Single cell type - SMIM10L1 - 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.	SMIM10L1
Gene descriptionⁱ Full gene name according to HGNC.	Small integral membrane protein 10 like 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.	1

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 - Mitochondria (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

SMIM10L1 is part of cluster 7 Non-specific - Mitochondria with confidenceⁱ 1
481 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
MTERF3	Mitochondrial transcription termination factor 3	0.5534	47
BORCS8	BLOC-1 related complex subunit 8	0.5224	7
CDPF1	Cysteine rich DPF motif domain containing 1	0.5165	63
ZNF22	Zinc finger protein 22	0.4953	32
UFD1	Ubiquitin recognition factor in ER associated degradation 1	0.4811	7
PIGBOS1	PIGB opposite strand 1	0.4801	39
BUD23	BUD23 rRNA methyltransferase and ribosome maturation factor	0.4793	7
STN1	STN1 subunit of CST complex	0.4734	7
MRPL58	Mitochondrial ribosomal protein L58	0.4561	7
ERG28	Ergosterol biosynthesis 28 homolog	0.4521	7
SELENOH	Selenoprotein H	0.4496	7
ZSCAN26	Zinc finger and SCAN domain containing 26	0.4461	52
INTS11	Integrator complex subunit 11	0.4418	7
FADD	Fas associated via death domain	0.4405	47
ESS2	Ess-2 splicing factor homolog	0.4381	7

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	33.8 nTPM
Breast	43.1 nTPM
Adipose tissue	24.5 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	27.4 nTPM
Lung	27.4 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	25.6 nTPM
PBMC	38.6 nTPM
Stomach	36.3 nTPM
Liver	32.7 nTPM
Breast	30.7 nTPM
Adipose tissue	30.6 nTPM
Spleen	30.1 nTPM
Lymph node	26.3 nTPM
Bone marrow	25.3 nTPM
Kidney	4.8 nTPM
Colon	0.0 nTPM

Dendritic cells	47.3 nTPM
Adipose tissue	54.4 nTPM
PBMC	43.8 nTPM
Breast	43.8 nTPM

Endothelial cells	36.1 nTPM
Placenta	54.6 nTPM
Pancreas	54.0 nTPM
Lung	49.9 nTPM
Testis	47.7 nTPM
Prostate	44.6 nTPM
Breast	38.6 nTPM
Liver	38.5 nTPM
Endometrium	36.4 nTPM
Ovary	34.3 nTPM
Heart muscle	31.9 nTPM
Eye	27.5 nTPM
Skeletal muscle	24.3 nTPM
Esophagus	23.5 nTPM
Skin	0.0 nTPM

Fibroblasts	28.0 nTPM
Heart muscle	60.3 nTPM
Placenta	41.3 nTPM
Breast	32.4 nTPM
Lung	31.3 nTPM
Ovary	30.3 nTPM
Prostate	27.5 nTPM
Adipose tissue	23.1 nTPM
Skeletal muscle	22.5 nTPM
Stomach	20.8 nTPM
Esophagus	18.8 nTPM
Skin	0.0 nTPM

Intestinal goblet cells	18.5 nTPM
Small intestine	31.0 nTPM
Rectum	24.4 nTPM
Colon	0.0 nTPM

Macrophages	26.8 nTPM
Pancreas	53.7 nTPM
Prostate	42.3 nTPM
Ovary	38.7 nTPM
Endometrium	32.4 nTPM
Breast	32.3 nTPM
PBMC	27.3 nTPM
Lung	26.3 nTPM
Testis	23.2 nTPM
Kidney	21.9 nTPM
Adipose tissue	21.5 nTPM
Skeletal muscle	20.2 nTPM
Bone marrow	18.8 nTPM
Spleen	17.6 nTPM
Stomach	14.7 nTPM
Esophagus	11.0 nTPM

Paneth cells	13.3 nTPM
Rectum	25.0 nTPM
Small intestine	15.0 nTPM
Colon	0.0 nTPM

Plasma cells	41.8 nTPM
Esophagus	67.8 nTPM
Stomach	44.8 nTPM
Bone marrow	36.2 nTPM
Spleen	35.8 nTPM
Adipose tissue	24.5 nTPM

Respiratory ciliated cells	16.8 nTPM
Lung	33.5 nTPM
Bronchus	0.0 nTPM

Smooth muscle cells	33.6 nTPM
Heart muscle	76.3 nTPM
Pancreas	67.2 nTPM
Breast	47.8 nTPM
Ovary	41.5 nTPM
Prostate	36.2 nTPM
Esophagus	29.4 nTPM
Endometrium	29.1 nTPM
Skeletal muscle	25.3 nTPM
Adipose tissue	17.2 nTPM
Skin	0.0 nTPM
Bronchus	0.0 nTPM

T-cells	30.7 nTPM
PBMC	48.1 nTPM
Adipose tissue	46.7 nTPM
Endometrium	42.3 nTPM
Liver	38.7 nTPM
Ovary	37.8 nTPM
Kidney	34.9 nTPM
Breast	34.5 nTPM
Prostate	33.1 nTPM
Esophagus	32.8 nTPM
Stomach	32.5 nTPM
Skeletal muscle	31.9 nTPM
Lung	30.4 nTPM
Spleen	27.6 nTPM
Bone marrow	26.1 nTPM
Lymph node	24.8 nTPM
Colon	0.0 nTPM
Skin	0.0 nTPM

Basal prostatic cells	15.3 nTPM
Prostate	15.3 nTPM

Basal squamous epithelial cells	23.3 nTPM
Esophagus	23.3 nTPM

Collecting duct cells	7.3 nTPM
Kidney	7.3 nTPM

Cytotrophoblasts	56.7 nTPM
Placenta	56.7 nTPM

Undifferentiated cells	17.3 nTPM
Small intestine	28.7 nTPM
Rectum	23.2 nTPM
Colon	0.0 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