Single cell type - SIRPA - 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.	SIRPA
Gene descriptionⁱ Full gene name according to HGNC.	Signal regulatory protein alpha
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	CD markers Plasma 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	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

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	Macrophages - Innate immune response (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 (Astrocytes, Hofbauer cells, Excitatory neurons, monocytes, Macrophages)
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	Group enriched (neutrophil, eosinophil, classical monocyte, myeloid DC)
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 (fHDF/TERT166, RPTEC TERT1, SK-MEL-30)
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 many
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 (Astrocytes, Hofbauer cells, Excitatory neurons, monocytes, Macrophages)

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

SIRPA is part of cluster 4 Macrophages - Innate immune response with confidenceⁱ 1
228 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
KIAA0930	KIAA0930	0.6473	21
DAGLA	Diacylglycerol lipase alpha	0.6053	21
PSAP	Prosaposin	0.5827	4
DCANP1	Dendritic cell associated nuclear protein	0.5755	4
ADAMDEC1	ADAM like decysin 1	0.5737	4
CTSB	Cathepsin B	0.5713	4
DCSTAMP	Dendrocyte expressed seven transmembrane protein	0.5713	4
PLA2G7	Phospholipase A2 group VII	0.5709	4
TREM2	Triggering receptor expressed on myeloid cells 2	0.5708	4
ACP5	Acid phosphatase 5, tartrate resistant	0.5683	4
CREG1	Cellular repressor of E1A stimulated genes 1	0.5672	4
PLD3	Phospholipase D family member 3	0.5667	4
CD68	CD68 molecule	0.5663	4
SIGLEC15	Sialic acid binding Ig like lectin 15	0.5607	4
GRN	Granulin precursor	0.5540	4

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	60.6 nTPM
Adipose tissue	66.9 nTPM
Breast	54.4 nTPM

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	6.5 nTPM
Lung	6.5 nTPM

B-cells	4.3 nTPM
Colon	19.2 nTPM
Lymph node	5.0 nTPM
Breast	4.0 nTPM
Spleen	3.8 nTPM
Stomach	3.7 nTPM
Liver	2.8 nTPM
Bone marrow	1.7 nTPM
Adipose tissue	1.5 nTPM
PBMC	1.4 nTPM
Kidney	0.0 nTPM

Basal keratinocytes	14.3 nTPM
Skin	14.3 nTPM

Dendritic cells	0.6 nTPM
Breast	1.5 nTPM
Adipose tissue	0.3 nTPM
PBMC	0.0 nTPM

Endothelial cells	13.7 nTPM
Breast	34.0 nTPM
Lung	21.8 nTPM
Skin	21.3 nTPM
Esophagus	21.3 nTPM
Liver	15.6 nTPM
Pancreas	11.6 nTPM
Prostate	11.0 nTPM
Eye	10.5 nTPM
Heart muscle	9.9 nTPM
Skeletal muscle	8.2 nTPM
Placenta	8.0 nTPM
Endometrium	6.9 nTPM
Testis	6.5 nTPM
Ovary	5.0 nTPM

Fibroblasts	23.7 nTPM
Adipose tissue	37.8 nTPM
Prostate	34.6 nTPM
Heart muscle	34.0 nTPM
Skin	33.6 nTPM
Skeletal muscle	32.5 nTPM
Lung	25.7 nTPM
Breast	22.5 nTPM
Esophagus	21.7 nTPM
Stomach	11.9 nTPM
Placenta	3.5 nTPM
Ovary	2.5 nTPM

Intestinal goblet cells	3.5 nTPM
Small intestine	5.7 nTPM
Rectum	4.3 nTPM
Colon	0.7 nTPM

Macrophages	82.5 nTPM
Pancreas	222.1 nTPM
Ovary	172.2 nTPM
Prostate	115.8 nTPM
Testis	91.2 nTPM
Esophagus	81.8 nTPM
Lung	72.9 nTPM
Stomach	70.3 nTPM
Adipose tissue	66.8 nTPM
Spleen	63.2 nTPM
Breast	62.2 nTPM
Bone marrow	60.0 nTPM
Skeletal muscle	58.8 nTPM
Kidney	50.6 nTPM
Endometrium	49.5 nTPM
PBMC	0.0 nTPM

Paneth cells	9.9 nTPM
Small intestine	22.5 nTPM
Rectum	7.1 nTPM
Colon	0.0 nTPM

Plasma cells	1.6 nTPM
Stomach	4.0 nTPM
Adipose tissue	3.3 nTPM
Spleen	0.7 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	5.1 nTPM
Bronchus	5.7 nTPM
Lung	4.4 nTPM

Smooth muscle cells	7.8 nTPM
Pancreas	51.7 nTPM
Heart muscle	6.2 nTPM
Skin	5.3 nTPM
Prostate	5.0 nTPM
Adipose tissue	4.3 nTPM
Breast	3.6 nTPM
Bronchus	2.8 nTPM
Ovary	2.7 nTPM
Skeletal muscle	1.6 nTPM
Esophagus	1.5 nTPM
Endometrium	1.1 nTPM

T-cells	2.1 nTPM
Lung	9.1 nTPM
Esophagus	6.6 nTPM
Prostate	4.7 nTPM
Skin	3.6 nTPM
Breast	2.6 nTPM
Kidney	2.0 nTPM
PBMC	2.0 nTPM
Skeletal muscle	1.8 nTPM
Liver	1.3 nTPM
Endometrium	0.6 nTPM
Colon	0.5 nTPM
Spleen	0.5 nTPM
Lymph node	0.3 nTPM
Adipose tissue	0.2 nTPM
Bone marrow	0.1 nTPM
Stomach	0.1 nTPM
Ovary	0.0 nTPM

Astrocytes	138.1 nTPM
Brain	138.1 nTPM

Cholangiocytes	34.3 nTPM
Liver	34.3 nTPM

Collecting duct cells	9.2 nTPM
Kidney	9.2 nTPM

Cone photoreceptor cells	14.6 nTPM
Eye	14.6 nTPM

Undifferentiated cells	2.6 nTPM
Small intestine	3.7 nTPM
Rectum	3.7 nTPM
Colon	0.3 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