Single cell type - CD34 - The Human Protein Atlas

CD34

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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.	CD34
Gene descriptionⁱ Full gene name according to HGNC.	CD34 molecule
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	CD markers
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
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.	Adipocytes & Endothelial cells - Mixed 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 (Adipocytes, Endothelial cells, Mesothelial cells, Leydig cells, Fibroblasts, Peritubular 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.	0.79
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 enriched (Endothelial cell)
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 (Adipocytes, Endothelial cells, Mesothelial cells, Leydig cells, Fibroblasts, Peritubular 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 enriched (Endothelial cell)

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

CD34 is part of cluster 41 Adipocytes & Endothelial cells - Mixed function with confidenceⁱ 1
325 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.
CLEC14A	C-type lectin domain containing 14A	0.8588	41
ARHGEF15	Rho guanine nucleotide exchange factor 15	0.8166	41
VWF	Von Willebrand factor	0.8031	41
CYYR1	Cysteine and tyrosine rich 1	0.7996	41
MMRN2	Multimerin 2	0.7865	41
SPRY1	Sprouty RTK signaling antagonist 1	0.7844	41
MEOX1	Mesenchyme homeobox 1	0.7839	41
VEGFC	Vascular endothelial growth factor C	0.7544	41
ADGRL4	Adhesion G protein-coupled receptor L4	0.7505	41
SOX18	SRY-box transcription factor 18	0.7417	41
AQP1	Aquaporin 1 (Colton blood group)	0.7388	41
HSPA12B	Heat shock protein family A (Hsp70) member 12B	0.7313	41
SEMA3G	Semaphorin 3G	0.7296	41
APOL3	Apolipoprotein L3	0.7289	41
EMCN	Endomucin	0.7265	41

Adipocytes	297.5 nTPM
Adipose tissue	346.8 nTPM
Breast	248.3 nTPM

Alveolar cells type 1	0.5 nTPM
Lung	0.5 nTPM

Alveolar cells type 2	0.4 nTPM
Lung	0.4 nTPM

Astrocytes	1.5 nTPM
Brain	1.5 nTPM

B-cells	2.9 nTPM
Kidney	10.4 nTPM
Skin	8.5 nTPM
Thymus	8.0 nTPM
Liver	4.8 nTPM
Adipose tissue	3.3 nTPM
Spleen	1.1 nTPM
Salivary gland	0.9 nTPM
Lymph node	0.8 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	1.3 nTPM
Fallopian tube	3.3 nTPM
Endometrium	1.0 nTPM
Lung	0.5 nTPM
Bronchus	0.4 nTPM

Club cells	0.6 nTPM
Lung	1.1 nTPM
Prostate	0.5 nTPM
Bronchus	0.1 nTPM

Endothelial cells	252.1 nTPM
Testis	663.6 nTPM
Skin	433.2 nTPM
Placenta	422.9 nTPM
Ovary	348.0 nTPM
Vascular	286.7 nTPM
Fallopian tube	274.3 nTPM
Endometrium	270.0 nTPM
Thymus	266.2 nTPM
Esophagus	261.2 nTPM
Skeletal muscle	261.1 nTPM
Salivary gland	209.6 nTPM
Heart muscle	209.4 nTPM
Tongue	196.7 nTPM
Prostate	148.8 nTPM
Lung	93.9 nTPM
Liver	93.2 nTPM
Pancreas	64.6 nTPM
Breast	35.2 nTPM

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

Fibroblasts	121.6 nTPM
Adipose tissue	386.4 nTPM
Esophagus	202.6 nTPM
Skeletal muscle	196.9 nTPM
Thymus	193.8 nTPM
Heart muscle	166.1 nTPM
Vascular	157.7 nTPM
Stomach	148.4 nTPM
Fallopian tube	108.4 nTPM
Skin	106.7 nTPM
Salivary gland	106.6 nTPM
Breast	97.3 nTPM
Lung	34.4 nTPM
Prostate	24.4 nTPM
Liver	15.4 nTPM
Placenta	0.4 nTPM
Pancreas	0.4 nTPM

Granulocytes	1.5 nTPM
Fallopian tube	4.0 nTPM
Lung	0.5 nTPM
Tongue	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	58.6 nTPM
Ovary	92.7 nTPM
Fallopian tube	24.4 nTPM

Macrophages	3.3 nTPM
Vascular	11.2 nTPM
Thymus	11.1 nTPM
Skeletal muscle	9.4 nTPM
Esophagus	6.4 nTPM
Skin	5.6 nTPM
Testis	3.7 nTPM
Breast	3.1 nTPM
Fallopian tube	2.2 nTPM
Adipose tissue	2.0 nTPM
Salivary gland	2.0 nTPM
Endometrium	1.8 nTPM
Prostate	1.4 nTPM
Bone marrow	1.0 nTPM
Kidney	0.9 nTPM
Lung	0.3 nTPM
Tongue	0.3 nTPM
Pancreas	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

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

Basal keratinocytes	4.3 nTPM
Skin	5.8 nTPM
Tongue	2.8 nTPM

Basal prostatic cells	2.6 nTPM
Prostate	2.6 nTPM

Basal squamous epithelial cells	3.5 nTPM
Esophagus	3.5 nTPM

Cholangiocytes	1.9 nTPM
Liver	1.9 nTPM

Plasma cells	2.6 nTPM
Fallopian tube	9.3 nTPM
Thymus	7.3 nTPM
Salivary gland	2.7 nTPM
Liver	1.5 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	1.6 nTPM
Vascular	4.7 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	5.7 nTPM
Salivary gland	11.4 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	23.3 nTPM
Liver	202.1 nTPM
Skeletal muscle	56.2 nTPM
Adipose tissue	32.7 nTPM
Tongue	19.8 nTPM
Vascular	9.9 nTPM
Skin	8.4 nTPM
Thymus	7.3 nTPM
Breast	7.3 nTPM
Endometrium	5.9 nTPM
Fallopian tube	5.5 nTPM
Ovary	4.4 nTPM
Placenta	3.9 nTPM
Esophagus	3.6 nTPM
Salivary gland	2.3 nTPM
Prostate	1.8 nTPM
Lung	1.2 nTPM

T-cells	1.8 nTPM
Skin	8.4 nTPM
Skeletal muscle	5.3 nTPM
Vascular	4.4 nTPM
Prostate	2.6 nTPM
Endometrium	2.5 nTPM
Adipose tissue	2.5 nTPM
Breast	2.4 nTPM
Salivary gland	1.9 nTPM
Tongue	1.5 nTPM
Lung	1.3 nTPM
Liver	1.1 nTPM
Fallopian tube	1.0 nTPM
Stomach	0.7 nTPM
Thymus	0.6 nTPM
Lymph node	0.5 nTPM
Bone marrow	0.5 nTPM
Spleen	0.3 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM

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

Amygdala excitatory	0.2 nTPM
Cerebral cortex	0.5 nTPM
Basal ganglia	0.3 nTPM
Hippocampus	0.3 nTPM
Amygdala	0.1 nTPM
Hypothalamus	0.1 nTPM
Thalamus	0.0 nTPM

Astrocyte	0.2 nTPM
Spinal cord	0.4 nTPM
Hypothalamus	0.3 nTPM
Basal ganglia	0.2 nTPM
Cerebral cortex	0.2 nTPM
Medulla oblongata	0.2 nTPM
Amygdala	0.1 nTPM
Cerebellum	0.1 nTPM
Hippocampus	0.1 nTPM
Midbrain	0.1 nTPM
Pons	0.1 nTPM
Thalamus	0.1 nTPM

Bergmann glia	0.6 nTPM
Pons	1.4 nTPM
Cerebellum	0.2 nTPM
Medulla oblongata	0.0 nTPM

Central nervous system macrophage	0.3 nTPM
Spinal cord	0.9 nTPM
Hypothalamus	0.8 nTPM
Medulla oblongata	0.5 nTPM
Amygdala	0.1 nTPM
Basal ganglia	0.1 nTPM
Cerebral cortex	0.1 nTPM
Hippocampus	0.1 nTPM
Pons	0.1 nTPM
Cerebellum	0.0 nTPM
Midbrain	0.0 nTPM
Thalamus	0.0 nTPM

Cerebellar inhibitory	0.3 nTPM
Medulla oblongata	0.7 nTPM
Midbrain	0.3 nTPM
Cerebellum	0.2 nTPM
Pons	0.1 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	0.2 nTPM
Amygdala	0.2 nTPM
Basal ganglia	0.2 nTPM
Cerebral cortex	0.2 nTPM
Hippocampus	0.2 nTPM
Hypothalamus	0.2 nTPM
Thalamus	0.2 nTPM
Midbrain	0.0 nTPM

Choroid plexus epithelial cell	0.0 nTPM
Basal ganglia	0.1 nTPM
Hippocampus	0.0 nTPM
Medulla oblongata	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	0.0 nTPM
Basal ganglia	0.5 nTPM
Amygdala	0.0 nTPM
Cerebellum	0.0 nTPM
Cerebral cortex	0.0 nTPM
Hippocampus	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
Thalamus	0.0 nTPM

Deep-layer corticothalamic and 6b	0.1 nTPM
Basal ganglia	0.2 nTPM
Cerebral cortex	0.2 nTPM
Amygdala	0.1 nTPM
Hippocampus	0.1 nTPM
Hypothalamus	0.0 nTPM
Midbrain	0.0 nTPM

Deep-layer intratelencephalic	0.1 nTPM
Cerebral cortex	0.2 nTPM
Hippocampus	0.2 nTPM
Amygdala	0.1 nTPM
Basal ganglia	0.1 nTPM
Hypothalamus	0.0 nTPM

Deep-layer near-projecting	0.0 nTPM
Cerebral cortex	0.2 nTPM
Amygdala	0.0 nTPM
Basal ganglia	0.0 nTPM
Hippocampus	0.0 nTPM
Hypothalamus	0.0 nTPM

Eccentric medium spiny neuron	0.1 nTPM
Cerebral cortex	0.2 nTPM
Amygdala	0.1 nTPM
Basal ganglia	0.1 nTPM
Thalamus	0.1 nTPM
Hippocampus	0.0 nTPM
Hypothalamus	0.0 nTPM

Endothelial cell	241.9 nTPM
Cerebellum	295.8 nTPM
Thalamus	270.5 nTPM
Hippocampus	260.3 nTPM
Midbrain	255.2 nTPM
Amygdala	251.5 nTPM
Pons	245.3 nTPM
Spinal cord	245.1 nTPM
Basal ganglia	238.6 nTPM
Cerebral cortex	230.2 nTPM
Medulla oblongata	189.7 nTPM
Hypothalamus	178.7 nTPM

Ependymal cell	0.0 nTPM
Basal ganglia	0.2 nTPM
Medulla oblongata	0.2 nTPM
Amygdala	0.0 nTPM
Hippocampus	0.0 nTPM
Hypothalamus	0.0 nTPM
Midbrain	0.0 nTPM
Pons	0.0 nTPM
Spinal cord	0.0 nTPM
Thalamus	0.0 nTPM