Single cell type - SPINK1 - 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.	SPINK1
Gene descriptionⁱ Full gene name according to HGNC.	Serine peptidase inhibitor Kazal type 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Human disease related genes 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	Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

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	Pancreatic cells - Digestion (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	Group enriched (Exocrine glandular cells, Pancreatic endocrine 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	Not detected in immune cells
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	Not detected
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	Group enriched (CACO-2, RT4)
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
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data. Read more	Protein predicted to be secreted

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: Group enriched (Exocrine glandular cells, Pancreatic endocrine 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

SPINK1 is part of cluster 1 Pancreatic cells - Digestion with confidenceⁱ 1
148 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
REG1A	Regenerating family member 1 alpha	0.9720	1
CPA2	Carboxypeptidase A2	0.9710	1
PLA2G1B	Phospholipase A2 group IB	0.9703	1
CELA2B	Chymotrypsin like elastase 2B	0.9697	1
CTRB2	Chymotrypsinogen B2	0.9693	1
CELA2A	Chymotrypsin like elastase 2A	0.9690	1
CELA3A	Chymotrypsin like elastase 3A	0.9686	1
PRSS2	Serine protease 2	0.9685	1
PRSS1	Serine protease 1	0.9682	1
CTRC	Chymotrypsin C	0.9681	1
PNLIP	Pancreatic lipase	0.9668	1
SYCN	Syncollin	0.9663	1
CLPS	Colipase	0.9657	1
REG1B	Regenerating family member 1 beta	0.9655	1
CPB1	Carboxypeptidase B1	0.9652	1

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	0.0 nTPM
Adipose tissue	0.0 nTPM
Breast	0.0 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	3.6 nTPM
Lung	3.6 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	9.7 nTPM
Liver	49.4 nTPM
Colon	35.1 nTPM
Stomach	11.3 nTPM
Breast	1.3 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Dendritic cells	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Breast	0.0 nTPM

Endothelial cells	9.4 nTPM
Pancreas	108.1 nTPM
Prostate	12.9 nTPM
Liver	9.2 nTPM
Breast	0.4 nTPM
Heart muscle	0.1 nTPM
Endometrium	0.1 nTPM
Eye	0.0 nTPM
Lung	0.0 nTPM
Placenta	0.0 nTPM
Testis	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM

Enteroendocrine cells	517.2 nTPM
Colon	522.3 nTPM
Rectum	512.0 nTPM

Fibroblasts	1.9 nTPM
Prostate	18.8 nTPM
Stomach	1.5 nTPM
Breast	0.4 nTPM
Heart muscle	0.0 nTPM
Lung	0.0 nTPM
Placenta	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Ovary	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Intestinal goblet cells	2087.4 nTPM
Small intestine	2261.4 nTPM
Rectum	2258.4 nTPM
Colon	1742.4 nTPM

Macrophages	13.7 nTPM
Pancreas	181.2 nTPM
Stomach	8.8 nTPM
Kidney	7.6 nTPM
Prostate	6.9 nTPM
Endometrium	1.0 nTPM
Breast	0.4 nTPM
Adipose tissue	0.2 nTPM
Ovary	0.1 nTPM
Lung	0.0 nTPM
PBMC	0.0 nTPM
Testis	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Paneth cells	563.8 nTPM
Small intestine	976.2 nTPM
Colon	395.2 nTPM
Rectum	320.1 nTPM

Plasma cells	1.3 nTPM
Stomach	6.6 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Respiratory ciliated cells	0.7 nTPM
Lung	1.5 nTPM
Bronchus	0.0 nTPM

Smooth muscle cells	43.0 nTPM
Pancreas	449.4 nTPM
Prostate	22.6 nTPM
Endometrium	0.5 nTPM
Heart muscle	0.1 nTPM
Ovary	0.1 nTPM
Skin	0.0 nTPM
Bronchus	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Breast	0.0 nTPM

Basal prostatic cells	15.1 nTPM
Prostate	15.1 nTPM

Basal respiratory cells	0.3 nTPM
Bronchus	0.3 nTPM

Cholangiocytes	1451.2 nTPM
Liver	1451.2 nTPM

Collecting duct cells	377.0 nTPM
Kidney	377.0 nTPM

T-cells	3.4 nTPM
Liver	29.4 nTPM
Colon	18.1 nTPM
Stomach	7.7 nTPM
Breast	1.0 nTPM
Kidney	0.7 nTPM
Endometrium	0.3 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM
PBMC	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Ovary	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Undifferentiated cells	1365.3 nTPM
Small intestine	2472.2 nTPM
Rectum	899.6 nTPM
Colon	724.0 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