Single cell type - TSPYL4 - The Human Protein Atlas

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.	TSPYL4
Gene descriptionⁱ Full gene name according to HGNC.	TSPY like 4
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. Read more	Intracellular
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. Read more	Stromal cells - Cell proliferation (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. Read more	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. Read more	Low immune cell specificity
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in many
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in many
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Low cell type specificity

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

TSPYL4 is part of cluster 36 Stromal cells - Cell proliferation with confidenceⁱ 1
96 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
TP53BP1	Tumor protein p53 binding protein 1	0.5662	52
GDF7	Growth differentiation factor 7	0.5464	36
MEIS1	Meis homeobox 1	0.5343	36
PGR	Progesterone receptor	0.5270	36
MYOCD	Myocardin	0.5205	48
EMILIN3	Elastin microfibril interfacer 3	0.5156	36
PRKDC	Protein kinase, DNA-activated, catalytic subunit	0.5117	36
FOXL2NB	FOXL2 neighbor	0.5117	40
RPRM	Reprimo, TP53 dependent G2 arrest mediator homolog	0.4911	36
URB1	URB1 ribosome biogenesis homolog	0.4888	36
HAND2	Heart and neural crest derivatives expressed 2	0.4887	36
KIAA1210	KIAA1210	0.4857	36
HOXA11	Homeobox A11	0.4822	36
RORB	RAR related orphan receptor B	0.4810	62
TMEFF1	Transmembrane protein with EGF like and two follistatin like domains 1	0.4782	36

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	7.0 nTPM
Adipose tissue	7.1 nTPM
Breast	6.9 nTPM

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	7.7 nTPM
Lung	7.7 nTPM

Astrocytes	11.8 nTPM
Brain	11.8 nTPM

B-cells	9.2 nTPM
Adipose tissue	16.1 nTPM
Bone marrow	10.6 nTPM
PBMC	9.9 nTPM
Lymph node	9.7 nTPM
Colon	9.6 nTPM
Kidney	9.5 nTPM
Stomach	8.1 nTPM
Spleen	6.5 nTPM
Liver	6.4 nTPM
Breast	5.3 nTPM

Dendritic cells	13.0 nTPM
Adipose tissue	20.2 nTPM
PBMC	12.0 nTPM
Breast	6.9 nTPM

Endothelial cells	11.5 nTPM
Heart muscle	24.7 nTPM
Endometrium	20.5 nTPM
Lung	15.6 nTPM
Esophagus	13.4 nTPM
Ovary	12.8 nTPM
Eye	12.2 nTPM
Liver	11.9 nTPM
Testis	8.9 nTPM
Prostate	8.3 nTPM
Skeletal muscle	8.1 nTPM
Skin	7.8 nTPM
Breast	7.3 nTPM
Placenta	5.1 nTPM
Pancreas	3.9 nTPM

Fibroblasts	13.3 nTPM
Heart muscle	22.9 nTPM
Stomach	22.3 nTPM
Adipose tissue	16.2 nTPM
Esophagus	16.1 nTPM
Ovary	11.6 nTPM
Breast	11.5 nTPM
Skeletal muscle	11.2 nTPM
Prostate	11.0 nTPM
Skin	9.5 nTPM
Placenta	7.6 nTPM
Lung	6.7 nTPM

Intestinal goblet cells	5.8 nTPM
Rectum	7.5 nTPM
Colon	7.2 nTPM
Small intestine	2.8 nTPM

Macrophages	8.8 nTPM
PBMC	27.3 nTPM
Stomach	14.7 nTPM
Esophagus	12.6 nTPM
Endometrium	11.9 nTPM
Bone marrow	10.0 nTPM
Breast	7.6 nTPM
Adipose tissue	7.3 nTPM
Skeletal muscle	6.7 nTPM
Spleen	6.2 nTPM
Kidney	6.1 nTPM
Pancreas	5.1 nTPM
Lung	5.0 nTPM
Prostate	4.6 nTPM
Testis	4.0 nTPM
Ovary	3.1 nTPM

Paneth cells	2.5 nTPM
Rectum	4.2 nTPM
Colon	3.3 nTPM
Small intestine	0.0 nTPM

Plasma cells	7.3 nTPM
Adipose tissue	16.1 nTPM
Esophagus	12.3 nTPM
Stomach	4.9 nTPM
Spleen	3.2 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	27.5 nTPM
Lung	40.8 nTPM
Bronchus	14.3 nTPM

Smooth muscle cells	16.8 nTPM
Endometrium	38.0 nTPM
Esophagus	26.4 nTPM
Ovary	22.5 nTPM
Adipose tissue	20.6 nTPM
Heart muscle	19.0 nTPM
Breast	15.8 nTPM
Skeletal muscle	13.5 nTPM
Prostate	13.1 nTPM
Skin	9.1 nTPM
Pancreas	5.7 nTPM
Bronchus	1.0 nTPM

T-cells	11.9 nTPM
Endometrium	35.5 nTPM
Adipose tissue	21.5 nTPM
Skeletal muscle	17.9 nTPM
Breast	16.3 nTPM
Stomach	15.1 nTPM
Lymph node	14.6 nTPM
Spleen	14.4 nTPM
Lung	12.2 nTPM
Colon	10.5 nTPM
Liver	9.8 nTPM
PBMC	8.5 nTPM
Kidney	7.5 nTPM
Ovary	6.7 nTPM
Skin	6.4 nTPM
Bone marrow	5.8 nTPM
Prostate	0.0 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	4.8 nTPM
Skin	4.8 nTPM

Basal squamous epithelial cells	30.1 nTPM
Esophagus	30.1 nTPM

Cone photoreceptor cells	20.9 nTPM
Eye	20.9 nTPM

Distal tubular cells	19.6 nTPM
Kidney	19.6 nTPM

Undifferentiated cells	4.5 nTPM
Colon	4.8 nTPM
Rectum	4.6 nTPM
Small intestine	4.0 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC