Single cell type - NFIB - 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.	NFIB
Gene descriptionⁱ Full gene name according to HGNC.	Nuclear factor I B
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes 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.	20

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	Neurons & Oligodendrocytes - Synaptic function (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 (Oligodendrocyte precursor cells, Astrocytes)
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	Cell line enhanced (AN3-CA, HBEC3-KT, HEL, HUVEC TERT2, TIME)
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

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 (Oligodendrocyte precursor cells, Astrocytes)

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

NFIB is part of cluster 8 Neurons & Oligodendrocytes - Synaptic function with confidenceⁱ 0.99
719 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
GFRAL	GDNF family receptor alpha like	0.7254	14
NFIA	Nuclear factor I A	0.6829	50
RBMS3	RNA binding motif single stranded interacting protein 3	0.6228	8
BMP6	Bone morphogenetic protein 6	0.6150	8
JAM2	Junctional adhesion molecule 2	0.6004	14
PDGFD	Platelet derived growth factor D	0.5932	8
FNBP1L	Formin binding protein 1 like	0.5857	8
KITLG	KIT ligand	0.5686	8
ADAMTSL3	ADAMTS like 3	0.5659	8
EPHA3	EPH receptor A3	0.5602	8
FAM110B	Family with sequence similarity 110 member B	0.5500	8
PTPRB	Protein tyrosine phosphatase receptor type B	0.5453	14
SSBP2	Single stranded DNA binding protein 2	0.5453	8
RGS7	Regulator of G protein signaling 7	0.5335	8
GRM5	Glutamate metabotropic receptor 5	0.5324	8

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	328.7 nTPM
Adipose tissue	431.9 nTPM
Breast	225.6 nTPM

Alveolar cells type 1	51.3 nTPM
Lung	51.3 nTPM

Alveolar cells type 2	31.4 nTPM
Lung	31.4 nTPM

B-cells	4.6 nTPM
Kidney	23.8 nTPM
Breast	14.7 nTPM
Liver	3.7 nTPM
Colon	3.2 nTPM
Stomach	0.5 nTPM
Lymph node	0.3 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Basal keratinocytes	268.9 nTPM
Skin	268.9 nTPM

Basal squamous epithelial cells	115.5 nTPM
Esophagus	115.5 nTPM

Dendritic cells	2.1 nTPM
Breast	6.2 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM

Endothelial cells	230.9 nTPM
Testis	463.7 nTPM
Skeletal muscle	336.2 nTPM
Heart muscle	327.6 nTPM
Ovary	312.9 nTPM
Skin	265.1 nTPM
Breast	259.5 nTPM
Esophagus	226.3 nTPM
Liver	223.8 nTPM
Endometrium	193.2 nTPM
Lung	165.3 nTPM
Prostate	165.3 nTPM
Placenta	138.7 nTPM
Eye	96.3 nTPM
Pancreas	57.9 nTPM

Fibroblasts	190.9 nTPM
Adipose tissue	592.2 nTPM
Skeletal muscle	422.2 nTPM
Esophagus	212.3 nTPM
Heart muscle	210.0 nTPM
Skin	194.3 nTPM
Breast	145.8 nTPM
Stomach	135.2 nTPM
Prostate	84.0 nTPM
Placenta	46.0 nTPM
Lung	40.2 nTPM
Ovary	18.1 nTPM

Intestinal goblet cells	35.4 nTPM
Small intestine	51.6 nTPM
Rectum	40.1 nTPM
Colon	14.3 nTPM

Macrophages	7.3 nTPM
Skeletal muscle	25.0 nTPM
Kidney	17.5 nTPM
PBMC	13.6 nTPM
Prostate	11.5 nTPM
Endometrium	10.6 nTPM
Breast	8.7 nTPM
Esophagus	7.9 nTPM
Lung	5.7 nTPM
Testis	4.6 nTPM
Stomach	2.9 nTPM
Adipose tissue	0.8 nTPM
Pancreas	0.0 nTPM
Ovary	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Paneth cells	48.7 nTPM
Small intestine	71.4 nTPM
Rectum	61.7 nTPM
Colon	13.2 nTPM

Plasma cells	4.1 nTPM
Esophagus	18.4 nTPM
Adipose tissue	1.3 nTPM
Stomach	1.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Respiratory ciliated cells	55.6 nTPM
Bronchus	57.3 nTPM
Lung	54.0 nTPM

Smooth muscle cells	160.8 nTPM
Adipose tissue	357.5 nTPM
Heart muscle	307.3 nTPM
Skin	249.7 nTPM
Skeletal muscle	226.9 nTPM
Esophagus	170.5 nTPM
Breast	167.5 nTPM
Prostate	116.3 nTPM
Bronchus	85.7 nTPM
Endometrium	38.6 nTPM
Ovary	32.8 nTPM
Pancreas	15.5 nTPM

Astrocytes	542.6 nTPM
Brain	542.6 nTPM

Cholangiocytes	214.4 nTPM
Liver	214.4 nTPM

Cytotrophoblasts	5.1 nTPM
Placenta	5.1 nTPM

Distal enterocytes	42.1 nTPM
Rectum	57.4 nTPM
Colon	26.8 nTPM

T-cells	7.1 nTPM
Skeletal muscle	25.4 nTPM
Skin	24.9 nTPM
Kidney	13.7 nTPM
Endometrium	13.6 nTPM
Esophagus	13.1 nTPM
Breast	12.8 nTPM
Prostate	9.5 nTPM
Liver	3.9 nTPM
Lung	1.5 nTPM
Colon	1.4 nTPM
Stomach	0.3 nTPM
Adipose tissue	0.2 nTPM
PBMC	0.1 nTPM
Ovary	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Undifferentiated cells	74.2 nTPM
Small intestine	95.0 nTPM
Rectum	75.3 nTPM
Colon	52.3 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