Single cell type - MID1IP1 - 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.	MID1IP1
Gene descriptionⁱ Full gene name according to HGNC.	MID1 interacting protein 1
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.	4

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	Fibroblasts - ECM organization (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 (Alveolar cells type 2)
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	Immune cell enhanced (eosinophil)
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 (Alveolar cells type 2)

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

MID1IP1 is part of cluster 50 Fibroblasts - ECM organization with confidenceⁱ 1
441 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
KIAA0408	KIAA0408	0.5957	11
CEBPD	CCAAT enhancer binding protein delta	0.5723	41
APOD	Apolipoprotein D	0.5693	50
C16orf89	Chromosome 16 open reading frame 89	0.5621	11
BCL6	BCL6 transcription repressor	0.5364	50
FGF7	Fibroblast growth factor 7	0.5046	50
CXCL12	C-X-C motif chemokine ligand 12	0.5038	50
SOD3	Superoxide dismutase 3	0.4964	50
PODN	Podocan	0.4905	50
EGR1	Early growth response 1	0.4900	50
PDCD1LG2	Programmed cell death 1 ligand 2	0.4884	3
IGFBP5	Insulin like growth factor binding protein 5	0.4801	48
IL15RA	Interleukin 15 receptor subunit alpha	0.4734	50
OLFML1	Olfactomedin like 1	0.4724	50
TRIP10	Thyroid hormone receptor interactor 10	0.4706	3

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	20.3 nTPM
Adipose tissue	20.8 nTPM
Breast	19.9 nTPM

Alveolar cells type 1	80.1 nTPM
Lung	80.1 nTPM

Astrocytes	11.4 nTPM
Brain	11.4 nTPM

B-cells	17.4 nTPM
Lymph node	37.0 nTPM
PBMC	27.1 nTPM
Colon	23.9 nTPM
Liver	20.4 nTPM
Kidney	14.3 nTPM
Adipose tissue	12.0 nTPM
Bone marrow	11.5 nTPM
Spleen	11.1 nTPM
Stomach	8.1 nTPM
Breast	8.1 nTPM

Basal keratinocytes	23.7 nTPM
Skin	23.7 nTPM

Dendritic cells	16.6 nTPM
Breast	21.1 nTPM
PBMC	16.0 nTPM
Adipose tissue	12.7 nTPM

Endothelial cells	25.3 nTPM
Esophagus	89.0 nTPM
Skin	38.9 nTPM
Prostate	34.3 nTPM
Skeletal muscle	30.0 nTPM
Liver	29.3 nTPM
Eye	25.1 nTPM
Breast	20.8 nTPM
Endometrium	18.8 nTPM
Testis	18.7 nTPM
Placenta	14.8 nTPM
Heart muscle	13.0 nTPM
Lung	12.5 nTPM
Ovary	9.4 nTPM
Pancreas	0.0 nTPM

Fibroblasts	57.7 nTPM
Adipose tissue	171.6 nTPM
Esophagus	107.6 nTPM
Skeletal muscle	73.6 nTPM
Skin	61.8 nTPM
Stomach	55.0 nTPM
Prostate	41.2 nTPM
Placenta	30.4 nTPM
Ovary	28.2 nTPM
Breast	24.8 nTPM
Lung	21.2 nTPM
Heart muscle	19.1 nTPM

Intestinal goblet cells	33.2 nTPM
Colon	45.8 nTPM
Rectum	36.9 nTPM
Small intestine	16.8 nTPM

Macrophages	60.5 nTPM
Prostate	122.7 nTPM
Esophagus	108.6 nTPM
Breast	82.0 nTPM
Endometrium	81.0 nTPM
Adipose tissue	67.1 nTPM
Testis	66.2 nTPM
Stomach	61.5 nTPM
Spleen	53.9 nTPM
Kidney	52.9 nTPM
Lung	46.2 nTPM
Pancreas	43.4 nTPM
Skeletal muscle	42.8 nTPM
Ovary	32.4 nTPM
PBMC	27.3 nTPM
Bone marrow	20.0 nTPM

Paneth cells	24.4 nTPM
Rectum	31.2 nTPM
Colon	23.1 nTPM
Small intestine	18.8 nTPM

Plasma cells	6.9 nTPM
Spleen	11.0 nTPM
Adipose tissue	10.3 nTPM
Bone marrow	8.2 nTPM
Stomach	4.7 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	48.0 nTPM
Bronchus	50.9 nTPM
Lung	45.2 nTPM

Smooth muscle cells	52.8 nTPM
Skin	146.8 nTPM
Esophagus	94.6 nTPM
Prostate	90.0 nTPM
Adipose tissue	56.6 nTPM
Skeletal muscle	45.2 nTPM
Pancreas	44.2 nTPM
Breast	43.1 nTPM
Endometrium	26.1 nTPM
Bronchus	13.3 nTPM
Ovary	13.3 nTPM
Heart muscle	8.0 nTPM

T-cells	35.4 nTPM
Lymph node	71.5 nTPM
Skin	64.9 nTPM
Prostate	61.6 nTPM
Breast	45.8 nTPM
Lung	39.5 nTPM
Adipose tissue	38.8 nTPM
PBMC	38.5 nTPM
Ovary	35.6 nTPM
Colon	33.7 nTPM
Kidney	32.9 nTPM
Endometrium	29.6 nTPM
Liver	22.6 nTPM
Stomach	20.7 nTPM
Spleen	19.4 nTPM
Skeletal muscle	18.7 nTPM
Bone marrow	15.7 nTPM
Esophagus	13.1 nTPM

Collecting duct cells	20.2 nTPM
Kidney	20.2 nTPM

Cone photoreceptor cells	4.2 nTPM
Eye	4.2 nTPM

Cytotrophoblasts	3.7 nTPM
Placenta	3.7 nTPM

Distal enterocytes	23.3 nTPM
Colon	28.9 nTPM
Rectum	17.6 nTPM

Undifferentiated cells	25.5 nTPM
Colon	37.4 nTPM
Rectum	20.0 nTPM
Small intestine	19.1 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