Single cell type - GREB1 - The Human Protein Atlas

GREB1

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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.	GREB1
Gene descriptionⁱ Full gene name according to HGNC.	Growth regulating estrogen receptor binding 1
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, Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	8

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.	Ovarian stromal cells - Transcription (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 (Ovarian stromal cells, Prostatic glandular cells, Granulosa cells, Peritubular cells, Inhibitory neurons)
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.	0.77
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 (Ovarian stromal cells, Prostatic glandular cells, Granulosa cells, Peritubular cells, Inhibitory neurons)

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

GREB1 is part of cluster 6 Ovarian stromal cells - Transcription with confidenceⁱ 1
188 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.
PWWP3B	PWWP domain containing 3B	0.8590	6
STAR	Steroidogenic acute regulatory protein	0.8319	6
NR5A1	Nuclear receptor subfamily 5 group A member 1	0.8227	6
PROK1	Prokineticin 1	0.8193	6
WFIKKN2	WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 2	0.8174	6
MCHR1	Melanin concentrating hormone receptor 1	0.8071	6
ENSG00000285218	Novel protein	0.8068	6
SIGLEC11	Sialic acid binding Ig like lectin 11	0.8016	6
LRRC17	Leucine rich repeat containing 17	0.8014	6
HTR1A	5-hydroxytryptamine receptor 1A	0.8006	6
TCF23	Transcription factor 23	0.7993	6
ARX	Aristaless related homeobox	0.7974	6
KLHDC8A	Kelch domain containing 8A	0.7813	6
LHX9	LIM homeobox 9	0.7793	6
ASIP	Agouti signaling protein	0.7760	6

Adipocytes	0.3 nTPM
Breast	0.7 nTPM
Adipose tissue	0.0 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	0.0 nTPM
Lung	0.0 nTPM

Astrocytes	19.2 nTPM
Brain	19.2 nTPM

B-cells	1.1 nTPM
Adipose tissue	14.0 nTPM
Lymph node	0.1 nTPM
Salivary gland	0.1 nTPM
Thymus	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	15.9 nTPM
Endometrium	32.8 nTPM
Fallopian tube	30.5 nTPM
Lung	0.2 nTPM
Bronchus	0.0 nTPM

Club cells	1.0 nTPM
Prostate	1.5 nTPM
Lung	1.4 nTPM
Bronchus	0.0 nTPM

Endothelial cells	3.4 nTPM
Ovary	39.8 nTPM
Prostate	4.6 nTPM
Breast	3.5 nTPM
Placenta	2.8 nTPM
Endometrium	2.4 nTPM
Testis	2.1 nTPM
Fallopian tube	1.2 nTPM
Heart muscle	1.1 nTPM
Skin	0.8 nTPM
Skeletal muscle	0.6 nTPM
Salivary gland	0.6 nTPM
Tongue	0.4 nTPM
Thymus	0.3 nTPM
Vascular	0.3 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM
Esophagus	0.0 nTPM
Lung	0.0 nTPM

Enteroendocrine cells	0.1 nTPM
Colon	0.4 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	7.1 nTPM
Fallopian tube	69.3 nTPM
Prostate	9.2 nTPM
Breast	5.7 nTPM
Skeletal muscle	4.6 nTPM
Skin	4.4 nTPM
Vascular	3.9 nTPM
Thymus	3.5 nTPM
Lung	3.2 nTPM
Stomach	2.9 nTPM
Adipose tissue	2.7 nTPM
Esophagus	1.5 nTPM
Pancreas	1.3 nTPM
Placenta	1.0 nTPM
Salivary gland	0.6 nTPM
Heart muscle	0.3 nTPM
Liver	0.0 nTPM

Granulocytes	3.1 nTPM
Tongue	4.9 nTPM
Fallopian tube	4.0 nTPM
Lung	0.5 nTPM

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

Lymphatic endothelial cells	20.9 nTPM
Ovary	38.2 nTPM
Fallopian tube	3.6 nTPM

Macrophages	0.8 nTPM
Skin	3.3 nTPM
Fallopian tube	2.8 nTPM
Adipose tissue	2.2 nTPM
Endometrium	1.8 nTPM
Breast	1.0 nTPM
Vascular	0.9 nTPM
Testis	0.6 nTPM
Thymus	0.6 nTPM
Lung	0.5 nTPM
Salivary gland	0.3 nTPM
Tongue	0.2 nTPM
Kidney	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Prostate	0.0 nTPM

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

Cholangiocytes	1.9 nTPM
Liver	1.9 nTPM

Excitatory neurons	14.5 nTPM
Brain	14.5 nTPM

Plasma cells	5.9 nTPM
Fallopian tube	46.0 nTPM
Stomach	0.8 nTPM
Thymus	0.5 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Salivary gland	0.0 nTPM

Schwann cells	4.2 nTPM
Esophagus	12.0 nTPM
Vascular	0.5 nTPM
Adipose tissue	0.0 nTPM

Serous glandular cells	0.2 nTPM
Salivary gland	0.3 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	5.0 nTPM
Ovary	25.5 nTPM
Fallopian tube	23.8 nTPM
Placenta	20.6 nTPM
Endometrium	7.6 nTPM
Prostate	0.6 nTPM
Breast	0.5 nTPM
Liver	0.4 nTPM
Skin	0.3 nTPM
Skeletal muscle	0.3 nTPM
Adipose tissue	0.2 nTPM
Vascular	0.1 nTPM
Esophagus	0.0 nTPM
Lung	0.0 nTPM
Salivary gland	0.0 nTPM
Thymus	0.0 nTPM
Tongue	0.0 nTPM

T-cells	1.2 nTPM
Endometrium	7.6 nTPM
Stomach	5.9 nTPM
Esophagus	2.4 nTPM
Prostate	1.5 nTPM
Skeletal muscle	1.1 nTPM
Fallopian tube	1.0 nTPM
Kidney	0.9 nTPM
Liver	0.9 nTPM
Lymph node	0.6 nTPM
Tongue	0.5 nTPM
Breast	0.5 nTPM
Skin	0.4 nTPM
Vascular	0.4 nTPM
Spleen	0.3 nTPM
PBMC	0.2 nTPM
Bone marrow	0.2 nTPM
Adipose tissue	0.1 nTPM
Colon	0.0 nTPM
Lung	0.0 nTPM
Salivary gland	0.0 nTPM
Thymus	0.0 nTPM

Undifferentiated cells	0.4 nTPM
Colon	0.8 nTPM
Small intestine	0.4 nTPM
Rectum	0.0 nTPM

Amygdala excitatory	57.5 nTPM
Thalamus	76.2 nTPM
Hippocampus	61.5 nTPM
Hypothalamus	61.1 nTPM
Cerebral cortex	53.5 nTPM
Amygdala	46.8 nTPM
Basal ganglia	46.0 nTPM

Astrocyte	70.4 nTPM
Midbrain	82.1 nTPM
Hippocampus	79.2 nTPM
Amygdala	77.3 nTPM
Spinal cord	74.8 nTPM
Thalamus	74.7 nTPM
Pons	66.6 nTPM
Hypothalamus	65.9 nTPM
Medulla oblongata	64.4 nTPM
Basal ganglia	64.2 nTPM
Cerebral cortex	62.6 nTPM
Cerebellum	62.3 nTPM

Bergmann glia	38.4 nTPM
Cerebellum	49.2 nTPM
Pons	40.3 nTPM
Medulla oblongata	25.6 nTPM

Central nervous system macrophage	5.6 nTPM
Amygdala	8.5 nTPM
Hypothalamus	7.3 nTPM
Cerebellum	6.5 nTPM
Basal ganglia	6.3 nTPM
Cerebral cortex	6.2 nTPM
Midbrain	4.8 nTPM
Thalamus	4.7 nTPM
Medulla oblongata	4.6 nTPM
Pons	4.6 nTPM
Spinal cord	4.4 nTPM
Hippocampus	4.1 nTPM

Cerebellar inhibitory	37.7 nTPM
Midbrain	50.4 nTPM
Medulla oblongata	43.5 nTPM
Pons	36.4 nTPM
Cerebellum	33.3 nTPM
Spinal cord	24.7 nTPM

Cge interneuron	60.3 nTPM
Midbrain	69.0 nTPM
Thalamus	61.8 nTPM
Cerebral cortex	61.6 nTPM
Hypothalamus	60.6 nTPM
Amygdala	59.7 nTPM
Basal ganglia	54.8 nTPM
Hippocampus	54.5 nTPM

Choroid plexus epithelial cell	11.0 nTPM
Medulla oblongata	16.4 nTPM
Basal ganglia	13.9 nTPM
Thalamus	8.2 nTPM
Hippocampus	5.5 nTPM

Committed oligodendrocyte precursor	36.7 nTPM
Cerebellum	53.9 nTPM
Midbrain	46.2 nTPM
Hippocampus	46.0 nTPM
Pons	40.7 nTPM
Spinal cord	40.5 nTPM
Hypothalamus	34.1 nTPM
Basal ganglia	33.9 nTPM
Medulla oblongata	29.7 nTPM
Cerebral cortex	29.1 nTPM
Thalamus	26.8 nTPM
Amygdala	22.6 nTPM

Deep-layer corticothalamic and 6b	47.1 nTPM
Amygdala	61.5 nTPM
Cerebral cortex	58.2 nTPM
Hypothalamus	53.9 nTPM
Hippocampus	42.0 nTPM
Basal ganglia	39.2 nTPM
Midbrain	27.7 nTPM

Deep-layer intratelencephalic	25.2 nTPM
Hypothalamus	31.0 nTPM
Hippocampus	30.7 nTPM
Cerebral cortex	24.6 nTPM
Amygdala	23.0 nTPM
Basal ganglia	16.7 nTPM

Deep-layer near-projecting	24.2 nTPM
Hypothalamus	29.1 nTPM
Cerebral cortex	25.0 nTPM
Hippocampus	25.0 nTPM
Basal ganglia	23.3 nTPM
Amygdala	18.7 nTPM

Eccentric medium spiny neuron	93.0 nTPM
Amygdala	100.3 nTPM
Cerebral cortex	99.1 nTPM
Hypothalamus	98.6 nTPM
Thalamus	88.8 nTPM
Basal ganglia	86.0 nTPM
Hippocampus	85.0 nTPM

Endothelial cell	12.8 nTPM
Amygdala	24.6 nTPM
Spinal cord	22.4 nTPM
Thalamus	14.7 nTPM
Medulla oblongata	12.3 nTPM
Cerebellum	10.8 nTPM
Hippocampus	9.9 nTPM
Hypothalamus	9.9 nTPM
Cerebral cortex	9.6 nTPM
Basal ganglia	9.3 nTPM
Midbrain	8.5 nTPM
Pons	8.1 nTPM

Ependymal cell	4.6 nTPM
Hypothalamus	11.6 nTPM
Midbrain	6.3 nTPM
Amygdala	5.7 nTPM
Basal ganglia	4.4 nTPM
Hippocampus	4.4 nTPM
Thalamus	4.0 nTPM
Medulla oblongata	2.6 nTPM
Pons	2.0 nTPM
Spinal cord	0.0 nTPM