Single cell type - WIF1 - The Human Protein Atlas

WIF1

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Pathway

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.	WIF1
Gene descriptionⁱ Full gene name according to HGNC.	WNT inhibitory factor 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-related genes
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, Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	3

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.	Muller glia cells - Visual perception (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 enriched (Muller glia 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.	0.88
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 (Astrocyte, Bergmann glia, MGE interneuron)
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
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 enriched (Muller glia 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 (Astrocyte, Bergmann glia, MGE interneuron)

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

WIF1 is part of cluster 10 Muller glia cells - Visual perception with confidenceⁱ 1
166 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.
RGR	Retinal G protein coupled receptor	0.9863	10
CLRN1	Clarin 1	0.9851	10
RLBP1	Retinaldehyde binding protein 1	0.9770	10
NPVF	Neuropeptide VF precursor	0.9565	10
RRH	Retinal pigment epithelium-derived rhodopsin homolog	0.9523	10
DIPK1C	Divergent protein kinase domain 1C	0.9507	10
LIX1	Limb and CNS expressed 1	0.9503	10
PRSS35	Serine protease 35	0.9494	10
CRABP1	Cellular retinoic acid binding protein 1	0.9485	10
CNMD	Chondromodulin	0.9483	10
SEC14L3	SEC14 like lipid binding 3	0.9345	10
TRH	Thyrotropin releasing hormone	0.9259	10
RAX	Retina and anterior neural fold homeobox	0.9194	10
SLITRK2	SLIT and NTRK like family member 2	0.9118	10
FRZB	Frizzled related protein	0.8928	10

Adipocytes	0.0 nTPM
Breast	0.1 nTPM
Adipose tissue	0.0 nTPM

Alveolar cells type 1	5.0 nTPM
Lung	5.0 nTPM

Alveolar cells type 2	136.3 nTPM
Lung	136.3 nTPM

Astrocytes	176.5 nTPM
Brain	176.5 nTPM

B-cells	1.5 nTPM
Skin	16.9 nTPM
Lung	2.7 nTPM
Salivary gland	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Thymus	0.0 nTPM

Ciliated cells	6.1 nTPM
Lung	24.2 nTPM
Fallopian tube	0.1 nTPM
Endometrium	0.0 nTPM
Bronchus	0.0 nTPM

Club cells	1.0 nTPM
Lung	1.8 nTPM
Prostate	1.3 nTPM
Bronchus	0.0 nTPM

Endothelial cells	0.9 nTPM
Tongue	9.3 nTPM
Skin	3.5 nTPM
Lung	1.9 nTPM
Heart muscle	0.2 nTPM
Salivary gland	0.2 nTPM
Thymus	0.2 nTPM
Endometrium	0.1 nTPM
Vascular	0.1 nTPM
Testis	0.0 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Prostate	0.0 nTPM
Breast	0.0 nTPM
Fallopian tube	0.0 nTPM
Ovary	0.0 nTPM

Enteroendocrine cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	17.9 nTPM
Skin	197.1 nTPM
Stomach	41.8 nTPM
Esophagus	25.4 nTPM
Lung	14.6 nTPM
Placenta	2.2 nTPM
Prostate	2.0 nTPM
Skeletal muscle	1.1 nTPM
Salivary gland	0.9 nTPM
Heart muscle	0.7 nTPM
Thymus	0.6 nTPM
Fallopian tube	0.4 nTPM
Vascular	0.2 nTPM
Breast	0.2 nTPM
Adipose tissue	0.1 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM

Granulocytes	7.0 nTPM
Tongue	19.4 nTPM
Lung	1.5 nTPM
Fallopian tube	0.0 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

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

Macrophages	1.6 nTPM
Tongue	17.3 nTPM
Skin	12.3 nTPM
Lung	0.7 nTPM
Salivary gland	0.3 nTPM
Testis	0.0 nTPM
Kidney	0.0 nTPM
Endometrium	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Prostate	0.0 nTPM
Thymus	0.0 nTPM
Vascular	0.0 nTPM
Breast	0.0 nTPM
Fallopian tube	0.0 nTPM

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

Basal keratinocytes	37.3 nTPM
Tongue	70.4 nTPM
Skin	4.1 nTPM

Bipolar cells	30.1 nTPM
Eye	30.1 nTPM

Cone photoreceptor cells	17.0 nTPM
Eye	17.0 nTPM

Plasma cells	0.2 nTPM
Stomach	0.8 nTPM
Salivary gland	0.4 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Thymus	0.0 nTPM
Fallopian tube	0.0 nTPM

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

Serous glandular cells	13.7 nTPM
Tongue	26.5 nTPM
Salivary gland	0.8 nTPM

Smooth muscle cells	7.4 nTPM
Salivary gland	103.4 nTPM
Tongue	5.7 nTPM
Skin	4.8 nTPM
Prostate	1.8 nTPM
Lung	1.2 nTPM
Fallopian tube	0.8 nTPM
Endometrium	0.3 nTPM
Vascular	0.2 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Thymus	0.0 nTPM
Breast	0.0 nTPM
Ovary	0.0 nTPM

Suprabasal keratinocytes	12.0 nTPM
Tongue	21.2 nTPM
Skin	2.7 nTPM

T-cells	0.8 nTPM
Tongue	11.7 nTPM
Skin	4.9 nTPM
Lung	0.3 nTPM
Salivary gland	0.2 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
Endometrium	0.0 nTPM
PBMC	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Prostate	0.0 nTPM
Thymus	0.0 nTPM
Vascular	0.0 nTPM
Breast	0.0 nTPM
Fallopian tube	0.0 nTPM

Undifferentiated cells	0.0 nTPM
Small intestine	0.1 nTPM
Colon	0.0 nTPM
Rectum	0.0 nTPM

Amygdala excitatory	5.7 nTPM
Cerebral cortex	12.4 nTPM
Hippocampus	8.2 nTPM
Amygdala	6.9 nTPM
Thalamus	3.2 nTPM
Hypothalamus	2.1 nTPM
Basal ganglia	1.3 nTPM

Astrocyte	144.6 nTPM
Cerebral cortex	488.5 nTPM
Amygdala	484.4 nTPM
Hippocampus	242.3 nTPM
Basal ganglia	228.4 nTPM
Hypothalamus	97.8 nTPM
Thalamus	35.0 nTPM
Medulla oblongata	11.1 nTPM
Spinal cord	1.5 nTPM
Midbrain	1.0 nTPM
Cerebellum	0.4 nTPM
Pons	0.3 nTPM

Bergmann glia	99.0 nTPM
Cerebellum	129.9 nTPM
Medulla oblongata	89.5 nTPM
Pons	77.7 nTPM

Central nervous system macrophage	1.2 nTPM
Amygdala	3.5 nTPM
Cerebral cortex	3.1 nTPM
Hippocampus	2.8 nTPM
Hypothalamus	1.8 nTPM
Thalamus	0.8 nTPM
Basal ganglia	0.4 nTPM
Pons	0.4 nTPM
Cerebellum	0.3 nTPM
Spinal cord	0.3 nTPM
Midbrain	0.2 nTPM
Medulla oblongata	0.1 nTPM

Cerebellar inhibitory	0.7 nTPM
Midbrain	1.2 nTPM
Pons	1.0 nTPM
Medulla oblongata	0.9 nTPM
Cerebellum	0.4 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	29.0 nTPM
Hypothalamus	39.3 nTPM
Amygdala	39.0 nTPM
Cerebral cortex	33.8 nTPM
Hippocampus	32.9 nTPM
Basal ganglia	30.1 nTPM
Midbrain	19.9 nTPM
Thalamus	8.1 nTPM

Choroid plexus epithelial cell	1.3 nTPM
Hippocampus	2.8 nTPM
Medulla oblongata	1.6 nTPM
Basal ganglia	0.7 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	2.9 nTPM
Hypothalamus	10.2 nTPM
Basal ganglia	6.0 nTPM
Thalamus	4.5 nTPM
Medulla oblongata	3.9 nTPM
Midbrain	3.4 nTPM
Amygdala	1.1 nTPM
Hippocampus	1.0 nTPM
Pons	0.9 nTPM
Cerebral cortex	0.6 nTPM
Cerebellum	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	1.2 nTPM
Hypothalamus	3.4 nTPM
Amygdala	1.2 nTPM
Basal ganglia	0.9 nTPM
Hippocampus	0.8 nTPM
Cerebral cortex	0.7 nTPM
Midbrain	0.0 nTPM

Deep-layer intratelencephalic	1.4 nTPM
Amygdala	3.3 nTPM
Basal ganglia	1.5 nTPM
Cerebral cortex	0.9 nTPM
Hypothalamus	0.8 nTPM
Hippocampus	0.6 nTPM

Deep-layer near-projecting	0.8 nTPM
Basal ganglia	1.6 nTPM
Hypothalamus	0.9 nTPM
Amygdala	0.7 nTPM
Cerebral cortex	0.7 nTPM
Hippocampus	0.3 nTPM

Eccentric medium spiny neuron	7.6 nTPM
Hippocampus	17.4 nTPM
Amygdala	13.7 nTPM
Cerebral cortex	6.7 nTPM
Thalamus	4.7 nTPM
Hypothalamus	2.0 nTPM
Basal ganglia	1.2 nTPM

Endothelial cell	1.5 nTPM
Cerebral cortex	7.0 nTPM
Amygdala	3.4 nTPM
Hippocampus	2.6 nTPM
Hypothalamus	1.2 nTPM
Medulla oblongata	1.0 nTPM
Basal ganglia	0.9 nTPM
Cerebellum	0.0 nTPM
Midbrain	0.0 nTPM
Pons	0.0 nTPM
Spinal cord	0.0 nTPM
Thalamus	0.0 nTPM