Single cell type - TINCR - The Human Protein Atlas

TINCR

Search result

Field

Term

Cluster

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.	TINCR
Gene descriptionⁱ Full gene name according to HGNC.	TINCR ubiquitin domain containing
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.	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.	Extravillous trophoblasts - Unknown 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.	Cell type enhanced (Syncytiotrophoblasts, Extravillous trophoblasts, Cytotrophoblasts, Suprabasal keratinocytes)
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.	0.81
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.	Immune cell enhanced (basophil)
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 (Syncytiotrophoblasts, Extravillous trophoblasts, Cytotrophoblasts, Suprabasal keratinocytes)

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: Immune cell enhanced (basophil)
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

TINCR is part of cluster 4 Extravillous trophoblasts - Unknown function with confidenceⁱ 1
182 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.
DLX3	Distal-less homeobox 3	0.8974	4
CSH1	Chorionic somatomammotropin hormone 1	0.8538	4
GCM1	Glial cells missing transcription factor 1	0.8437	4
CYP11A1	Cytochrome P450 family 11 subfamily A member 1	0.8374	27
TFAP2A	Transcription factor AP-2 alpha	0.8251	24
GH2	Growth hormone 2	0.8222	27
HSD3B1	Hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 1	0.8194	27
LEP	Leptin	0.8061	27
HMGB3	High mobility group box 3	0.7998	4
PGF	Placental growth factor	0.7964	4
CGB5	Chorionic gonadotropin subunit beta 5	0.7739	27
GATA3	GATA binding protein 3	0.7602	4
FANCE	FA complementation group E	0.7589	4
BZW2	Basic leucine zipper and W2 domains 2	0.7559	4
CGB8	Chorionic gonadotropin subunit beta 8	0.7339	27

IMMUNE CELLS

TINCR is part of cluster 20 Non-specific - DNA binding with confidenceⁱ 0.93
266 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.
NPIPB3	Nuclear pore complex interacting protein family member B3	0.9762	20
GGTLC2	Gamma-glutamyltransferase light chain 2	0.9524	20
LENG8	Leukocyte receptor cluster member 8	0.9524	20
FAM240B	Family with sequence similarity 240 member B	0.9286	20
CDK13	Cyclin dependent kinase 13	0.9048	20
TMEM150C	Transmembrane protein 150C	0.9048	20
IGFL4	IGF like family member 4	0.9048	20
CCBE1	Collagen and calcium binding EGF domains 1	0.9048	20
ZMAT1	Zinc finger matrin-type 1	0.9048	20
CABYR	Calcium binding tyrosine phosphorylation regulated	0.9048	20
PNISR	PNN interacting serine and arginine rich protein	0.9048	20
USF3	Upstream transcription factor family member 3	0.8810	20
ACBD3	Acyl-CoA binding domain containing 3	0.8810	20
NPIPB13	Nuclear pore complex interacting protein family, member B13	0.8810	20
ZNF142	Zinc finger protein 142	0.8810	32

Adipocytes	1.6 nTPM
Breast	2.2 nTPM
Adipose tissue	1.0 nTPM

Alveolar cells type 1	4.0 nTPM
Lung	4.0 nTPM

Alveolar cells type 2	0.7 nTPM
Lung	0.7 nTPM

Astrocytes	0.3 nTPM
Brain	0.3 nTPM

B-cells	0.5 nTPM
Skin	5.1 nTPM
Adipose tissue	1.2 nTPM
Lymph node	0.4 nTPM
Salivary gland	0.3 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM
Thymus	0.0 nTPM

Ciliated cells	1.2 nTPM
Bronchus	2.8 nTPM
Endometrium	1.3 nTPM
Lung	0.7 nTPM
Fallopian tube	0.1 nTPM

Club cells	12.3 nTPM
Prostate	28.9 nTPM
Bronchus	4.4 nTPM
Lung	3.5 nTPM

Endothelial cells	3.6 nTPM
Tongue	37.9 nTPM
Skin	6.8 nTPM
Esophagus	5.6 nTPM
Skeletal muscle	2.7 nTPM
Ovary	2.3 nTPM
Placenta	1.7 nTPM
Testis	1.5 nTPM
Salivary gland	1.2 nTPM
Thymus	1.2 nTPM
Prostate	0.9 nTPM
Vascular	0.9 nTPM
Endometrium	0.8 nTPM
Fallopian tube	0.4 nTPM
Lung	0.3 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM
Breast	0.0 nTPM

Enteroendocrine cells	2.6 nTPM
Small intestine	3.4 nTPM
Rectum	3.4 nTPM
Colon	0.9 nTPM

Fibroblasts	1.5 nTPM
Placenta	9.6 nTPM
Skin	4.0 nTPM
Esophagus	2.3 nTPM
Skeletal muscle	1.7 nTPM
Breast	1.5 nTPM
Liver	1.2 nTPM
Lung	0.9 nTPM
Fallopian tube	0.8 nTPM
Thymus	0.6 nTPM
Vascular	0.4 nTPM
Adipose tissue	0.2 nTPM
Salivary gland	0.2 nTPM
Heart muscle	0.0 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM
Prostate	0.0 nTPM

Granulocytes	11.7 nTPM
Tongue	34.0 nTPM
Lung	1.0 nTPM
Fallopian tube	0.2 nTPM

Intestinal goblet cells	7.4 nTPM
Small intestine	7.7 nTPM
Rectum	7.6 nTPM
Colon	6.6 nTPM

Lymphatic endothelial cells	0.1 nTPM
Fallopian tube	0.2 nTPM
Ovary	0.0 nTPM

Macrophages	1.9 nTPM
Tongue	16.8 nTPM
Skin	5.6 nTPM
Breast	3.2 nTPM
Esophagus	2.6 nTPM
Skeletal muscle	1.9 nTPM
Bone marrow	1.0 nTPM
Spleen	1.0 nTPM
Kidney	0.9 nTPM
Salivary gland	0.8 nTPM
Adipose tissue	0.7 nTPM
Endometrium	0.6 nTPM
Vascular	0.5 nTPM
Thymus	0.4 nTPM
Lung	0.3 nTPM
Prostate	0.2 nTPM
Fallopian tube	0.1 nTPM
Testis	0.0 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	22.5 nTPM
Colon	36.2 nTPM
Small intestine	17.3 nTPM
Rectum	14.1 nTPM

Basal keratinocytes	77.8 nTPM
Skin	78.0 nTPM
Tongue	77.6 nTPM

Basal respiratory cells	6.4 nTPM
Bronchus	6.4 nTPM

Basal squamous epithelial cells	43.9 nTPM
Esophagus	43.9 nTPM

Bipolar cells	4.6 nTPM
Eye	4.6 nTPM

Plasma cells	0.3 nTPM
Salivary gland	1.3 nTPM
Fallopian tube	0.6 nTPM
Liver	0.5 nTPM
Thymus	0.2 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	0.7 nTPM
Adipose tissue	2.0 nTPM
Esophagus	0.0 nTPM
Vascular	0.0 nTPM

Serous glandular cells	8.9 nTPM
Tongue	17.7 nTPM
Salivary gland	0.2 nTPM

Smooth muscle cells	1.6 nTPM
Placenta	6.3 nTPM
Tongue	5.7 nTPM
Skin	3.1 nTPM
Esophagus	2.4 nTPM
Skeletal muscle	2.2 nTPM
Breast	1.4 nTPM
Liver	1.3 nTPM
Adipose tissue	1.1 nTPM
Endometrium	0.9 nTPM
Ovary	0.5 nTPM
Salivary gland	0.4 nTPM
Vascular	0.3 nTPM
Fallopian tube	0.3 nTPM
Thymus	0.2 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM

Suprabasal keratinocytes	127.7 nTPM
Skin	150.7 nTPM
Tongue	104.7 nTPM

T-cells	1.6 nTPM
Tongue	10.7 nTPM
Skin	4.6 nTPM
Breast	3.5 nTPM
Vascular	2.8 nTPM
Esophagus	2.4 nTPM
Colon	1.9 nTPM
Endometrium	1.2 nTPM
Lymph node	0.9 nTPM
Liver	0.8 nTPM
Skeletal muscle	0.8 nTPM
PBMC	0.7 nTPM
Adipose tissue	0.5 nTPM
Lung	0.5 nTPM
Stomach	0.4 nTPM
Prostate	0.4 nTPM
Spleen	0.3 nTPM
Thymus	0.2 nTPM
Fallopian tube	0.2 nTPM
Bone marrow	0.1 nTPM
Kidney	0.0 nTPM
Salivary gland	0.0 nTPM

Undifferentiated cells	0.7 nTPM
Colon	1.1 nTPM
Rectum	0.7 nTPM
Small intestine	0.2 nTPM

Amygdala excitatory	8.2 nTPM
Amygdala	10.1 nTPM
Hippocampus	9.6 nTPM
Basal ganglia	9.2 nTPM
Cerebral cortex	7.4 nTPM
Hypothalamus	7.2 nTPM
Thalamus	5.9 nTPM

Astrocyte	4.2 nTPM
Spinal cord	6.9 nTPM
Cerebellum	5.9 nTPM
Pons	4.8 nTPM
Thalamus	4.6 nTPM
Medulla oblongata	4.0 nTPM
Hippocampus	3.9 nTPM
Cerebral cortex	3.6 nTPM
Hypothalamus	3.5 nTPM
Midbrain	3.3 nTPM
Basal ganglia	3.1 nTPM
Amygdala	3.0 nTPM

Bergmann glia	3.7 nTPM
Cerebellum	5.4 nTPM
Medulla oblongata	4.3 nTPM
Pons	1.4 nTPM

Central nervous system macrophage	3.0 nTPM
Amygdala	4.0 nTPM
Thalamus	3.7 nTPM
Hippocampus	3.5 nTPM
Hypothalamus	3.3 nTPM
Cerebellum	3.2 nTPM
Cerebral cortex	3.2 nTPM
Midbrain	3.0 nTPM
Basal ganglia	2.7 nTPM
Pons	2.6 nTPM
Spinal cord	2.1 nTPM
Medulla oblongata	1.8 nTPM

Cerebellar inhibitory	3.6 nTPM
Cerebellum	7.3 nTPM
Medulla oblongata	4.6 nTPM
Pons	4.1 nTPM
Midbrain	2.2 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	8.7 nTPM
Cerebral cortex	10.9 nTPM
Basal ganglia	9.8 nTPM
Hippocampus	9.7 nTPM
Amygdala	8.7 nTPM
Hypothalamus	8.6 nTPM
Midbrain	7.3 nTPM
Thalamus	5.9 nTPM

Choroid plexus epithelial cell	0.4 nTPM
Medulla oblongata	1.2 nTPM
Basal ganglia	0.6 nTPM
Hippocampus	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	3.5 nTPM
Cerebellum	9.5 nTPM
Thalamus	5.2 nTPM
Hippocampus	4.1 nTPM
Spinal cord	3.7 nTPM
Hypothalamus	3.4 nTPM
Basal ganglia	3.3 nTPM
Pons	2.7 nTPM
Midbrain	2.5 nTPM
Amygdala	1.7 nTPM
Medulla oblongata	1.3 nTPM
Cerebral cortex	0.6 nTPM

Deep-layer corticothalamic and 6b	6.8 nTPM
Hypothalamus	10.6 nTPM
Amygdala	10.2 nTPM
Hippocampus	7.6 nTPM
Basal ganglia	5.7 nTPM
Cerebral cortex	5.7 nTPM
Midbrain	1.1 nTPM

Deep-layer intratelencephalic	9.5 nTPM
Hypothalamus	12.6 nTPM
Amygdala	12.5 nTPM
Basal ganglia	8.3 nTPM
Hippocampus	8.2 nTPM
Cerebral cortex	5.9 nTPM

Deep-layer near-projecting	4.7 nTPM
Hypothalamus	7.5 nTPM
Amygdala	5.2 nTPM
Cerebral cortex	4.2 nTPM
Basal ganglia	3.4 nTPM
Hippocampus	2.9 nTPM

Eccentric medium spiny neuron	9.0 nTPM
Amygdala	10.0 nTPM
Cerebral cortex	9.9 nTPM
Basal ganglia	9.6 nTPM
Hippocampus	9.1 nTPM
Hypothalamus	8.1 nTPM
Thalamus	7.3 nTPM

Endothelial cell	0.9 nTPM
Thalamus	3.4 nTPM
Amygdala	2.2 nTPM
Cerebral cortex	1.9 nTPM
Hippocampus	1.3 nTPM
Cerebellum	0.8 nTPM
Basal ganglia	0.0 nTPM
Hypothalamus	0.0 nTPM
Medulla oblongata	0.0 nTPM
Midbrain	0.0 nTPM
Pons	0.0 nTPM
Spinal cord	0.0 nTPM