Single cell type - PIGP - The Human Protein Atlas

PIGP

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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.	PIGP
Gene descriptionⁱ Full gene name according to HGNC.	Phosphatidylinositol glycan anchor biosynthesis class P
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes Metabolic proteins
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.	6

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.	Spermatocytes & Spermatogonia - Spermatogenesis (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 (Spermatocytes)
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.	0.37
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 enhanced (Spermatocytes)

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

PIGP is part of cluster 79 Spermatocytes & Spermatogonia - Spermatogenesis with confidenceⁱ 1
176 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.
C1orf146	Chromosome 1 open reading frame 146	0.6017	79
ZCWPW1	Zinc finger CW-type and PWWP domain containing 1	0.5995	79
CCDC73	Coiled-coil domain containing 73	0.5984	79
PRDM9	PR/SET domain 9	0.5983	79
CCNB3	Cyclin B3	0.5976	79
FTHL17	Ferritin heavy chain like 17	0.5835	79
C18orf63	Chromosome 18 open reading frame 63	0.5807	79
FAM9B	Family with sequence similarity 9 member B	0.5774	79
HUS1B	HUS1 checkpoint clamp component B	0.5753	79
PRR23A	Proline rich 23A	0.5739	79
TOPAZ1	Testis and ovary specific TOPAZ 1	0.5703	79
ENSG00000277535	Novel cancer/testis antigen family protein	0.5699	79
SMC1B	Structural maintenance of chromosomes 1B	0.5691	79
MEIOB	Meiosis specific with OB-fold	0.5687	79
MAJIN	Membrane anchored junction protein	0.5681	79

IMMUNE CELLS

PIGP is part of cluster 30 Non-specific - DNA binding with confidenceⁱ 0.99
263 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.
EXD2	Exonuclease 3'-5' domain containing 2	1.0000	30
C4BPB	Complement component 4 binding protein beta	1.0000	30
C1orf159	Chromosome 1 open reading frame 159	1.0000	30
TARBP1	TAR (HIV-1) RNA binding protein 1	0.9762	30
TMEM276	Transmembrane protein 276	0.9762	30
C17orf50	Chromosome 17 open reading frame 50	0.9762	30
SDHAF1	Succinate dehydrogenase complex assembly factor 1	0.9762	30
PFDN6	Prefoldin subunit 6	0.9762	30
SDHAF3	Succinate dehydrogenase complex assembly factor 3	0.9762	30
TIGD6	Tigger transposable element derived 6	0.9762	30
CARMIL2	Capping protein regulator and myosin 1 linker 2	0.9762	30
POLR1G	RNA polymerase I subunit G	0.9762	30
APEX1	Apurinic/apyrimidinic endodeoxyribonuclease 1	0.9762	30
ESD	Esterase D	0.9524	13
PMEPA1	Prostate transmembrane protein, androgen induced 1	0.9524	13

Adipocytes	36.6 nTPM
Breast	46.0 nTPM
Adipose tissue	27.3 nTPM

Alveolar cells type 1	43.9 nTPM
Lung	43.9 nTPM

Alveolar cells type 2	65.3 nTPM
Lung	65.3 nTPM

Astrocytes	9.3 nTPM
Brain	9.3 nTPM

B-cells	34.1 nTPM
Lung	48.3 nTPM
PBMC	46.2 nTPM
Spleen	37.0 nTPM
Kidney	36.4 nTPM
Skin	33.9 nTPM
Liver	33.8 nTPM
Lymph node	32.8 nTPM
Thymus	32.4 nTPM
Salivary gland	31.9 nTPM
Esophagus	29.5 nTPM
Adipose tissue	29.2 nTPM
Stomach	29.1 nTPM
Bone marrow	22.2 nTPM

Ciliated cells	70.0 nTPM
Bronchus	93.7 nTPM
Lung	71.8 nTPM
Endometrium	71.3 nTPM
Fallopian tube	43.3 nTPM

Club cells	68.7 nTPM
Bronchus	87.1 nTPM
Lung	59.6 nTPM
Prostate	59.5 nTPM

Dendritic cells	27.7 nTPM
PBMC	43.2 nTPM
Adipose tissue	12.2 nTPM

Endothelial cells	30.7 nTPM
Breast	58.9 nTPM
Heart muscle	39.8 nTPM
Placenta	39.2 nTPM
Prostate	38.4 nTPM
Liver	36.5 nTPM
Testis	33.6 nTPM
Ovary	31.4 nTPM
Pancreas	31.0 nTPM
Skeletal muscle	30.7 nTPM
Esophagus	30.6 nTPM
Lung	28.3 nTPM
Endometrium	25.4 nTPM
Skin	24.6 nTPM
Fallopian tube	23.3 nTPM
Thymus	21.0 nTPM
Tongue	20.4 nTPM
Vascular	19.7 nTPM
Salivary gland	19.6 nTPM

Enteroendocrine cells	60.1 nTPM
Small intestine	79.0 nTPM
Colon	52.7 nTPM
Rectum	48.6 nTPM

Fibroblasts	45.7 nTPM
Breast	68.3 nTPM
Esophagus	66.3 nTPM
Heart muscle	58.0 nTPM
Adipose tissue	54.7 nTPM
Skeletal muscle	51.4 nTPM
Lung	50.8 nTPM
Prostate	48.8 nTPM
Pancreas	45.2 nTPM
Stomach	44.7 nTPM
Vascular	39.8 nTPM
Placenta	38.1 nTPM
Skin	37.6 nTPM
Thymus	37.2 nTPM
Fallopian tube	36.2 nTPM
Salivary gland	29.7 nTPM
Liver	23.7 nTPM

Granulocytes	15.3 nTPM
Lung	24.2 nTPM
Fallopian tube	11.9 nTPM
Tongue	9.7 nTPM

Intestinal goblet cells	58.4 nTPM
Rectum	83.9 nTPM
Colon	54.9 nTPM
Small intestine	36.3 nTPM

Lymphatic endothelial cells	33.4 nTPM
Ovary	38.2 nTPM
Fallopian tube	28.7 nTPM

Macrophages	41.8 nTPM
Lung	89.3 nTPM
Testis	83.1 nTPM
Pancreas	61.7 nTPM
Prostate	53.5 nTPM
Breast	49.6 nTPM
Kidney	47.8 nTPM
Bone marrow	43.6 nTPM
Spleen	40.1 nTPM
Skeletal muscle	38.1 nTPM
Adipose tissue	37.3 nTPM
Endometrium	35.7 nTPM
Skin	35.7 nTPM
Tongue	30.2 nTPM
Salivary gland	27.5 nTPM
Stomach	25.7 nTPM
Esophagus	24.4 nTPM
Fallopian tube	24.2 nTPM
Thymus	24.1 nTPM
Vascular	22.1 nTPM

Basal prostatic cells	66.2 nTPM
Prostate	66.2 nTPM

Basal squamous epithelial cells	41.9 nTPM
Esophagus	41.9 nTPM

Bipolar cells	17.2 nTPM
Eye	17.2 nTPM

Cholangiocytes	42.0 nTPM
Liver	42.0 nTPM

Paneth cells	45.6 nTPM
Rectum	59.7 nTPM
Small intestine	51.8 nTPM
Colon	25.3 nTPM

Plasma cells	51.4 nTPM
Stomach	85.0 nTPM
Fallopian tube	65.6 nTPM
Esophagus	62.4 nTPM
Spleen	50.3 nTPM
Liver	43.6 nTPM
Salivary gland	37.2 nTPM
Thymus	35.5 nTPM
Bone marrow	31.7 nTPM

Schwann cells	58.0 nTPM
Esophagus	83.9 nTPM
Vascular	48.1 nTPM
Adipose tissue	42.2 nTPM

Serous glandular cells	65.0 nTPM
Salivary gland	90.2 nTPM
Tongue	39.8 nTPM

Smooth muscle cells	46.2 nTPM
Placenta	74.3 nTPM
Prostate	74.2 nTPM
Breast	64.6 nTPM
Ovary	52.6 nTPM
Skin	46.4 nTPM
Salivary gland	46.2 nTPM
Skeletal muscle	46.1 nTPM
Vascular	42.0 nTPM
Adipose tissue	41.6 nTPM
Liver	41.2 nTPM
Fallopian tube	39.5 nTPM
Tongue	38.3 nTPM
Lung	36.4 nTPM
Esophagus	34.8 nTPM
Thymus	30.5 nTPM
Endometrium	29.8 nTPM

Suprabasal keratinocytes	32.5 nTPM
Tongue	40.1 nTPM
Skin	24.8 nTPM

T-cells	29.2 nTPM
PBMC	60.4 nTPM
Prostate	38.6 nTPM
Kidney	36.4 nTPM
Liver	36.2 nTPM
Breast	34.1 nTPM
Stomach	33.3 nTPM
Colon	31.2 nTPM
Lymph node	31.1 nTPM
Lung	30.6 nTPM
Esophagus	29.2 nTPM
Spleen	28.6 nTPM
Skin	27.7 nTPM
Bone marrow	26.8 nTPM
Thymus	25.8 nTPM
Salivary gland	24.7 nTPM
Endometrium	24.5 nTPM
Fallopian tube	23.9 nTPM
Skeletal muscle	22.7 nTPM
Adipose tissue	17.7 nTPM
Tongue	16.3 nTPM
Vascular	13.3 nTPM

Undifferentiated cells	61.5 nTPM
Rectum	77.0 nTPM
Small intestine	62.5 nTPM
Colon	45.1 nTPM

Amygdala excitatory	10.8 nTPM
Hypothalamus	11.9 nTPM
Hippocampus	11.7 nTPM
Amygdala	10.4 nTPM
Thalamus	10.4 nTPM
Basal ganglia	10.3 nTPM
Cerebral cortex	9.8 nTPM

Astrocyte	21.5 nTPM
Thalamus	23.8 nTPM
Cerebellum	23.4 nTPM
Midbrain	23.1 nTPM
Amygdala	23.0 nTPM
Cerebral cortex	22.6 nTPM
Hypothalamus	21.8 nTPM
Medulla oblongata	20.6 nTPM
Basal ganglia	20.0 nTPM
Pons	20.0 nTPM
Hippocampus	19.9 nTPM
Spinal cord	18.2 nTPM

Bergmann glia	23.2 nTPM
Medulla oblongata	27.7 nTPM
Pons	24.5 nTPM
Cerebellum	17.3 nTPM

Central nervous system macrophage	15.5 nTPM
Amygdala	19.2 nTPM
Midbrain	18.1 nTPM
Thalamus	16.1 nTPM
Pons	15.8 nTPM
Basal ganglia	15.5 nTPM
Hippocampus	15.3 nTPM
Medulla oblongata	15.1 nTPM
Spinal cord	14.4 nTPM
Hypothalamus	14.0 nTPM
Cerebellum	13.8 nTPM
Cerebral cortex	13.2 nTPM

Cerebellar inhibitory	14.1 nTPM
Medulla oblongata	17.7 nTPM
Pons	16.5 nTPM
Cerebellum	14.7 nTPM
Spinal cord	11.0 nTPM
Midbrain	10.6 nTPM

Cge interneuron	13.6 nTPM
Midbrain	15.8 nTPM
Thalamus	15.8 nTPM
Basal ganglia	14.0 nTPM
Cerebral cortex	13.7 nTPM
Hippocampus	13.6 nTPM
Amygdala	12.0 nTPM
Hypothalamus	10.5 nTPM

Choroid plexus epithelial cell	18.9 nTPM
Hippocampus	22.2 nTPM
Basal ganglia	19.8 nTPM
Medulla oblongata	17.2 nTPM
Thalamus	16.4 nTPM

Committed oligodendrocyte precursor	20.9 nTPM
Medulla oblongata	33.6 nTPM
Midbrain	27.7 nTPM
Basal ganglia	22.4 nTPM
Thalamus	22.3 nTPM
Spinal cord	22.1 nTPM
Pons	21.2 nTPM
Hypothalamus	20.5 nTPM
Cerebral cortex	17.1 nTPM
Hippocampus	16.3 nTPM
Amygdala	14.1 nTPM
Cerebellum	12.7 nTPM

Deep-layer corticothalamic and 6b	12.2 nTPM
Midbrain	16.6 nTPM
Basal ganglia	11.8 nTPM
Cerebral cortex	11.7 nTPM
Amygdala	11.4 nTPM
Hypothalamus	11.2 nTPM
Hippocampus	10.5 nTPM

Deep-layer intratelencephalic	10.6 nTPM
Hippocampus	12.0 nTPM
Cerebral cortex	11.2 nTPM
Hypothalamus	10.6 nTPM
Basal ganglia	10.0 nTPM
Amygdala	9.1 nTPM

Deep-layer near-projecting	11.1 nTPM
Hippocampus	16.9 nTPM
Cerebral cortex	11.7 nTPM
Basal ganglia	11.6 nTPM
Hypothalamus	9.0 nTPM
Amygdala	6.2 nTPM

Eccentric medium spiny neuron	14.0 nTPM
Hypothalamus	16.6 nTPM
Basal ganglia	14.7 nTPM
Hippocampus	14.1 nTPM
Amygdala	13.8 nTPM
Cerebral cortex	12.6 nTPM
Thalamus	12.4 nTPM