Single cell type - IDI1 - 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.	IDI1
Gene descriptionⁱ Full gene name according to HGNC.	Isopentenyl-diphosphate delta 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.	3

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	Hepatocytes - Hemostasis (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	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: 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

IDI1 is part of cluster 15 Hepatocytes - Hemostasis with confidenceⁱ 1
129 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
MSMO1	Methylsterol monooxygenase 1	0.6746	15
SC5D	Sterol-C5-desaturase	0.6351	15
MVD	Mevalonate diphosphate decarboxylase	0.6234	15
HMGCS1	3-hydroxy-3-methylglutaryl-CoA synthase 1	0.6212	15
HSD17B7	Hydroxysteroid 17-beta dehydrogenase 7	0.6211	15
THRSP	Thyroid hormone responsive	0.5828	15
ACSL1	Acyl-CoA synthetase long chain family member 1	0.5797	15
SERPINF2	Serpin family F member 2	0.5339	15
EBP	EBP cholestenol delta-isomerase	0.5301	15
SAA2-SAA4	SAA2-SAA4 readthrough	0.5196	15
MVK	Mevalonate kinase	0.5179	15
ANGPTL8	Angiopoietin like 8	0.5163	15
SAA1	Serum amyloid A1	0.5151	15
LBP	Lipopolysaccharide binding protein	0.5111	15
SAA2	Serum amyloid A2	0.5090	15

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	119.2 nTPM
Adipose tissue	126.5 nTPM
Breast	111.8 nTPM

Alveolar cells type 1	73.7 nTPM
Lung	73.7 nTPM

Alveolar cells type 2	144.3 nTPM
Lung	144.3 nTPM

Astrocytes	53.8 nTPM
Brain	53.8 nTPM

B-cells	176.2 nTPM
Adipose tissue	359.5 nTPM
Colon	277.9 nTPM
Breast	248.7 nTPM
Lymph node	206.4 nTPM
Spleen	164.8 nTPM
Stomach	152.6 nTPM
Kidney	123.8 nTPM
PBMC	87.1 nTPM
Liver	85.5 nTPM
Bone marrow	55.6 nTPM

Dendritic cells	233.5 nTPM
Breast	373.3 nTPM
Adipose tissue	291.4 nTPM
PBMC	35.8 nTPM

Endothelial cells	64.6 nTPM
Prostate	103.4 nTPM
Skeletal muscle	92.1 nTPM
Esophagus	91.4 nTPM
Placenta	81.9 nTPM
Eye	74.4 nTPM
Ovary	73.2 nTPM
Breast	64.6 nTPM
Pancreas	57.9 nTPM
Skin	55.3 nTPM
Lung	49.9 nTPM
Liver	44.9 nTPM
Endometrium	44.1 nTPM
Heart muscle	38.7 nTPM
Testis	32.0 nTPM

Enteroendocrine cells	106.0 nTPM
Colon	163.4 nTPM
Rectum	48.5 nTPM

Fibroblasts	62.8 nTPM
Prostate	158.5 nTPM
Placenta	96.9 nTPM
Heart muscle	64.5 nTPM
Stomach	57.9 nTPM
Lung	53.6 nTPM
Esophagus	53.5 nTPM
Skin	47.8 nTPM
Breast	45.7 nTPM
Ovary	39.0 nTPM
Skeletal muscle	36.6 nTPM
Adipose tissue	36.4 nTPM

Intestinal goblet cells	107.6 nTPM
Colon	198.7 nTPM
Small intestine	63.4 nTPM
Rectum	60.6 nTPM

Macrophages	88.8 nTPM
Breast	220.0 nTPM
Ovary	205.3 nTPM
Adipose tissue	132.1 nTPM
Endometrium	122.0 nTPM
Prostate	99.7 nTPM
Skeletal muscle	91.4 nTPM
Stomach	90.8 nTPM
Esophagus	86.6 nTPM
Lung	59.4 nTPM
Testis	55.8 nTPM
Spleen	52.9 nTPM
Kidney	42.4 nTPM
Bone marrow	37.5 nTPM
Pancreas	23.0 nTPM
PBMC	13.6 nTPM

Paneth cells	130.9 nTPM
Colon	299.8 nTPM
Small intestine	63.8 nTPM
Rectum	29.1 nTPM

Plasma cells	60.2 nTPM
Adipose tissue	110.2 nTPM
Esophagus	67.8 nTPM
Stomach	65.3 nTPM
Spleen	36.0 nTPM
Bone marrow	21.4 nTPM

Respiratory ciliated cells	65.6 nTPM
Bronchus	71.3 nTPM
Lung	59.8 nTPM

Smooth muscle cells	73.4 nTPM
Prostate	140.0 nTPM
Ovary	97.3 nTPM
Bronchus	93.2 nTPM
Skin	92.8 nTPM
Pancreas	82.7 nTPM
Breast	70.9 nTPM
Esophagus	60.4 nTPM
Heart muscle	46.4 nTPM
Skeletal muscle	44.7 nTPM
Adipose tissue	43.2 nTPM
Endometrium	35.4 nTPM

Basal keratinocytes	89.6 nTPM
Skin	89.6 nTPM

Basal prostatic cells	80.4 nTPM
Prostate	80.4 nTPM

Basal respiratory cells	175.7 nTPM
Bronchus	175.7 nTPM

Basal squamous epithelial cells	58.1 nTPM
Esophagus	58.1 nTPM

T-cells	154.9 nTPM
Breast	373.6 nTPM
Prostate	236.7 nTPM
Adipose tissue	226.7 nTPM
Skin	193.9 nTPM
Colon	178.2 nTPM
Skeletal muscle	167.9 nTPM
Spleen	150.7 nTPM
Esophagus	150.6 nTPM
Lymph node	147.2 nTPM
Ovary	142.3 nTPM
Endometrium	141.8 nTPM
Stomach	127.2 nTPM
Kidney	115.0 nTPM
Liver	87.8 nTPM
Lung	75.9 nTPM
Bone marrow	62.0 nTPM
PBMC	55.3 nTPM

Undifferentiated cells	65.0 nTPM
Colon	122.6 nTPM
Small intestine	38.2 nTPM
Rectum	34.3 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