Single cell type - NFKB1 - 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.	NFKB1
Gene descriptionⁱ Full gene name according to HGNC.	Nuclear factor kappa B subunit 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes FDA approved drug targets Human disease related genes Plasma proteins RAS pathway related proteins Transcription factors
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.	8

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	Cell type enhanced (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	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 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	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: Cell type enhanced (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

NFKB1 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
REL	REL proto-oncogene, NF-kB subunit	0.8137	41
RIPK2	Receptor interacting serine/threonine kinase 2	0.7993	41
SERPINB9	Serpin family B member 9	0.7913	41
GNA13	G protein subunit alpha 13	0.7751	41
MAP3K8	Mitogen-activated protein kinase kinase kinase 8	0.7719	41
LORICRIN	Loricrin cornified envelope precursor protein	0.7352	41
PPP1R15B	Protein phosphatase 1 regulatory subunit 15B	0.7272	41
GPR132	G protein-coupled receptor 132	0.7244	41
ZNF267	Zinc finger protein 267	0.7214	41
STX11	Syntaxin 11	0.7149	41
NAMPT	Nicotinamide phosphoribosyltransferase	0.7098	41
IL1R2	Interleukin 1 receptor type 2	0.7086	41
BCL2A1	BCL2 related protein A1	0.7046	41
CHMP1B	Charged multivesicular body protein 1B	0.6982	41
RILPL2	Rab interacting lysosomal protein like 2	0.6981	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	32.5 nTPM
Adipose tissue	37.1 nTPM
Breast	27.9 nTPM

Alveolar cells type 1	41.7 nTPM
Lung	41.7 nTPM

Alveolar cells type 2	49.4 nTPM
Lung	49.4 nTPM

Astrocytes	42.1 nTPM
Brain	42.1 nTPM

B-cells	90.0 nTPM
Adipose tissue	219.0 nTPM
Spleen	172.7 nTPM
Colon	156.6 nTPM
Breast	106.9 nTPM
Lymph node	85.4 nTPM
Stomach	48.1 nTPM
Liver	30.1 nTPM
Bone marrow	28.6 nTPM
Kidney	28.5 nTPM
PBMC	24.3 nTPM

Dendritic cells	119.6 nTPM
Adipose tissue	257.9 nTPM
Breast	76.9 nTPM
PBMC	23.9 nTPM

Endothelial cells	47.6 nTPM
Skin	110.0 nTPM
Prostate	104.0 nTPM
Endometrium	88.5 nTPM
Lung	59.3 nTPM
Ovary	38.6 nTPM
Breast	38.1 nTPM
Skeletal muscle	37.3 nTPM
Pancreas	34.7 nTPM
Eye	33.2 nTPM
Liver	32.1 nTPM
Heart muscle	26.3 nTPM
Placenta	24.5 nTPM
Testis	20.7 nTPM
Esophagus	19.6 nTPM

Fibroblasts	63.1 nTPM
Skin	184.0 nTPM
Prostate	161.0 nTPM
Skeletal muscle	71.2 nTPM
Stomach	50.5 nTPM
Lung	50.3 nTPM
Adipose tissue	50.2 nTPM
Heart muscle	37.5 nTPM
Breast	25.2 nTPM
Esophagus	23.3 nTPM
Placenta	20.5 nTPM
Ovary	20.2 nTPM

Intestinal goblet cells	43.2 nTPM
Colon	54.3 nTPM
Rectum	40.7 nTPM
Small intestine	34.5 nTPM

Macrophages	178.3 nTPM
Adipose tissue	863.8 nTPM
Prostate	450.6 nTPM
Endometrium	303.0 nTPM
Stomach	205.2 nTPM
Skeletal muscle	204.4 nTPM
Spleen	198.0 nTPM
Breast	118.2 nTPM
Esophagus	64.5 nTPM
Bone marrow	54.9 nTPM
Lung	46.6 nTPM
Kidney	46.2 nTPM
Testis	37.8 nTPM
Ovary	36.0 nTPM
PBMC	27.3 nTPM
Pancreas	17.8 nTPM

Paneth cells	27.1 nTPM
Colon	32.9 nTPM
Rectum	29.7 nTPM
Small intestine	18.8 nTPM

Plasma cells	56.3 nTPM
Adipose tissue	145.1 nTPM
Stomach	41.1 nTPM
Esophagus	36.9 nTPM
Spleen	35.5 nTPM
Bone marrow	23.0 nTPM

Respiratory ciliated cells	31.5 nTPM
Bronchus	36.8 nTPM
Lung	26.2 nTPM

Smooth muscle cells	41.2 nTPM
Skin	142.3 nTPM
Prostate	69.4 nTPM
Endometrium	51.9 nTPM
Skeletal muscle	50.3 nTPM
Adipose tissue	33.8 nTPM
Ovary	22.1 nTPM
Pancreas	19.8 nTPM
Heart muscle	18.9 nTPM
Bronchus	17.1 nTPM
Breast	15.6 nTPM
Esophagus	12.4 nTPM

T-cells	88.2 nTPM
Adipose tissue	243.6 nTPM
Endometrium	209.9 nTPM
Spleen	191.6 nTPM
Prostate	165.6 nTPM
Colon	92.2 nTPM
Lymph node	91.9 nTPM
Skin	89.8 nTPM
Skeletal muscle	73.1 nTPM
Stomach	62.2 nTPM
Breast	59.1 nTPM
Esophagus	45.9 nTPM
Liver	33.6 nTPM
PBMC	33.5 nTPM
Bone marrow	32.4 nTPM
Lung	30.4 nTPM
Ovary	26.7 nTPM
Kidney	18.5 nTPM

Basal keratinocytes	165.4 nTPM
Skin	165.4 nTPM

Basal prostatic cells	91.5 nTPM
Prostate	91.5 nTPM

Basal respiratory cells	57.1 nTPM
Bronchus	57.1 nTPM

Basal squamous epithelial cells	31.3 nTPM
Esophagus	31.3 nTPM

Undifferentiated cells	35.4 nTPM
Small intestine	37.0 nTPM
Rectum	37.0 nTPM
Colon	32.3 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