Single cell type - SIPA1L1 - 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.	SIPA1L1
Gene descriptionⁱ Full gene name according to HGNC.	Signal induced proliferation associated 1 like 1
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.	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. 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 (Excitatory neurons, Inhibitory neurons, Oligodendrocytes, Oligodendrocyte precursor cells)
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	Immune cell enhanced (neutrophil)
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 many
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	Cell line enhanced (U-138 MG)
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 (Excitatory neurons, Inhibitory neurons, Oligodendrocytes, Oligodendrocyte precursor cells)

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

SIPA1L1 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
ADGRL2	Adhesion G protein-coupled receptor L2	0.7935	21
BTBD9	BTB domain containing 9	0.7860	21
KCNH1	Potassium voltage-gated channel subfamily H member 1	0.7767	21
ZNF804B	Zinc finger protein 804B	0.7764	21
ZRANB3	Zinc finger RANBP2-type containing 3	0.7641	21
RAPGEF2	Rap guanine nucleotide exchange factor 2	0.7620	21
NWD2	NACHT and WD repeat domain containing 2	0.7604	21
R3HDM1	R3H domain containing 1	0.7510	21
OR9Q1	Olfactory receptor family 9 subfamily Q member 1	0.7455	21
DGKB	Diacylglycerol kinase beta	0.7437	21
NECAB1	N-terminal EF-hand calcium binding protein 1	0.7409	21
FAM81A	Family with sequence similarity 81 member A	0.7365	8
FLRT2	Fibronectin leucine rich transmembrane protein 2	0.7260	21
OR14I1	Olfactory receptor family 14 subfamily I member 1	0.7143	21
CBLN2	Cerebellin 2 precursor	0.7105	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	14.4 nTPM
Adipose tissue	17.9 nTPM
Breast	10.9 nTPM

Alveolar cells type 1	67.3 nTPM
Lung	67.3 nTPM

Alveolar cells type 2	30.5 nTPM
Lung	30.5 nTPM

Astrocytes	163.9 nTPM
Brain	163.9 nTPM

B-cells	53.8 nTPM
Adipose tissue	138.4 nTPM
Stomach	85.0 nTPM
Lymph node	55.5 nTPM
Colon	52.7 nTPM
Spleen	51.9 nTPM
Bone marrow	50.7 nTPM
PBMC	41.4 nTPM
Breast	32.1 nTPM
Kidney	19.0 nTPM
Liver	11.4 nTPM

Dendritic cells	23.9 nTPM
Adipose tissue	56.8 nTPM
Breast	14.9 nTPM
PBMC	0.0 nTPM

Endothelial cells	12.9 nTPM
Eye	30.7 nTPM
Endometrium	23.2 nTPM
Prostate	15.1 nTPM
Ovary	13.7 nTPM
Lung	12.5 nTPM
Testis	12.5 nTPM
Skeletal muscle	10.8 nTPM
Breast	10.4 nTPM
Placenta	10.2 nTPM
Liver	10.1 nTPM
Skin	9.1 nTPM
Heart muscle	8.3 nTPM
Pancreas	7.7 nTPM
Esophagus	6.8 nTPM

Fibroblasts	11.3 nTPM
Ovary	30.4 nTPM
Lung	22.4 nTPM
Breast	12.7 nTPM
Placenta	12.6 nTPM
Skin	9.9 nTPM
Skeletal muscle	7.9 nTPM
Prostate	7.8 nTPM
Esophagus	6.5 nTPM
Adipose tissue	6.1 nTPM
Stomach	6.0 nTPM
Heart muscle	2.3 nTPM

Intestinal goblet cells	16.8 nTPM
Rectum	20.1 nTPM
Small intestine	15.2 nTPM
Colon	15.0 nTPM

Macrophages	49.2 nTPM
Adipose tissue	190.4 nTPM
Skeletal muscle	104.8 nTPM
Stomach	55.7 nTPM
Esophagus	53.5 nTPM
Bone marrow	50.0 nTPM
Spleen	48.8 nTPM
Prostate	47.0 nTPM
Lung	36.9 nTPM
Testis	34.3 nTPM
Endometrium	31.8 nTPM
Kidney	31.0 nTPM
Breast	29.0 nTPM
Ovary	15.6 nTPM
Pancreas	10.2 nTPM
PBMC	0.0 nTPM

Paneth cells	15.5 nTPM
Rectum	18.3 nTPM
Small intestine	15.0 nTPM
Colon	13.2 nTPM

Plasma cells	24.9 nTPM
Adipose tissue	60.0 nTPM
Esophagus	18.4 nTPM
Stomach	17.0 nTPM
Bone marrow	16.5 nTPM
Spleen	12.6 nTPM

Respiratory ciliated cells	34.4 nTPM
Lung	45.2 nTPM
Bronchus	23.7 nTPM

Smooth muscle cells	18.2 nTPM
Heart muscle	36.6 nTPM
Bronchus	31.1 nTPM
Esophagus	21.7 nTPM
Breast	16.9 nTPM
Skin	16.0 nTPM
Pancreas	14.0 nTPM
Prostate	13.8 nTPM
Ovary	13.3 nTPM
Adipose tissue	13.3 nTPM
Skeletal muscle	12.1 nTPM
Endometrium	11.2 nTPM

T-cells	24.3 nTPM
Adipose tissue	61.3 nTPM
Stomach	40.0 nTPM
Endometrium	35.2 nTPM
Breast	32.3 nTPM
Colon	28.0 nTPM
Skeletal muscle	27.6 nTPM
Spleen	25.5 nTPM
Prostate	23.6 nTPM
Skin	22.1 nTPM
Lymph node	21.1 nTPM
Ovary	20.1 nTPM
Bone marrow	17.8 nTPM
Lung	16.7 nTPM
Liver	14.8 nTPM
PBMC	14.4 nTPM
Kidney	13.1 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	11.9 nTPM
Skin	11.9 nTPM

Basal respiratory cells	20.2 nTPM
Bronchus	20.2 nTPM

Cholangiocytes	21.5 nTPM
Liver	21.5 nTPM

Collecting duct cells	14.7 nTPM
Kidney	14.7 nTPM

Undifferentiated cells	22.5 nTPM
Rectum	26.0 nTPM
Colon	24.2 nTPM
Small intestine	17.3 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