Single cell type - SFSWAP - 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.	SFSWAP
Gene descriptionⁱ Full gene name according to HGNC.	Splicing factor SWAP
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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	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. Read more	Non-specific - Transcription (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	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. 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: Low cell type specificity

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

SFSWAP is part of cluster 52 Non-specific - Transcription with confidenceⁱ 1
611 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
PAXBP1	PAX3 and PAX7 binding protein 1	0.5604	52
ARGLU1	Arginine and glutamate rich 1	0.5534	52
ZNF207	Zinc finger protein 207	0.5505	52
HECTD1	HECT domain E3 ubiquitin protein ligase 1	0.5461	22
SREK1	Splicing regulatory glutamic acid and lysine rich protein 1	0.5410	52
REV1	REV1 DNA directed polymerase	0.5314	52
BCLAF1	BCL2 associated transcription factor 1	0.5267	52
NKTR	Natural killer cell triggering receptor	0.5092	52
SRRM2	Serine/arginine repetitive matrix 2	0.5075	52
FNBP4	Formin binding protein 4	0.4960	52
RIF1	Replication timing regulatory factor 1	0.4920	52
PKN2	Protein kinase N2	0.4917	52
PNN	Pinin, desmosome associated protein	0.4882	52
ZNF26	Zinc finger protein 26	0.4866	52
ZNF236	Zinc finger protein 236	0.4856	52

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	46.4 nTPM
Adipose tissue	50.8 nTPM
Breast	42.1 nTPM

Alveolar cells type 1	73.7 nTPM
Lung	73.7 nTPM

Alveolar cells type 2	44.5 nTPM
Lung	44.5 nTPM

Astrocytes	48.6 nTPM
Brain	48.6 nTPM

B-cells	37.9 nTPM
Adipose tissue	63.6 nTPM
Lymph node	47.3 nTPM
Stomach	43.6 nTPM
PBMC	40.0 nTPM
Kidney	33.4 nTPM
Bone marrow	32.7 nTPM
Spleen	31.8 nTPM
Breast	30.7 nTPM
Colon	30.3 nTPM
Liver	26.1 nTPM

Dendritic cells	52.6 nTPM
Adipose tissue	69.2 nTPM
PBMC	47.8 nTPM
Breast	40.9 nTPM

Endothelial cells	39.3 nTPM
Skeletal muscle	57.4 nTPM
Lung	56.1 nTPM
Prostate	49.5 nTPM
Heart muscle	48.6 nTPM
Ovary	45.0 nTPM
Endometrium	44.6 nTPM
Esophagus	41.4 nTPM
Eye	39.7 nTPM
Placenta	36.4 nTPM
Breast	33.8 nTPM
Testis	33.5 nTPM
Skin	29.0 nTPM
Pancreas	19.3 nTPM
Liver	16.5 nTPM

Fibroblasts	39.2 nTPM
Lung	78.2 nTPM
Adipose tissue	50.1 nTPM
Skeletal muscle	45.4 nTPM
Prostate	45.2 nTPM
Ovary	40.4 nTPM
Esophagus	38.6 nTPM
Breast	34.6 nTPM
Skin	26.7 nTPM
Placenta	25.0 nTPM
Stomach	23.7 nTPM
Heart muscle	23.1 nTPM

Intestinal goblet cells	24.9 nTPM
Colon	32.2 nTPM
Rectum	21.8 nTPM
Small intestine	20.8 nTPM

Macrophages	30.3 nTPM
Adipose tissue	53.2 nTPM
Lung	50.2 nTPM
Skeletal muscle	43.2 nTPM
Endometrium	41.0 nTPM
Spleen	37.4 nTPM
Ovary	36.1 nTPM
Breast	36.1 nTPM
Testis	34.3 nTPM
Kidney	31.8 nTPM
Bone marrow	25.0 nTPM
Prostate	21.8 nTPM
Pancreas	20.4 nTPM
Esophagus	12.6 nTPM
Stomach	11.7 nTPM
PBMC	0.0 nTPM

Paneth cells	24.1 nTPM
Small intestine	37.6 nTPM
Rectum	18.4 nTPM
Colon	16.5 nTPM

Plasma cells	43.6 nTPM
Adipose tissue	51.0 nTPM
Esophagus	49.4 nTPM
Bone marrow	46.2 nTPM
Spleen	38.7 nTPM
Stomach	32.7 nTPM

Respiratory ciliated cells	30.7 nTPM
Lung	45.2 nTPM
Bronchus	16.3 nTPM

Smooth muscle cells	38.1 nTPM
Bronchus	56.7 nTPM
Skeletal muscle	49.5 nTPM
Adipose tissue	45.7 nTPM
Prostate	45.4 nTPM
Ovary	42.6 nTPM
Endometrium	41.5 nTPM
Breast	34.8 nTPM
Esophagus	31.0 nTPM
Skin	30.3 nTPM
Pancreas	23.4 nTPM
Heart muscle	17.8 nTPM

T-cells	45.9 nTPM
Adipose tissue	74.4 nTPM
Skeletal muscle	68.2 nTPM
Esophagus	65.5 nTPM
Lung	65.3 nTPM
Endometrium	51.0 nTPM
Prostate	47.3 nTPM
Breast	46.2 nTPM
PBMC	43.1 nTPM
Lymph node	41.4 nTPM
Colon	40.4 nTPM
Bone marrow	39.6 nTPM
Stomach	37.8 nTPM
Liver	35.6 nTPM
Ovary	33.3 nTPM
Spleen	32.7 nTPM
Kidney	30.2 nTPM
Skin	29.0 nTPM

Basal keratinocytes	38.9 nTPM
Skin	38.9 nTPM

Basal respiratory cells	19.0 nTPM
Bronchus	19.0 nTPM

Cholangiocytes	21.5 nTPM
Liver	21.5 nTPM

Collecting duct cells	14.7 nTPM
Kidney	14.7 nTPM

Undifferentiated cells	22.9 nTPM
Colon	27.0 nTPM
Small intestine	21.7 nTPM
Rectum	20.1 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