Single cell type - SFT2D1 - 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.	SFT2D1
Gene descriptionⁱ Full gene name according to HGNC.	SFT2 domain containing 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	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	1

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	Respiratory epithelial cells - Mucosal defense (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

SFT2D1 is part of cluster 26 Respiratory epithelial cells - Mucosal defense with confidenceⁱ 1
293 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
DTX2	Deltex E3 ubiquitin ligase 2	0.6588	26
BIK	BCL2 interacting killer	0.6222	26
ZG16B	Zymogen granule protein 16B	0.6172	26
TMEM59	Transmembrane protein 59	0.6165	26
CXCL6	C-X-C motif chemokine ligand 6	0.6088	26
VMO1	Vitelline membrane outer layer 1 homolog	0.6086	26
TM2D1	TM2 domain containing 1	0.6082	26
TMEM9B	TMEM9 domain family member B	0.5931	26
ATP6V0E1	ATPase H+ transporting V0 subunit e1	0.5782	26
TMEM128	Transmembrane protein 128	0.5703	26
IL36A	Interleukin 36 alpha	0.5667	26
COX16	Cytochrome c oxidase assembly factor COX16	0.5653	26
CXCL17	C-X-C motif chemokine ligand 17	0.5641	26
SLPI	Secretory leukocyte peptidase inhibitor	0.5603	26
FAM83A	Family with sequence similarity 83 member A	0.5596	26

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	45.6 nTPM
Breast	52.5 nTPM
Adipose tissue	38.8 nTPM

Alveolar cells type 1	41.7 nTPM
Lung	41.7 nTPM

Alveolar cells type 2	66.5 nTPM
Lung	66.5 nTPM

Astrocytes	25.1 nTPM
Brain	25.1 nTPM

B-cells	103.4 nTPM
Liver	151.1 nTPM
Breast	117.7 nTPM
Colon	111.8 nTPM
Spleen	104.8 nTPM
Stomach	103.5 nTPM
PBMC	100.0 nTPM
Lymph node	96.7 nTPM
Kidney	90.4 nTPM
Adipose tissue	81.2 nTPM
Bone marrow	76.8 nTPM

Dendritic cells	154.2 nTPM
PBMC	251.1 nTPM
Breast	133.0 nTPM
Adipose tissue	78.7 nTPM

Endothelial cells	55.8 nTPM
Prostate	104.5 nTPM
Liver	91.8 nTPM
Placenta	76.7 nTPM
Breast	73.7 nTPM
Pancreas	69.5 nTPM
Testis	58.1 nTPM
Skin	54.6 nTPM
Eye	47.7 nTPM
Esophagus	36.7 nTPM
Ovary	36.3 nTPM
Skeletal muscle	36.0 nTPM
Lung	34.3 nTPM
Endometrium	32.8 nTPM
Heart muscle	28.9 nTPM

Fibroblasts	81.5 nTPM
Placenta	139.2 nTPM
Prostate	121.0 nTPM
Adipose tissue	103.5 nTPM
Breast	100.6 nTPM
Skin	93.7 nTPM
Stomach	71.3 nTPM
Esophagus	69.7 nTPM
Skeletal muscle	66.7 nTPM
Heart muscle	51.7 nTPM
Lung	41.3 nTPM
Ovary	38.2 nTPM

Intestinal goblet cells	162.5 nTPM
Colon	247.3 nTPM
Rectum	124.1 nTPM
Small intestine	116.3 nTPM

Macrophages	143.5 nTPM
Kidney	249.6 nTPM
Pancreas	222.1 nTPM
Spleen	191.9 nTPM
Prostate	154.7 nTPM
Testis	154.5 nTPM
Ovary	134.1 nTPM
Lung	132.3 nTPM
Bone marrow	130.0 nTPM
PBMC	122.7 nTPM
Esophagus	119.6 nTPM
Adipose tissue	118.4 nTPM
Stomach	117.2 nTPM
Breast	116.7 nTPM
Skeletal muscle	102.6 nTPM
Endometrium	86.7 nTPM

Paneth cells	146.5 nTPM
Small intestine	168.9 nTPM
Rectum	142.1 nTPM
Colon	128.4 nTPM

Plasma cells	108.5 nTPM
Stomach	170.9 nTPM
Spleen	136.3 nTPM
Bone marrow	98.9 nTPM
Esophagus	80.1 nTPM
Adipose tissue	56.1 nTPM

Respiratory ciliated cells	96.0 nTPM
Bronchus	143.9 nTPM
Lung	48.1 nTPM

Smooth muscle cells	64.0 nTPM
Pancreas	131.2 nTPM
Ovary	76.0 nTPM
Bronchus	73.0 nTPM
Skeletal muscle	65.0 nTPM
Heart muscle	59.7 nTPM
Prostate	59.4 nTPM
Skin	55.8 nTPM
Esophagus	55.8 nTPM
Breast	47.3 nTPM
Adipose tissue	44.4 nTPM
Endometrium	36.9 nTPM

T-cells	74.9 nTPM
Kidney	136.9 nTPM
Liver	105.7 nTPM
Spleen	98.3 nTPM
Bone marrow	91.7 nTPM
Lung	86.6 nTPM
Breast	82.0 nTPM
Ovary	80.1 nTPM
Stomach	79.6 nTPM
Lymph node	74.9 nTPM
Prostate	66.3 nTPM
PBMC	65.8 nTPM
Colon	61.8 nTPM
Skin	59.4 nTPM
Skeletal muscle	54.8 nTPM
Endometrium	50.5 nTPM
Adipose tissue	39.6 nTPM
Esophagus	39.3 nTPM

Basal keratinocytes	86.5 nTPM
Skin	86.5 nTPM

Basal prostatic cells	127.8 nTPM
Prostate	127.8 nTPM

Basal respiratory cells	262.4 nTPM
Bronchus	262.4 nTPM

Cholangiocytes	51.5 nTPM
Liver	51.5 nTPM

Undifferentiated cells	131.4 nTPM
Colon	161.0 nTPM
Small intestine	120.1 nTPM
Rectum	113.0 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