spleen	0.2 nTPM
Thymus	0.1 nTPM
Liver	0.0 nTPM
Bone marrow	0.0 nTPM

Schwann cells	1.3 nTPM
Adipose tissue	3.9 nTPM
Esophagus	0.0 nTPM
Vascular	0.0 nTPM

Serous glandular cells	4.2 nTPM
Tongue	4.4 nTPM
Salivary gland	3.9 nTPM

Smooth muscle cells	15.3 nTPM
Placenta	84.0 nTPM
Endometrium	46.0 nTPM
Tongue	24.2 nTPM
Fallopian tube	16.9 nTPM
Lung	15.3 nTPM
Ovary	11.8 nTPM
Skin	10.6 nTPM
Salivary gland	9.0 nTPM
Esophagus	7.2 nTPM
Breast	6.4 nTPM
Adipose tissue	4.9 nTPM
Liver	2.5 nTPM
Skeletal muscle	2.3 nTPM
Vascular	1.5 nTPM
Prostate	1.2 nTPM
Thymus	1.0 nTPM

T-cells	1.6 nTPM
Endometrium	9.8 nTPM
Skin	5.6 nTPM
PBMC	2.1 nTPM
Salivary gland	2.1 nTPM
Breast	1.8 nTPM
Prostate	1.7 nTPM
Tongue	1.7 nTPM
Liver	1.6 nTPM
Lymph node	1.2 nTPM
Colon	1.0 nTPM
Spleen	0.9 nTPM
Skeletal muscle	0.8 nTPM
Fallopian tube	0.8 nTPM
Stomach	0.7 nTPM
Lung	0.5 nTPM
Adipose tissue	0.3 nTPM
Thymus	0.3 nTPM
Bone marrow	0.1 nTPM
Kidney	0.0 nTPM
Esophagus	0.0 nTPM
Vascular	0.0 nTPM

Undifferentiated cells	11.3 nTPM
Rectum	19.8 nTPM
Colon	8.5 nTPM
Small intestine	5.8 nTPM

Amygdala excitatory	8.9 nTPM
Thalamus	33.1 nTPM
Basal ganglia	7.5 nTPM
Hypothalamus	5.6 nTPM
Amygdala	3.0 nTPM
Hippocampus	2.3 nTPM
Cerebral cortex	1.8 nTPM

Astrocyte	18.0 nTPM
Spinal cord	34.5 nTPM
Medulla oblongata	20.6 nTPM
Hypothalamus	19.8 nTPM
Hippocampus	16.7 nTPM
Cerebral cortex	16.3 nTPM
Midbrain	15.8 nTPM
Amygdala	15.6 nTPM
Basal ganglia	15.5 nTPM
Thalamus	15.3 nTPM
Pons	14.4 nTPM
Cerebellum	14.1 nTPM

Bergmann glia	7.6 nTPM
Pons	8.6 nTPM
Medulla oblongata	8.5 nTPM
Cerebellum	5.6 nTPM

Central nervous system macrophage	1.4 nTPM
Medulla oblongata	2.4 nTPM
Cerebral cortex	1.9 nTPM
Thalamus	1.8 nTPM
Basal ganglia	1.5 nTPM
Spinal cord	1.5 nTPM
Hippocampus	1.4 nTPM
Hypothalamus	1.4 nTPM
Pons	1.3 nTPM
Midbrain	1.0 nTPM
Cerebellum	0.9 nTPM
Amygdala	0.4 nTPM

Cerebellar inhibitory	24.6 nTPM
Cerebellum	28.6 nTPM
Pons	26.9 nTPM
Medulla oblongata	24.1 nTPM
Spinal cord	22.0 nTPM
Midbrain	21.2 nTPM

Cge interneuron	11.3 nTPM
Hypothalamus	16.1 nTPM
Basal ganglia	12.0 nTPM
Hippocampus	12.0 nTPM
Midbrain	10.9 nTPM
Cerebral cortex	10.1 nTPM
Amygdala	9.8 nTPM
Thalamus	8.3 nTPM

Choroid plexus epithelial cell	104.3 nTPM
Basal ganglia	158.6 nTPM
Medulla oblongata	107.0 nTPM
Thalamus	93.2 nTPM
Hippocampus	58.2 nTPM

Committed oligodendrocyte precursor	12.0 nTPM
Medulla oblongata	27.1 nTPM
Cerebellum	22.2 nTPM
Basal ganglia	19.2 nTPM
Pons	15.9 nTPM
Hippocampus	12.7 nTPM
Midbrain	10.1 nTPM
Thalamus	9.0 nTPM
Amygdala	6.2 nTPM
Cerebral cortex	5.1 nTPM
Hypothalamus	4.8 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	68.5 nTPM
Hypothalamus	123.3 nTPM
Basal ganglia	80.7 nTPM
Amygdala	68.7 nTPM
Cerebral cortex	59.4 nTPM
Midbrain	43.3 nTPM
Hippocampus	35.3 nTPM

Deep-layer intratelencephalic	10.9 nTPM
Hypothalamus	23.8 nTPM
Basal ganglia	12.5 nTPM
Cerebral cortex	10.3 nTPM
Hippocampus	4.4 nTPM
Amygdala	3.3 nTPM

Deep-layer near-projecting	28.2 nTPM
Hypothalamus	40.0 nTPM
Amygdala	31.6 nTPM
Cerebral cortex	25.6 nTPM
Basal ganglia	24.1 nTPM
Hippocampus	19.8 nTPM

Eccentric medium spiny neuron	7.2 nTPM
Hypothalamus	9.4 nTPM
Basal ganglia	9.1 nTPM
Thalamus	8.3 nTPM
Cerebral cortex	7.8 nTPM
Amygdala	5.0 nTPM
Hippocampus	3.7 nTPM

Endothelial cell	2.0 nTPM
Basal ganglia	8.4 nTPM
Hypothalamus	2.5 nTPM
Medulla oblongata	2.1 nTPM
Spinal cord	1.7 nTPM
Thalamus	1.7 nTPM
Cerebellum	1.5 nTPM
Pons	1.2 nTPM
Hippocampus	1.0 nTPM
Midbrain	0.9 nTPM
Cerebral cortex	0.6 nTPM
Amygdala	0.0 nTPM