Single cell type - MRI1 - 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.	MRI1
Gene descriptionⁱ Full gene name according to HGNC.	Methylthioribose-1-phosphate isomerase 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic 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
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	Non-specific - Transcription (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 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 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: 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

MRI1 is part of cluster 52 Non-specific - Transcription with confidenceⁱ 1
611 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
ZNF224	Zinc finger protein 224	0.5880	52
CYB561D1	Cytochrome b561 family member D1	0.5503	63
POLR2J2	RNA polymerase II subunit J2	0.5450	52
SLC25A45	Solute carrier family 25 member 45	0.5132	63
MFSD8	Major facilitator superfamily domain containing 8	0.4936	52
ADAT2	Adenosine deaminase tRNA specific 2	0.4762	32
PASK	PAS domain containing serine/threonine kinase	0.4712	63
ZNF101	Zinc finger protein 101	0.4710	63
ERCC6	ERCC excision repair 6, chromatin remodeling factor	0.4608	7
TTC14	Tetratricopeptide repeat domain 14	0.4533	52
MTERF4	Mitochondrial transcription termination factor 4	0.4522	63
PPIAL4G	Peptidylprolyl isomerase A like 4G	0.4478	63
MED23	Mediator complex subunit 23	0.4463	52
TRAV40	T cell receptor alpha variable 40	0.4418	63
ZCCHC18	Zinc finger CCHC-type containing 18	0.4365	63

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	9.2 nTPM
Adipose tissue	10.6 nTPM
Breast	7.8 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	19.8 nTPM
Lung	19.8 nTPM

Astrocytes	15.0 nTPM
Brain	15.0 nTPM

B-cells	10.8 nTPM
Adipose tissue	17.1 nTPM
Kidney	14.3 nTPM
PBMC	12.9 nTPM
Colon	12.8 nTPM
Bone marrow	12.3 nTPM
Stomach	12.3 nTPM
Spleen	10.0 nTPM
Liver	9.2 nTPM
Breast	4.0 nTPM
Lymph node	3.3 nTPM

Dendritic cells	17.2 nTPM
PBMC	27.9 nTPM
Adipose tissue	13.8 nTPM
Breast	9.9 nTPM

Endothelial cells	13.8 nTPM
Placenta	71.6 nTPM
Ovary	19.3 nTPM
Testis	17.2 nTPM
Skeletal muscle	13.8 nTPM
Liver	12.8 nTPM
Endometrium	12.1 nTPM
Skin	8.3 nTPM
Esophagus	8.2 nTPM
Breast	7.6 nTPM
Eye	6.5 nTPM
Prostate	5.6 nTPM
Pancreas	3.9 nTPM
Lung	3.1 nTPM
Heart muscle	2.8 nTPM

Fibroblasts	12.3 nTPM
Lung	24.6 nTPM
Adipose tissue	19.9 nTPM
Ovary	13.9 nTPM
Skeletal muscle	13.7 nTPM
Stomach	13.4 nTPM
Breast	10.8 nTPM
Placenta	10.0 nTPM
Heart muscle	8.6 nTPM
Skin	8.4 nTPM
Esophagus	7.7 nTPM
Prostate	4.8 nTPM

Intestinal goblet cells	9.3 nTPM
Rectum	10.6 nTPM
Small intestine	10.2 nTPM
Colon	7.2 nTPM

Macrophages	7.4 nTPM
PBMC	13.6 nTPM
Lung	12.4 nTPM
Testis	11.7 nTPM
Adipose tissue	10.9 nTPM
Pancreas	10.2 nTPM
Bone marrow	8.7 nTPM
Skeletal muscle	8.6 nTPM
Ovary	8.2 nTPM
Breast	7.9 nTPM
Endometrium	6.5 nTPM
Kidney	3.8 nTPM
Prostate	3.4 nTPM
Stomach	2.9 nTPM
Esophagus	1.6 nTPM
Spleen	1.0 nTPM

Paneth cells	11.0 nTPM
Colon	13.2 nTPM
Rectum	12.2 nTPM
Small intestine	7.5 nTPM

Plasma cells	13.3 nTPM
Adipose tissue	18.1 nTPM
Bone marrow	16.5 nTPM
Spleen	15.7 nTPM
Stomach	10.1 nTPM
Esophagus	6.1 nTPM

Respiratory ciliated cells	19.2 nTPM
Lung	21.9 nTPM
Bronchus	16.5 nTPM

Smooth muscle cells	13.3 nTPM
Bronchus	32.5 nTPM
Adipose tissue	26.1 nTPM
Endometrium	15.1 nTPM
Skeletal muscle	15.1 nTPM
Breast	13.1 nTPM
Skin	10.5 nTPM
Esophagus	9.3 nTPM
Ovary	8.6 nTPM
Pancreas	6.4 nTPM
Prostate	5.3 nTPM
Heart muscle	4.4 nTPM

T-cells	16.0 nTPM
PBMC	31.3 nTPM
Esophagus	26.2 nTPM
Lung	25.8 nTPM
Ovary	22.3 nTPM
Bone marrow	17.5 nTPM
Kidney	16.4 nTPM
Adipose tissue	16.4 nTPM
Colon	15.7 nTPM
Prostate	14.2 nTPM
Skin	13.8 nTPM
Endometrium	12.2 nTPM
Liver	12.0 nTPM
Skeletal muscle	11.4 nTPM
Stomach	11.1 nTPM
Breast	11.0 nTPM
Spleen	8.5 nTPM
Lymph node	6.1 nTPM

Basal prostatic cells	8.9 nTPM
Prostate	8.9 nTPM

Basal squamous epithelial cells	6.8 nTPM
Esophagus	6.8 nTPM

Distal tubular cells	5.9 nTPM
Kidney	5.9 nTPM

Early spermatids	0.7 nTPM
Testis	0.7 nTPM

Undifferentiated cells	9.8 nTPM
Rectum	12.2 nTPM
Small intestine	10.5 nTPM
Colon	6.7 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