Single cell type - UROD - The Human Protein Atlas

UROD

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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.	UROD
Gene descriptionⁱ Full gene name according to HGNC.	Uroporphyrinogen decarboxylase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Enzymes Human disease related genes Metabolic proteins Plasma proteins Potential drug targets
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.	11

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.	Erythroid cells - Oxygen transport (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 (Erythroid 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.	0.45
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.	Low immune cell specificity
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 enriched (Erythroid 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: 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: Low immune cell specificity
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

UROD is part of cluster 1 Erythroid cells - Oxygen transport with confidenceⁱ 1
138 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.
HMBS	Hydroxymethylbilane synthase	0.9320	1
FAM178B	Family with sequence similarity 178 member B	0.9249	1
C17orf99	Chromosome 17 open reading frame 99	0.9241	1
HBG2	Hemoglobin subunit gamma 2	0.9211	1
HBE1	Hemoglobin subunit epsilon 1	0.9207	1
FECH	Ferrochelatase	0.9206	1
ENSG00000284931	Novel protein	0.9200	1
AHSP	Alpha hemoglobin stabilizing protein	0.9185	1
KLF1	KLF transcription factor 1	0.9182	1
HBZ	Hemoglobin subunit zeta	0.9173	1
HBG1	Hemoglobin subunit gamma 1	0.9161	1
EPB42	Erythrocyte membrane protein band 4.2	0.9153	1
GYPA	Glycophorin A (MNS blood group)	0.9148	1
CR1L	Complement C3b/C4b receptor 1 like	0.9127	1
RHAG	Rh associated glycoprotein	0.9110	1

IMMUNE CELLS

UROD is part of cluster 10 Non-specific - Membrane trafficking with confidenceⁱ 0.87
408 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.
PSMB7	Proteasome 20S subunit beta 7	1.0000	10
CHCHD5	Coiled-coil-helix-coiled-coil-helix domain containing 5	0.9762	10
WDR18	WD repeat domain 18	0.9524	13
TUFM	Tu translation elongation factor, mitochondrial	0.9524	13
CCDC86	Coiled-coil domain containing 86	0.9524	13
VDAC3	Voltage dependent anion channel 3	0.9286	10
EID1	EP300 interacting inhibitor of differentiation 1	0.9286	10
COX5A	Cytochrome c oxidase subunit 5A	0.9286	13
SF3B5	Splicing factor 3b subunit 5	0.9286	10
COX7A2	Cytochrome c oxidase subunit 7A2	0.9286	10
ERAL1	Era like 12S mitochondrial rRNA chaperone 1	0.9048	13
EIF2B4	Eukaryotic translation initiation factor 2B subunit delta	0.9048	10
UBL7	Ubiquitin like 7	0.9048	10
NDUFB10	NADH:ubiquinone oxidoreductase subunit B10	0.9048	10
SAT2	Spermidine/spermine N1-acetyltransferase family member 2	0.9048	2

Adipocytes	27.0 nTPM
Adipose tissue	27.1 nTPM
Breast	26.9 nTPM

Alveolar cells type 1	25.0 nTPM
Lung	25.0 nTPM

Alveolar cells type 2	30.0 nTPM
Lung	30.0 nTPM

Astrocytes	7.4 nTPM
Brain	7.4 nTPM

B-cells	22.8 nTPM
Liver	33.8 nTPM
Skin	32.2 nTPM
Kidney	31.2 nTPM
Stomach	25.7 nTPM
Thymus	24.9 nTPM
Spleen	23.7 nTPM
Bone marrow	22.3 nTPM
PBMC	20.0 nTPM
Lymph node	20.0 nTPM
Salivary gland	19.5 nTPM
Lung	18.8 nTPM
Adipose tissue	13.2 nTPM
Esophagus	11.8 nTPM

Ciliated cells	28.9 nTPM
Bronchus	37.7 nTPM
Fallopian tube	31.6 nTPM
Lung	25.3 nTPM
Endometrium	20.8 nTPM

Club cells	39.1 nTPM
Bronchus	65.7 nTPM
Prostate	26.5 nTPM
Lung	25.1 nTPM

Dendritic cells	22.3 nTPM
PBMC	32.4 nTPM
Adipose tissue	12.2 nTPM

Endothelial cells	39.8 nTPM
Heart muscle	94.5 nTPM
Placenta	68.1 nTPM
Pancreas	67.2 nTPM
Breast	47.5 nTPM
Testis	44.0 nTPM
Ovary	39.3 nTPM
Thymus	38.1 nTPM
Liver	36.5 nTPM
Esophagus	36.2 nTPM
Tongue	31.9 nTPM
Skeletal muscle	30.3 nTPM
Fallopian tube	28.7 nTPM
Skin	26.5 nTPM
Endometrium	26.4 nTPM
Lung	26.3 nTPM
Salivary gland	26.3 nTPM
Vascular	25.1 nTPM
Prostate	23.8 nTPM

Enteroendocrine cells	19.9 nTPM
Colon	24.0 nTPM
Rectum	18.4 nTPM
Small intestine	17.2 nTPM

Erythroid cells	599.8 nTPM
Liver	916.0 nTPM
Bone marrow	283.6 nTPM

Fibroblasts	53.9 nTPM
Pancreas	112.7 nTPM
Heart muscle	76.5 nTPM
Placenta	75.4 nTPM
Esophagus	64.2 nTPM
Adipose tissue	58.5 nTPM
Breast	55.2 nTPM
Skeletal muscle	48.4 nTPM
Skin	46.3 nTPM
Lung	46.1 nTPM
Thymus	43.7 nTPM
Stomach	43.2 nTPM
Fallopian tube	42.5 nTPM
Liver	41.5 nTPM
Vascular	38.8 nTPM
Prostate	37.0 nTPM
Salivary gland	32.1 nTPM

Granulocytes	23.2 nTPM
Lung	30.3 nTPM
Fallopian tube	20.0 nTPM
Tongue	19.4 nTPM

Intestinal goblet cells	20.9 nTPM
Small intestine	24.1 nTPM
Rectum	19.3 nTPM
Colon	19.2 nTPM

Lymphatic endothelial cells	54.1 nTPM
Ovary	65.5 nTPM
Fallopian tube	42.7 nTPM

Basal keratinocytes	29.3 nTPM
Tongue	39.6 nTPM
Skin	19.0 nTPM

Basal prostatic cells	29.1 nTPM
Prostate	29.1 nTPM

Basal respiratory cells	100.2 nTPM
Bronchus	100.2 nTPM

Basal squamous epithelial cells	38.3 nTPM
Esophagus	38.3 nTPM

Macrophages	35.5 nTPM
Pancreas	102.8 nTPM
Lung	60.1 nTPM
Kidney	38.9 nTPM
Thymus	38.3 nTPM
Prostate	37.6 nTPM
Esophagus	37.2 nTPM
Testis	35.3 nTPM
Vascular	35.0 nTPM
Breast	33.6 nTPM
Stomach	30.9 nTPM
Salivary gland	28.8 nTPM
Tongue	28.3 nTPM
Spleen	26.1 nTPM
Fallopian tube	25.9 nTPM
Skeletal muscle	25.5 nTPM
Endometrium	24.6 nTPM
Skin	24.5 nTPM
Adipose tissue	21.2 nTPM
Bone marrow	19.3 nTPM

Paneth cells	26.9 nTPM
Colon	36.2 nTPM
Rectum	23.8 nTPM
Small intestine	20.7 nTPM

Plasma cells	39.3 nTPM
Esophagus	52.0 nTPM
Stomach	50.3 nTPM
Liver	49.1 nTPM
Thymus	38.1 nTPM
Fallopian tube	32.2 nTPM
Spleen	32.0 nTPM
Salivary gland	31.8 nTPM
Bone marrow	28.7 nTPM

Schwann cells	29.9 nTPM
Esophagus	35.9 nTPM
Adipose tissue	29.3 nTPM
Vascular	24.6 nTPM

Serous glandular cells	61.4 nTPM
Salivary gland	69.8 nTPM
Tongue	53.0 nTPM

Smooth muscle cells	43.7 nTPM
Placenta	88.5 nTPM
Esophagus	66.1 nTPM
Fallopian tube	57.9 nTPM
Thymus	49.0 nTPM
Ovary	48.1 nTPM
Lung	47.0 nTPM
Liver	42.5 nTPM
Skin	41.4 nTPM
Skeletal muscle	41.3 nTPM
Adipose tissue	36.1 nTPM
Endometrium	32.3 nTPM
Breast	32.2 nTPM
Vascular	30.8 nTPM
Prostate	29.8 nTPM
Tongue	29.0 nTPM
Salivary gland	27.8 nTPM

Suprabasal keratinocytes	33.4 nTPM
Tongue	44.9 nTPM
Skin	21.9 nTPM

T-cells	19.2 nTPM
Kidney	36.4 nTPM
Liver	27.3 nTPM
Bone marrow	25.5 nTPM
Colon	24.4 nTPM
Skin	22.4 nTPM
Spleen	22.2 nTPM
Thymus	21.3 nTPM
PBMC	21.1 nTPM
Stomach	20.4 nTPM
Esophagus	19.5 nTPM
Salivary gland	19.1 nTPM
Lymph node	18.8 nTPM
Skeletal muscle	18.1 nTPM
Breast	18.1 nTPM
Lung	15.7 nTPM
Tongue	14.7 nTPM
Adipose tissue	13.9 nTPM
Prostate	12.5 nTPM
Endometrium	12.4 nTPM
Fallopian tube	10.9 nTPM
Vascular	9.2 nTPM

Undifferentiated cells	24.5 nTPM
Colon	32.8 nTPM
Small intestine	22.5 nTPM
Rectum	18.1 nTPM

Amygdala excitatory	8.1 nTPM
Basal ganglia	10.9 nTPM
Cerebral cortex	8.5 nTPM
Hippocampus	8.0 nTPM
Amygdala	7.8 nTPM
Thalamus	7.7 nTPM
Hypothalamus	5.3 nTPM

Astrocyte	13.1 nTPM
Pons	16.3 nTPM
Cerebral cortex	15.7 nTPM
Cerebellum	15.6 nTPM
Midbrain	14.4 nTPM
Thalamus	13.6 nTPM
Hippocampus	13.3 nTPM
Basal ganglia	13.0 nTPM
Spinal cord	12.5 nTPM
Medulla oblongata	12.3 nTPM
Hypothalamus	9.3 nTPM
Amygdala	8.5 nTPM

Bergmann glia	13.8 nTPM
Pons	17.3 nTPM
Cerebellum	13.6 nTPM
Medulla oblongata	10.7 nTPM

Central nervous system macrophage	10.7 nTPM
Spinal cord	13.5 nTPM
Cerebral cortex	13.2 nTPM
Thalamus	11.8 nTPM
Cerebellum	11.7 nTPM
Midbrain	11.4 nTPM
Hippocampus	11.1 nTPM
Medulla oblongata	10.5 nTPM
Pons	10.0 nTPM
Basal ganglia	9.9 nTPM
Hypothalamus	9.1 nTPM
Amygdala	5.9 nTPM

Cerebellar inhibitory	15.0 nTPM
Spinal cord	16.5 nTPM
Pons	15.9 nTPM
Midbrain	14.3 nTPM
Medulla oblongata	14.2 nTPM
Cerebellum	14.0 nTPM

Cge interneuron	11.5 nTPM
Thalamus	16.0 nTPM
Midbrain	14.3 nTPM
Basal ganglia	12.5 nTPM
Cerebral cortex	11.8 nTPM
Hippocampus	10.9 nTPM
Amygdala	8.7 nTPM
Hypothalamus	6.4 nTPM

Choroid plexus epithelial cell	9.7 nTPM
Hippocampus	11.1 nTPM
Medulla oblongata	10.8 nTPM
Basal ganglia	8.7 nTPM
Thalamus	8.2 nTPM

Committed oligodendrocyte precursor	12.2 nTPM
Medulla oblongata	18.1 nTPM
Basal ganglia	16.4 nTPM
Midbrain	15.1 nTPM
Cerebral cortex	13.3 nTPM
Pons	13.3 nTPM
Amygdala	12.4 nTPM
Thalamus	11.5 nTPM
Spinal cord	11.0 nTPM
Cerebellum	9.5 nTPM
Hippocampus	7.8 nTPM
Hypothalamus	5.5 nTPM

Deep-layer corticothalamic and 6b	11.1 nTPM
Midbrain	16.6 nTPM
Basal ganglia	13.7 nTPM
Cerebral cortex	12.9 nTPM
Hippocampus	10.5 nTPM
Amygdala	8.9 nTPM
Hypothalamus	3.9 nTPM

Deep-layer intratelencephalic	10.0 nTPM
Basal ganglia	13.8 nTPM
Cerebral cortex	12.8 nTPM
Hippocampus	9.1 nTPM
Amygdala	8.7 nTPM
Hypothalamus	5.4 nTPM

Deep-layer near-projecting	11.5 nTPM
Cerebral cortex	14.4 nTPM
Hippocampus	14.3 nTPM
Basal ganglia	13.2 nTPM
Amygdala	9.6 nTPM
Hypothalamus	5.8 nTPM