Single cell type - PIK3C3 - The Human Protein Atlas

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.	PIK3C3
Gene descriptionⁱ Full gene name according to HGNC.	Phosphatidylinositol 3-kinase catalytic subunit type 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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. Read more	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	8

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. Read more	Neurons & Oligodendrocytes - Neuronal signaling (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. Read more	Cell type enhanced (Oligodendrocytes, Excitatory neurons, Inhibitory neurons)
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. Read more	Low immune cell specificity
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in all
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Cell type enhanced (Oligodendrocytes, Excitatory neurons, Inhibitory neurons)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

PIK3C3 is part of cluster 21 Neurons & Oligodendrocytes - Neuronal signaling with confidenceⁱ 1
589 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
GTDC1	Glycosyltransferase like domain containing 1	0.6072	42
RAPGEF5	Rap guanine nucleotide exchange factor 5	0.5713	42
PTPRK	Protein tyrosine phosphatase receptor type K	0.5539	21
FSTL4	Follistatin like 4	0.5452	21
NECAB1	N-terminal EF-hand calcium binding protein 1	0.5427	21
ZNF365	Zinc finger protein 365	0.5353	21
CDKL5	Cyclin dependent kinase like 5	0.5305	21
BTBD9	BTB domain containing 9	0.5261	21
EPHX4	Epoxide hydrolase 4	0.5241	21
LDB2	LIM domain binding 2	0.5225	21
WDPCP	WD repeat containing planar cell polarity effector	0.5217	42
HHAT	Hedgehog acyltransferase	0.5177	21
ARHGEF7	Rho guanine nucleotide exchange factor 7	0.5161	21
ITPR1	Inositol 1,4,5-trisphosphate receptor type 1	0.5142	21
KCNH1	Potassium voltage-gated channel subfamily H member 1	0.5046	21

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	22.4 nTPM
Adipose tissue	25.6 nTPM
Breast	19.1 nTPM

Alveolar cells type 1	22.4 nTPM
Lung	22.4 nTPM

Alveolar cells type 2	36.9 nTPM
Lung	36.9 nTPM

Astrocytes	70.2 nTPM
Brain	70.2 nTPM

B-cells	21.1 nTPM
Stomach	32.2 nTPM
Lymph node	28.5 nTPM
PBMC	27.1 nTPM
Spleen	23.9 nTPM
Kidney	23.8 nTPM
Bone marrow	22.1 nTPM
Adipose tissue	17.1 nTPM
Colon	16.0 nTPM
Liver	11.8 nTPM
Breast	8.1 nTPM

Dendritic cells	26.8 nTPM
Adipose tissue	32.4 nTPM
PBMC	27.9 nTPM
Breast	20.0 nTPM

Endothelial cells	19.9 nTPM
Lung	24.9 nTPM
Testis	24.3 nTPM
Skeletal muscle	23.9 nTPM
Esophagus	21.3 nTPM
Prostate	21.0 nTPM
Heart muscle	20.6 nTPM
Endometrium	20.1 nTPM
Ovary	20.1 nTPM
Eye	19.4 nTPM
Pancreas	19.3 nTPM
Liver	18.3 nTPM
Breast	17.2 nTPM
Placenta	15.9 nTPM
Skin	12.8 nTPM

Fibroblasts	22.4 nTPM
Lung	41.3 nTPM
Heart muscle	34.1 nTPM
Stomach	28.2 nTPM
Skeletal muscle	23.0 nTPM
Prostate	19.6 nTPM
Esophagus	19.4 nTPM
Adipose tissue	18.7 nTPM
Placenta	17.5 nTPM
Breast	17.4 nTPM
Ovary	14.6 nTPM
Skin	11.8 nTPM

Intestinal goblet cells	11.5 nTPM
Rectum	15.0 nTPM
Small intestine	11.0 nTPM
Colon	8.5 nTPM

Macrophages	20.9 nTPM
Lung	41.2 nTPM
Bone marrow	27.5 nTPM
Spleen	27.0 nTPM
Stomach	26.4 nTPM
Esophagus	25.2 nTPM
Adipose tissue	22.5 nTPM
Ovary	22.4 nTPM
Endometrium	21.5 nTPM
Skeletal muscle	18.4 nTPM
Testis	16.9 nTPM
Kidney	16.6 nTPM
Breast	13.9 nTPM
PBMC	13.6 nTPM
Pancreas	12.8 nTPM
Prostate	8.1 nTPM

Paneth cells	10.0 nTPM
Small intestine	18.8 nTPM
Rectum	11.1 nTPM
Colon	0.0 nTPM

Plasma cells	18.2 nTPM
Adipose tissue	32.2 nTPM
Stomach	22.7 nTPM
Esophagus	18.4 nTPM
Spleen	12.7 nTPM
Bone marrow	5.0 nTPM

Respiratory ciliated cells	22.4 nTPM
Lung	26.2 nTPM
Bronchus	18.6 nTPM

Smooth muscle cells	18.9 nTPM
Heart muscle	40.2 nTPM
Adipose tissue	23.5 nTPM
Skeletal muscle	20.2 nTPM
Esophagus	20.1 nTPM
Ovary	19.3 nTPM
Endometrium	18.5 nTPM
Pancreas	15.5 nTPM
Breast	15.5 nTPM
Skin	14.3 nTPM
Prostate	13.8 nTPM
Bronchus	6.5 nTPM

T-cells	23.8 nTPM
Esophagus	32.8 nTPM
Adipose tissue	31.8 nTPM
Lymph node	30.9 nTPM
Spleen	30.2 nTPM
Bone marrow	29.3 nTPM
Lung	28.8 nTPM
Stomach	28.8 nTPM
PBMC	24.4 nTPM
Skeletal muscle	23.9 nTPM
Ovary	22.3 nTPM
Breast	22.2 nTPM
Liver	21.9 nTPM
Colon	20.0 nTPM
Endometrium	19.3 nTPM
Prostate	19.0 nTPM
Skin	10.2 nTPM
Kidney	9.6 nTPM

Basal prostatic cells	10.8 nTPM
Prostate	10.8 nTPM

Basal respiratory cells	15.3 nTPM
Bronchus	15.3 nTPM

Basal squamous epithelial cells	15.4 nTPM
Esophagus	15.4 nTPM

Cholangiocytes	4.3 nTPM
Liver	4.3 nTPM

Undifferentiated cells	10.6 nTPM
Rectum	12.5 nTPM
Small intestine	11.0 nTPM
Colon	8.3 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC