Single cell type - IL1B - 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.	IL1B
Gene descriptionⁱ Full gene name according to HGNC.	Interleukin 1 beta
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Candidate cardiovascular disease genes FDA approved drug targets Human disease related genes Plasma proteins Transporters
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,Secreted
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 - 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	Group enriched (Macrophages, Langerhans 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 enriched (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 (BJ hTERT+, HBEC3-KT, HMC-1, hTEC/SVTERT24-B, hTERT-RPE1, U-87 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 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 (Macrophages, Langerhans 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

IL1B is part of cluster 41 Macrophages - Immune response with confidenceⁱ 1
307 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
EREG	Epiregulin	0.9813	41
C5AR1	Complement C5a receptor 1	0.9718	41
NLRP3	NLR family pyrin domain containing 3	0.9437	41
BCL2A1	BCL2 related protein A1	0.9334	41
C5AR2	Complement component 5a receptor 2	0.9206	41
NAMPT	Nicotinamide phosphoribosyltransferase	0.8999	41
ACOD1	Aconitate decarboxylase 1	0.8933	41
LIPN	Lipase family member N	0.8902	41
CYSLTR2	Cysteinyl leukotriene receptor 2	0.8774	41
RILPL2	Rab interacting lysosomal protein like 2	0.8639	41
FPR2	Formyl peptide receptor 2	0.8486	41
IRAK3	Interleukin 1 receptor associated kinase 3	0.8468	41
STX11	Syntaxin 11	0.8426	41
IL1A	Interleukin 1 alpha	0.8416	41
TREM1	Triggering receptor expressed on myeloid cells 1	0.8242	41

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	23.8 nTPM
Breast	32.6 nTPM
Adipose tissue	15.0 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	28.2 nTPM
Lung	28.2 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	14.1 nTPM
Colon	91.1 nTPM
Breast	17.3 nTPM
Adipose tissue	17.1 nTPM
Spleen	6.5 nTPM
Lymph node	5.1 nTPM
Liver	3.5 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Dendritic cells	7.5 nTPM
Adipose tissue	18.8 nTPM
Breast	3.6 nTPM
PBMC	0.0 nTPM

Endothelial cells	20.0 nTPM
Eye	199.1 nTPM
Skin	25.7 nTPM
Lung	21.8 nTPM
Placenta	21.0 nTPM
Breast	5.6 nTPM
Liver	1.8 nTPM
Esophagus	1.6 nTPM
Heart muscle	1.4 nTPM
Skeletal muscle	0.8 nTPM
Endometrium	0.7 nTPM
Prostate	0.6 nTPM
Testis	0.0 nTPM
Pancreas	0.0 nTPM
Ovary	0.0 nTPM

Fibroblasts	8.1 nTPM
Lung	45.8 nTPM
Skin	19.5 nTPM
Breast	7.6 nTPM
Placenta	5.7 nTPM
Heart muscle	2.3 nTPM
Prostate	1.9 nTPM
Skeletal muscle	1.6 nTPM
Adipose tissue	1.5 nTPM
Stomach	1.5 nTPM
Esophagus	1.4 nTPM
Ovary	0.0 nTPM

Intestinal goblet cells	12.7 nTPM
Colon	32.2 nTPM
Small intestine	3.9 nTPM
Rectum	1.9 nTPM

Macrophages	1510.7 nTPM
Adipose tissue	6598.5 nTPM
Spleen	2755.9 nTPM
Stomach	2572.8 nTPM
Prostate	2175.8 nTPM
Pancreas	2174.6 nTPM
Breast	2112.4 nTPM
Endometrium	1184.6 nTPM
Skeletal muscle	930.4 nTPM
Esophagus	701.9 nTPM
Testis	628.0 nTPM
Lung	403.0 nTPM
Kidney	304.8 nTPM
Bone marrow	74.9 nTPM
Ovary	42.8 nTPM
PBMC	0.0 nTPM

Paneth cells	10.0 nTPM
Colon	23.1 nTPM
Rectum	7.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	9.3 nTPM
Adipose tissue	43.2 nTPM
Spleen	3.2 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Respiratory ciliated cells	8.6 nTPM
Lung	14.6 nTPM
Bronchus	2.5 nTPM

Smooth muscle cells	4.3 nTPM
Skin	17.4 nTPM
Breast	6.5 nTPM
Bronchus	5.7 nTPM
Heart muscle	4.7 nTPM
Pancreas	4.3 nTPM
Ovary	3.3 nTPM
Skeletal muscle	1.9 nTPM
Esophagus	1.5 nTPM
Endometrium	1.3 nTPM
Prostate	0.6 nTPM
Adipose tissue	0.4 nTPM

T-cells	6.3 nTPM
Lung	47.1 nTPM
Skin	18.8 nTPM
Adipose tissue	15.8 nTPM
Breast	6.5 nTPM
Spleen	5.8 nTPM
Prostate	4.7 nTPM
Colon	2.4 nTPM
Skeletal muscle	2.3 nTPM
Endometrium	1.7 nTPM
Liver	1.3 nTPM
PBMC	0.8 nTPM
Lymph node	0.2 nTPM
Bone marrow	0.2 nTPM
Stomach	0.1 nTPM
Kidney	0.0 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	30.8 nTPM
Skin	30.8 nTPM

Basal prostatic cells	5.4 nTPM
Prostate	5.4 nTPM

Basal respiratory cells	25.4 nTPM
Bronchus	25.4 nTPM

Early spermatids	0.3 nTPM
Testis	0.3 nTPM

Undifferentiated cells	1.9 nTPM
Colon	5.5 nTPM
Rectum	0.2 nTPM
Small intestine	0.0 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