Single cell type - HAX1 - The Human Protein Atlas

HAX1

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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.	HAX1
Gene descriptionⁱ Full gene name according to HGNC.	HCLS1 associated protein X-1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes
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.	14

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.	Plasma cells - Protein processing (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.	Low cell type specificity
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.	0.21
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: Low cell type specificity

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

HAX1 is part of cluster 77 Plasma cells - Protein processing with confidenceⁱ 1
324 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.
SDF2L1	Stromal cell derived factor 2 like 1	0.5414	77
SURF1	SURF1 cytochrome c oxidase assembly factor	0.5321	39
MRPL40	Mitochondrial ribosomal protein L40	0.5299	39
MEI1	Meiotic double-stranded break formation protein 1	0.5211	77
CD27	CD27 molecule	0.5166	77
LAX1	Lymphocyte transmembrane adaptor 1	0.5146	30
RPL36AL	Ribosomal protein L36a like	0.5142	64
SEC11C	SEC11 homolog C, signal peptidase complex subunit	0.5019	77
NOL7	Nucleolar protein 7	0.4964	39
ZBTB8OS	Zinc finger and BTB domain containing 8 opposite strand	0.4919	58
SSR3	Signal sequence receptor subunit 3	0.4836	77
CDC26	Cell division cycle 26	0.4817	39
CCDC163	CCDC163 homolog	0.4744	61
TMEM126A	Transmembrane protein 126A	0.4664	39
SELENOK	Selenoprotein K	0.4643	30

IMMUNE CELLS

HAX1 is part of cluster 42 Non-specific - Vesicular transport with confidenceⁱ 0.99
519 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.
PDCD1LG2	Programmed cell death 1 ligand 2	0.9762	42
NKRF	NFKB repressing factor	0.9762	5
TBCCD1	TBCC domain containing 1	0.9762	42
SUPT7L	SPT7 like, STAGA complex subunit gamma	0.9762	42
MEAK7	MTOR associated protein, eak-7 homolog	0.9762	42
ABT1	Activator of basal transcription 1	0.9762	42
CEP120	Centrosomal protein 120	0.9762	42
CDKN2AIP	CDKN2A interacting protein	0.9762	42
MORC3	MORC family CW-type zinc finger 3	0.9524	42
MUC1	Mucin 1, cell surface associated	0.9524	5
GCNT4	Glucosaminyl (N-acetyl) transferase 4	0.9524	5
PHF8	PHD finger protein 8	0.9524	5
HPGD	15-hydroxyprostaglandin dehydrogenase	0.9524	42
SAFB	Scaffold attachment factor B	0.9524	42
IL17RB	Interleukin 17 receptor B	0.9524	5

Adipocytes	67.9 nTPM
Breast	91.3 nTPM
Adipose tissue	44.5 nTPM

Alveolar cells type 1	62.8 nTPM
Lung	62.8 nTPM

Alveolar cells type 2	92.3 nTPM
Lung	92.3 nTPM

Astrocytes	6.8 nTPM
Brain	6.8 nTPM

B-cells	91.4 nTPM
Liver	130.4 nTPM
Lung	112.7 nTPM
Kidney	109.2 nTPM
Lymph node	101.4 nTPM
Stomach	100.8 nTPM
Spleen	94.2 nTPM
Adipose tissue	93.4 nTPM
PBMC	92.4 nTPM
Salivary gland	88.1 nTPM
Skin	86.4 nTPM
Bone marrow	79.4 nTPM
Thymus	76.9 nTPM
Esophagus	23.6 nTPM

Ciliated cells	66.0 nTPM
Lung	81.7 nTPM
Bronchus	73.5 nTPM
Fallopian tube	67.8 nTPM
Endometrium	41.2 nTPM

Club cells	77.1 nTPM
Bronchus	92.0 nTPM
Lung	76.5 nTPM
Prostate	62.9 nTPM

Dendritic cells	53.9 nTPM
PBMC	64.8 nTPM
Adipose tissue	43.0 nTPM

Endothelial cells	65.3 nTPM
Breast	90.5 nTPM
Fallopian tube	89.8 nTPM
Skin	81.7 nTPM
Pancreas	80.1 nTPM
Placenta	78.3 nTPM
Esophagus	78.1 nTPM
Lung	76.9 nTPM
Ovary	72.2 nTPM
Tongue	65.9 nTPM
Testis	62.6 nTPM
Skeletal muscle	59.5 nTPM
Prostate	58.3 nTPM
Heart muscle	58.2 nTPM
Thymus	55.4 nTPM
Liver	49.1 nTPM
Salivary gland	44.2 nTPM
Vascular	41.7 nTPM
Endometrium	33.0 nTPM

Enteroendocrine cells	72.6 nTPM
Small intestine	92.7 nTPM
Colon	73.1 nTPM
Rectum	52.0 nTPM

Fibroblasts	67.4 nTPM
Pancreas	158.7 nTPM
Breast	79.0 nTPM
Heart muscle	78.6 nTPM
Lung	76.2 nTPM
Esophagus	75.1 nTPM
Fallopian tube	70.4 nTPM
Prostate	65.3 nTPM
Skeletal muscle	59.6 nTPM
Adipose tissue	59.5 nTPM
Placenta	59.3 nTPM
Thymus	57.4 nTPM
Skin	54.2 nTPM
Vascular	53.9 nTPM
Salivary gland	50.6 nTPM
Liver	40.3 nTPM
Stomach	40.3 nTPM

Granulocytes	171.0 nTPM
Lung	211.8 nTPM
Fallopian tube	165.3 nTPM
Tongue	135.8 nTPM

Intestinal goblet cells	69.6 nTPM
Colon	83.2 nTPM
Small intestine	67.3 nTPM
Rectum	58.2 nTPM

Lymphatic endothelial cells	48.5 nTPM
Fallopian tube	69.7 nTPM
Ovary	27.3 nTPM

Macrophages	64.2 nTPM
Breast	152.1 nTPM
Lung	114.5 nTPM
Pancreas	92.5 nTPM
Kidney	75.2 nTPM
Esophagus	71.9 nTPM
Prostate	70.2 nTPM
Spleen	63.2 nTPM
Skeletal muscle	61.6 nTPM
Adipose tissue	59.5 nTPM
Tongue	56.1 nTPM
Fallopian tube	52.9 nTPM
Testis	51.5 nTPM
Skin	51.3 nTPM
Endometrium	49.2 nTPM
Thymus	46.5 nTPM
Bone marrow	43.6 nTPM
Salivary gland	43.5 nTPM
Vascular	35.7 nTPM
Stomach	28.3 nTPM

Basal prostatic cells	83.7 nTPM
Prostate	83.7 nTPM

Basal respiratory cells	120.3 nTPM
Bronchus	120.3 nTPM

Basal squamous epithelial cells	59.4 nTPM
Esophagus	59.4 nTPM

Bipolar cells	56.2 nTPM
Eye	56.2 nTPM

Paneth cells	73.1 nTPM
Small intestine	86.3 nTPM
Colon	68.8 nTPM
Rectum	64.1 nTPM

Plasma cells	209.5 nTPM
Liver	283.4 nTPM
Spleen	253.6 nTPM
Fallopian tube	239.0 nTPM
Esophagus	233.9 nTPM
Stomach	203.1 nTPM
Thymus	197.3 nTPM
Bone marrow	143.5 nTPM
Salivary gland	122.2 nTPM

Schwann cells	41.1 nTPM
Adipose tissue	50.4 nTPM
Vascular	37.1 nTPM
Esophagus	35.9 nTPM

Serous glandular cells	99.6 nTPM
Salivary gland	106.3 nTPM
Tongue	92.8 nTPM

Smooth muscle cells	74.4 nTPM
Ovary	104.3 nTPM
Breast	102.6 nTPM
Lung	101.1 nTPM
Fallopian tube	99.8 nTPM
Prostate	82.1 nTPM
Liver	75.1 nTPM
Placenta	74.1 nTPM
Skin	73.2 nTPM
Vascular	68.4 nTPM
Esophagus	67.3 nTPM
Thymus	67.3 nTPM
Skeletal muscle	64.9 nTPM
Tongue	61.1 nTPM
Salivary gland	61.0 nTPM
Adipose tissue	49.0 nTPM
Endometrium	39.3 nTPM

Suprabasal keratinocytes	93.8 nTPM
Tongue	113.0 nTPM
Skin	74.6 nTPM

T-cells	100.6 nTPM
Colon	169.6 nTPM
Breast	133.0 nTPM
Thymus	121.1 nTPM
Lymph node	119.6 nTPM
Lung	116.6 nTPM
PBMC	116.4 nTPM
Salivary gland	112.8 nTPM
Liver	107.9 nTPM
Fallopian tube	104.2 nTPM
Skin	101.3 nTPM
Spleen	100.2 nTPM
Prostate	98.2 nTPM
Kidney	97.5 nTPM
Esophagus	92.5 nTPM
Tongue	86.3 nTPM
Stomach	85.0 nTPM
Adipose tissue	84.0 nTPM
Bone marrow	76.9 nTPM
Skeletal muscle	71.8 nTPM
Vascular	68.3 nTPM
Endometrium	48.7 nTPM

Undifferentiated cells	79.0 nTPM
Colon	91.3 nTPM
Small intestine	78.0 nTPM
Rectum	67.8 nTPM

Amygdala excitatory	20.3 nTPM
Thalamus	28.1 nTPM
Basal ganglia	24.9 nTPM
Hippocampus	22.1 nTPM
Cerebral cortex	20.6 nTPM
Amygdala	18.0 nTPM
Hypothalamus	8.2 nTPM

Astrocyte	16.0 nTPM
Pons	19.5 nTPM
Medulla oblongata	18.4 nTPM
Cerebral cortex	18.3 nTPM
Midbrain	17.6 nTPM
Thalamus	17.0 nTPM
Basal ganglia	16.4 nTPM
Hippocampus	15.9 nTPM
Cerebellum	15.8 nTPM
Spinal cord	13.8 nTPM
Hypothalamus	11.9 nTPM
Amygdala	11.7 nTPM

Bergmann glia	23.0 nTPM
Medulla oblongata	25.6 nTPM
Cerebellum	21.9 nTPM
Pons	21.6 nTPM

Central nervous system macrophage	18.1 nTPM
Pons	21.3 nTPM
Cerebral cortex	20.9 nTPM
Cerebellum	20.4 nTPM
Basal ganglia	19.1 nTPM
Spinal cord	19.1 nTPM
Medulla oblongata	19.0 nTPM
Hippocampus	18.5 nTPM
Midbrain	17.3 nTPM
Thalamus	16.2 nTPM
Hypothalamus	15.6 nTPM
Amygdala	12.1 nTPM

Cerebellar inhibitory	24.6 nTPM
Pons	30.6 nTPM
Medulla oblongata	26.5 nTPM
Cerebellum	23.0 nTPM
Spinal cord	22.0 nTPM
Midbrain	20.8 nTPM

Cge interneuron	26.6 nTPM
Midbrain	34.2 nTPM
Basal ganglia	31.4 nTPM
Thalamus	30.2 nTPM
Cerebral cortex	28.3 nTPM
Hippocampus	28.1 nTPM
Amygdala	22.4 nTPM
Hypothalamus	11.4 nTPM

Choroid plexus epithelial cell	16.2 nTPM
Hippocampus	25.0 nTPM
Medulla oblongata	17.7 nTPM
Thalamus	16.4 nTPM
Basal ganglia	5.7 nTPM

Committed oligodendrocyte precursor	17.9 nTPM
Medulla oblongata	32.3 nTPM
Pons	28.3 nTPM
Midbrain	26.0 nTPM
Cerebral cortex	20.3 nTPM
Thalamus	17.3 nTPM
Basal ganglia	16.4 nTPM
Spinal cord	14.7 nTPM
Hippocampus	13.2 nTPM
Cerebellum	12.7 nTPM
Hypothalamus	8.2 nTPM
Amygdala	7.3 nTPM

Deep-layer corticothalamic and 6b	20.3 nTPM
Midbrain	31.1 nTPM
Basal ganglia	27.5 nTPM
Cerebral cortex	21.1 nTPM
Hippocampus	19.5 nTPM
Amygdala	17.1 nTPM
Hypothalamus	5.5 nTPM

Deep-layer intratelencephalic	20.4 nTPM
Basal ganglia	29.2 nTPM
Hippocampus	24.3 nTPM
Cerebral cortex	23.2 nTPM
Amygdala	18.8 nTPM
Hypothalamus	6.3 nTPM

Deep-layer near-projecting	23.5 nTPM
Hippocampus	40.3 nTPM
Basal ganglia	32.9 nTPM
Cerebral cortex	23.0 nTPM
Amygdala	14.8 nTPM
Hypothalamus	6.4 nTPM

Eccentric medium spiny neuron	20.1 nTPM
Hypothalamus	23.2 nTPM
Basal ganglia	22.3 nTPM
Cerebral cortex	20.6 nTPM
Amygdala	18.8 nTPM
Thalamus	18.5 nTPM
Hippocampus	17.4 nTPM