Single cell type - NMI - 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.	NMI
Gene descriptionⁱ Full gene name according to HGNC.	N-myc and STAT interactor
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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	Intracellular,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	Monocytes & Neutrophils - Innate 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	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	Cell line enhanced (NB-4)
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: 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

NMI is part of cluster 19 Monocytes & Neutrophils - Innate immune response with confidenceⁱ 1
175 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
CASP4	Caspase 4	0.7040	63
CASP1	Caspase 1	0.6840	19
ARHGAP30	Rho GTPase activating protein 30	0.6490	63
GMFG	Glia maturation factor gamma	0.6233	63
NLRP12	NLR family pyrin domain containing 12	0.6111	19
SCNM1	Sodium channel modifier 1	0.6109	63
MNDA	Myeloid cell nuclear differentiation antigen	0.6088	19
GIMAP2	GTPase, IMAP family member 2	0.5989	63
TNFAIP8L2	TNF alpha induced protein 8 like 2	0.5952	4
TRIM21	Tripartite motif containing 21	0.5936	63
JAML	Junction adhesion molecule like	0.5833	19
LTA4H	Leukotriene A4 hydrolase	0.5785	19
SNX20	Sorting nexin 20	0.5703	63
NCF2	Neutrophil cytosolic factor 2	0.5638	19
AIF1	Allograft inflammatory factor 1	0.5633	19

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	37.3 nTPM
Breast	53.4 nTPM
Adipose tissue	21.3 nTPM

Alveolar cells type 1	25.6 nTPM
Lung	25.6 nTPM

Alveolar cells type 2	24.9 nTPM
Lung	24.9 nTPM

Astrocytes	2.9 nTPM
Brain	2.9 nTPM

B-cells	22.9 nTPM
PBMC	69.9 nTPM
Liver	30.3 nTPM
Bone marrow	26.2 nTPM
Colon	19.2 nTPM
Breast	18.7 nTPM
Spleen	17.3 nTPM
Adipose tissue	14.6 nTPM
Lymph node	12.9 nTPM
Stomach	10.9 nTPM
Kidney	9.5 nTPM

Dendritic cells	33.4 nTPM
PBMC	39.8 nTPM
Breast	33.9 nTPM
Adipose tissue	26.4 nTPM

Endothelial cells	41.1 nTPM
Lung	74.8 nTPM
Heart muscle	71.0 nTPM
Placenta	68.2 nTPM
Testis	58.4 nTPM
Skeletal muscle	39.9 nTPM
Liver	39.4 nTPM
Pancreas	38.6 nTPM
Endometrium	36.3 nTPM
Breast	30.7 nTPM
Skin	28.4 nTPM
Ovary	25.4 nTPM
Prostate	25.0 nTPM
Esophagus	24.8 nTPM
Eye	14.6 nTPM

Fibroblasts	19.1 nTPM
Placenta	32.4 nTPM
Lung	31.3 nTPM
Breast	24.0 nTPM
Adipose tissue	19.8 nTPM
Skeletal muscle	19.7 nTPM
Skin	17.4 nTPM
Heart muscle	17.2 nTPM
Ovary	16.9 nTPM
Esophagus	15.0 nTPM
Prostate	8.6 nTPM
Stomach	7.4 nTPM

Intestinal goblet cells	25.1 nTPM
Small intestine	28.1 nTPM
Colon	27.1 nTPM
Rectum	20.0 nTPM

Macrophages	51.5 nTPM
Lung	119.2 nTPM
Kidney	81.6 nTPM
Spleen	65.3 nTPM
Pancreas	61.2 nTPM
Ovary	59.8 nTPM
Testis	54.0 nTPM
Bone marrow	53.7 nTPM
Endometrium	47.9 nTPM
Breast	46.0 nTPM
Skeletal muscle	42.6 nTPM
Stomach	35.1 nTPM
Adipose tissue	32.5 nTPM
Prostate	29.8 nTPM
PBMC	27.3 nTPM
Esophagus	17.3 nTPM

Paneth cells	34.5 nTPM
Small intestine	52.6 nTPM
Colon	26.4 nTPM
Rectum	24.5 nTPM

Plasma cells	12.9 nTPM
Spleen	24.5 nTPM
Bone marrow	21.4 nTPM
Adipose tissue	11.6 nTPM
Stomach	7.1 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	47.4 nTPM
Bronchus	52.5 nTPM
Lung	42.3 nTPM

Smooth muscle cells	15.2 nTPM
Pancreas	30.4 nTPM
Bronchus	27.0 nTPM
Breast	18.4 nTPM
Ovary	18.2 nTPM
Heart muscle	16.2 nTPM
Endometrium	12.4 nTPM
Skin	11.5 nTPM
Prostate	9.7 nTPM
Skeletal muscle	9.1 nTPM
Adipose tissue	7.7 nTPM
Esophagus	6.2 nTPM

T-cells	36.2 nTPM
Lung	66.8 nTPM
PBMC	61.7 nTPM
Kidney	58.9 nTPM
Ovary	57.8 nTPM
Liver	46.9 nTPM
Colon	44.2 nTPM
Bone marrow	35.5 nTPM
Endometrium	32.0 nTPM
Breast	30.9 nTPM
Skeletal muscle	27.6 nTPM
Spleen	26.6 nTPM
Prostate	23.6 nTPM
Adipose tissue	23.6 nTPM
Stomach	22.5 nTPM
Esophagus	19.7 nTPM
Skin	18.5 nTPM
Lymph node	17.9 nTPM

Basal keratinocytes	16.7 nTPM
Skin	16.7 nTPM

Basal prostatic cells	21.1 nTPM
Prostate	21.1 nTPM

Basal respiratory cells	47.0 nTPM
Bronchus	47.0 nTPM

Basal squamous epithelial cells	15.4 nTPM
Esophagus	15.4 nTPM

Undifferentiated cells	24.9 nTPM
Small intestine	38.2 nTPM
Colon	19.0 nTPM
Rectum	17.6 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