Single cell type - LPIN3 - The Human Protein Atlas

LPIN3

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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.	LPIN3
Gene descriptionⁱ Full gene name according to HGNC.	Lipin 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes 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.	Intracellular
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.	Late spermatids - 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 (Late spermatids, Proximal enterocytes)
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.	0.68
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 enhanced (Fibroblast, Choroid plexus epithelial 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.	Immune cell enhanced (NK-cell)
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 (Late spermatids, Proximal enterocytes)

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 enhanced (Fibroblast, Choroid plexus epithelial 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: Immune cell enhanced (NK-cell)
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

LPIN3 is part of cluster 63 Late spermatids - Spermatogenesis with confidenceⁱ 1
383 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.
NFILZ	NFIL3 like basic leucine zipper	0.7481	63
CLCN1	Chloride voltage-gated channel 1	0.7451	63
FAM187B	Family with sequence similarity 187 member B	0.7421	63
TMEM269	Transmembrane protein 269	0.7397	63
OR1J4	Olfactory receptor family 1 subfamily J member 4	0.7392	63
H2AB1	H2A.B variant histone 1	0.7273	63
OR5M11	Olfactory receptor family 5 subfamily M member 11	0.7184	63
P3R3URF	PIK3R3 upstream open reading frame	0.7145	63
KRT74	Keratin 74	0.7141	63
FAM161B	FAM161 centrosomal protein B	0.7113	63
CDRT4	CMT1A duplicated region transcript 4	0.7024	63
PRM3	Protamine 3	0.7000	63
C20orf141	Chromosome 20 open reading frame 141	0.6899	63
OR52L1	Olfactory receptor family 52 subfamily L member 1	0.6897	63
ARL9	ADP ribosylation factor like GTPase 9	0.6877	63

Adipocytes	6.8 nTPM
Adipose tissue	7.9 nTPM
Breast	5.7 nTPM

Alveolar cells type 1	8.4 nTPM
Lung	8.4 nTPM

Alveolar cells type 2	5.0 nTPM
Lung	5.0 nTPM

Astrocytes	11.5 nTPM
Brain	11.5 nTPM

B-cells	0.6 nTPM
Skin	6.8 nTPM
Thymus	0.4 nTPM
Salivary gland	0.3 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	7.0 nTPM
Endometrium	9.9 nTPM
Bronchus	9.6 nTPM
Fallopian tube	4.6 nTPM
Lung	3.8 nTPM

Club cells	9.7 nTPM
Prostate	11.0 nTPM
Lung	9.2 nTPM
Bronchus	8.7 nTPM

Endothelial cells	3.8 nTPM
Skin	8.6 nTPM
Tongue	8.1 nTPM
Liver	7.6 nTPM
Testis	6.1 nTPM
Prostate	6.0 nTPM
Vascular	5.8 nTPM
Thymus	5.2 nTPM
Skeletal muscle	4.5 nTPM
Ovary	4.3 nTPM
Endometrium	2.8 nTPM
Esophagus	2.1 nTPM
Lung	1.8 nTPM
Breast	1.8 nTPM
Fallopian tube	1.8 nTPM
Salivary gland	1.4 nTPM
Placenta	0.6 nTPM
Heart muscle	0.1 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	17.0 nTPM
Small intestine	20.6 nTPM
Colon	17.1 nTPM
Rectum	13.4 nTPM

Fibroblasts	10.2 nTPM
Skin	22.0 nTPM
Breast	22.0 nTPM
Adipose tissue	19.6 nTPM
Placenta	14.2 nTPM
Skeletal muscle	13.1 nTPM
Prostate	11.2 nTPM
Vascular	10.5 nTPM
Lung	9.6 nTPM
Thymus	9.3 nTPM
Fallopian tube	8.3 nTPM
Salivary gland	6.2 nTPM
Pancreas	5.8 nTPM
Esophagus	4.9 nTPM
Liver	3.6 nTPM
Heart muscle	1.8 nTPM
Stomach	1.4 nTPM

Granulocytes	0.1 nTPM
Fallopian tube	0.4 nTPM
Lung	0.0 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	26.2 nTPM
Small intestine	50.7 nTPM
Rectum	17.5 nTPM
Colon	10.6 nTPM

Lymphatic endothelial cells	2.8 nTPM
Ovary	5.5 nTPM
Fallopian tube	0.2 nTPM

Macrophages	1.8 nTPM
Esophagus	6.4 nTPM
Skin	4.5 nTPM
Vascular	3.7 nTPM
Thymus	3.5 nTPM
Tongue	3.1 nTPM
Salivary gland	2.3 nTPM
Testis	1.9 nTPM
Kidney	1.8 nTPM
Breast	1.8 nTPM
Prostate	1.4 nTPM
Endometrium	1.2 nTPM
Lung	1.1 nTPM
Fallopian tube	0.6 nTPM
Adipose tissue	0.5 nTPM
Skeletal muscle	0.2 nTPM
Pancreas	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	27.6 nTPM
Small intestine	38.0 nTPM
Rectum	23.1 nTPM
Colon	21.7 nTPM

Basal keratinocytes	12.9 nTPM
Skin	15.5 nTPM
Tongue	10.4 nTPM

Basal prostatic cells	11.1 nTPM
Prostate	11.1 nTPM

Basal respiratory cells	9.8 nTPM
Bronchus	9.8 nTPM

Cholangiocytes	11.4 nTPM
Liver	11.4 nTPM

Plasma cells	0.9 nTPM
Liver	2.5 nTPM
Salivary gland	1.8 nTPM
Fallopian tube	1.6 nTPM
Thymus	0.7 nTPM
Spleen	0.2 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	5.3 nTPM
Vascular	13.1 nTPM
Adipose tissue	2.7 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	4.8 nTPM
Salivary gland	9.7 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	9.5 nTPM
Skin	17.8 nTPM
Breast	13.2 nTPM
Lung	12.9 nTPM
Prostate	12.2 nTPM
Adipose tissue	11.8 nTPM
Thymus	11.8 nTPM
Salivary gland	10.0 nTPM
Skeletal muscle	9.5 nTPM
Vascular	9.3 nTPM
Placenta	7.8 nTPM
Fallopian tube	7.6 nTPM
Ovary	7.4 nTPM
Tongue	6.3 nTPM
Endometrium	5.6 nTPM
Liver	5.1 nTPM
Esophagus	3.6 nTPM

Suprabasal keratinocytes	20.0 nTPM
Tongue	26.8 nTPM
Skin	13.2 nTPM

T-cells	0.8 nTPM
Skin	5.3 nTPM
Tongue	2.2 nTPM
Endometrium	2.0 nTPM
Kidney	1.8 nTPM
Liver	1.3 nTPM
Breast	1.1 nTPM
Colon	1.0 nTPM
Salivary gland	0.6 nTPM
Prostate	0.5 nTPM
Vascular	0.4 nTPM
Fallopian tube	0.3 nTPM
PBMC	0.2 nTPM
Lymph node	0.2 nTPM
Thymus	0.2 nTPM
Adipose tissue	0.1 nTPM
Stomach	0.1 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Lung	0.0 nTPM

Undifferentiated cells	14.4 nTPM
Small intestine	22.0 nTPM
Rectum	12.1 nTPM
Colon	9.0 nTPM

Amygdala excitatory	0.4 nTPM
Hypothalamus	1.0 nTPM
Thalamus	0.5 nTPM
Basal ganglia	0.4 nTPM
Amygdala	0.3 nTPM
Cerebral cortex	0.3 nTPM
Hippocampus	0.2 nTPM

Astrocyte	11.7 nTPM
Hippocampus	23.6 nTPM
Cerebral cortex	21.5 nTPM
Spinal cord	16.7 nTPM
Amygdala	13.0 nTPM
Basal ganglia	11.3 nTPM
Medulla oblongata	11.3 nTPM
Cerebellum	7.5 nTPM
Hypothalamus	7.4 nTPM
Thalamus	6.1 nTPM
Pons	5.5 nTPM
Midbrain	4.3 nTPM

Bergmann glia	15.3 nTPM
Cerebellum	18.8 nTPM
Pons	14.4 nTPM
Medulla oblongata	12.8 nTPM

Central nervous system macrophage	4.9 nTPM
Pons	6.5 nTPM
Spinal cord	6.5 nTPM
Basal ganglia	6.3 nTPM
Midbrain	5.8 nTPM
Thalamus	5.2 nTPM
Cerebellum	4.9 nTPM
Cerebral cortex	4.9 nTPM
Hippocampus	4.3 nTPM
Amygdala	3.8 nTPM
Hypothalamus	3.2 nTPM
Medulla oblongata	2.9 nTPM

Cerebellar inhibitory	0.4 nTPM
Pons	0.8 nTPM
Medulla oblongata	0.6 nTPM
Cerebellum	0.3 nTPM
Midbrain	0.3 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	0.3 nTPM
Basal ganglia	0.4 nTPM
Hippocampus	0.4 nTPM
Hypothalamus	0.3 nTPM
Midbrain	0.3 nTPM
Thalamus	0.3 nTPM
Amygdala	0.2 nTPM
Cerebral cortex	0.2 nTPM

Choroid plexus epithelial cell	22.6 nTPM
Hippocampus	25.0 nTPM
Medulla oblongata	22.2 nTPM
Thalamus	21.9 nTPM
Basal ganglia	21.3 nTPM

Committed oligodendrocyte precursor	1.0 nTPM
Medulla oblongata	2.6 nTPM
Midbrain	2.5 nTPM
Basal ganglia	2.2 nTPM
Pons	1.8 nTPM
Thalamus	1.1 nTPM
Cerebral cortex	0.6 nTPM
Hippocampus	0.3 nTPM
Amygdala	0.0 nTPM
Cerebellum	0.0 nTPM
Hypothalamus	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	1.7 nTPM
Hippocampus	3.9 nTPM
Hypothalamus	2.8 nTPM
Basal ganglia	1.5 nTPM
Cerebral cortex	1.3 nTPM
Amygdala	1.0 nTPM
Midbrain	0.0 nTPM

Deep-layer intratelencephalic	0.4 nTPM
Basal ganglia	0.9 nTPM
Cerebral cortex	0.4 nTPM
Hypothalamus	0.4 nTPM
Hippocampus	0.3 nTPM
Amygdala	0.2 nTPM

Deep-layer near-projecting	18.6 nTPM
Basal ganglia	31.8 nTPM
Cerebral cortex	18.6 nTPM
Hypothalamus	17.8 nTPM
Amygdala	14.6 nTPM
Hippocampus	10.4 nTPM

Eccentric medium spiny neuron	0.6 nTPM
Hippocampus	1.2 nTPM
Cerebral cortex	0.8 nTPM
Basal ganglia	0.7 nTPM
Thalamus	0.5 nTPM
Amygdala	0.4 nTPM
Hypothalamus	0.3 nTPM

Endothelial cell	12.2 nTPM
Midbrain	18.0 nTPM
Hypothalamus	14.9 nTPM
Cerebellum	14.7 nTPM
Cerebral cortex	14.7 nTPM
Medulla oblongata	13.3 nTPM
Thalamus	13.0 nTPM
Basal ganglia	11.2 nTPM
Hippocampus	11.2 nTPM
Pons	10.0 nTPM
Amygdala	7.8 nTPM
Spinal cord	5.2 nTPM