Single cell type - TMA16 - 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.	TMA16
Gene descriptionⁱ Full gene name according to HGNC.	Translation machinery associated 16 homolog
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.	5

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	Spermatocytes - Spermatogenesis (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 (Late spermatids, Early spermatids)
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: Cell type enhanced (Late spermatids, Early spermatids)

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

TMA16 is part of cluster 66 Spermatocytes - Spermatogenesis with confidenceⁱ 0.98
507 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
MRPL51	Mitochondrial ribosomal protein L51	0.6326	39
C17orf64	Chromosome 17 open reading frame 64	0.5853	66
ROPN1	Rhophilin associated tail protein 1	0.5756	66
MAP7D3	MAP7 domain containing 3	0.5611	50
RNF114	Ring finger protein 114	0.5583	66
FAM47B	Family with sequence similarity 47 member B	0.5546	34
NSA2	NSA2 ribosome biogenesis factor	0.5541	32
MRPL42	Mitochondrial ribosomal protein L42	0.5330	39
C18orf21	Chromosome 18 open reading frame 21	0.5241	66
MRPL36	Mitochondrial ribosomal protein L36	0.5141	39
SNUPN	Snurportin 1	0.5140	66
MBD3L1	Methyl-CpG binding domain protein 3 like 1	0.5106	23
CMTM2	CKLF like MARVEL transmembrane domain containing 2	0.5051	66
ZNF177	Zinc finger protein 177	0.5008	66
BTBD16	BTB domain containing 16	0.4998	34

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	25.7 nTPM
Adipose tissue	26.1 nTPM
Breast	25.3 nTPM

Alveolar cells type 1	22.4 nTPM
Lung	22.4 nTPM

Alveolar cells type 2	31.2 nTPM
Lung	31.2 nTPM

Astrocytes	3.3 nTPM
Brain	3.3 nTPM

B-cells	51.2 nTPM
Liver	115.1 nTPM
Kidney	76.1 nTPM
PBMC	68.5 nTPM
Spleen	48.4 nTPM
Bone marrow	46.6 nTPM
Adipose tissue	43.1 nTPM
Breast	33.4 nTPM
Stomach	30.9 nTPM
Lymph node	26.3 nTPM
Colon	23.9 nTPM

Dendritic cells	25.6 nTPM
PBMC	43.8 nTPM
Adipose tissue	20.6 nTPM
Breast	12.4 nTPM

Endothelial cells	30.0 nTPM
Pancreas	61.8 nTPM
Liver	38.5 nTPM
Breast	38.5 nTPM
Placenta	37.5 nTPM
Testis	32.3 nTPM
Prostate	29.9 nTPM
Endometrium	27.8 nTPM
Heart muscle	26.7 nTPM
Skin	26.4 nTPM
Ovary	23.5 nTPM
Lung	21.8 nTPM
Eye	21.0 nTPM
Esophagus	19.0 nTPM
Skeletal muscle	15.3 nTPM

Fibroblasts	37.9 nTPM
Adipose tissue	65.1 nTPM
Lung	58.1 nTPM
Placenta	48.6 nTPM
Ovary	45.7 nTPM
Heart muscle	41.4 nTPM
Breast	39.7 nTPM
Skin	31.6 nTPM
Skeletal muscle	25.5 nTPM
Stomach	22.3 nTPM
Prostate	20.9 nTPM
Esophagus	18.5 nTPM

Intestinal goblet cells	37.5 nTPM
Colon	47.2 nTPM
Rectum	36.9 nTPM
Small intestine	28.3 nTPM

Macrophages	25.4 nTPM
Kidney	50.6 nTPM
Testis	41.2 nTPM
Pancreas	40.8 nTPM
Lung	36.3 nTPM
Endometrium	34.2 nTPM
Adipose tissue	29.3 nTPM
Spleen	23.9 nTPM
Breast	23.0 nTPM
Skeletal muscle	21.0 nTPM
Ovary	20.0 nTPM
Bone marrow	18.8 nTPM
Prostate	17.2 nTPM
Esophagus	15.8 nTPM
Stomach	8.8 nTPM
PBMC	0.0 nTPM

Paneth cells	30.6 nTPM
Rectum	41.9 nTPM
Small intestine	30.0 nTPM
Colon	19.7 nTPM

Plasma cells	30.0 nTPM
Spleen	46.4 nTPM
Bone marrow	36.2 nTPM
Stomach	33.0 nTPM
Adipose tissue	21.9 nTPM
Esophagus	12.3 nTPM

Respiratory ciliated cells	19.0 nTPM
Bronchus	22.0 nTPM
Lung	16.0 nTPM

Smooth muscle cells	33.7 nTPM
Pancreas	78.4 nTPM
Adipose tissue	40.8 nTPM
Endometrium	39.1 nTPM
Skin	34.9 nTPM
Breast	33.7 nTPM
Heart muscle	33.6 nTPM
Ovary	33.1 nTPM
Skeletal muscle	24.8 nTPM
Prostate	22.2 nTPM
Esophagus	20.1 nTPM
Bronchus	10.5 nTPM

T-cells	24.1 nTPM
Esophagus	39.3 nTPM
PBMC	38.0 nTPM
Liver	37.1 nTPM
Adipose tissue	34.1 nTPM
Kidney	31.5 nTPM
Skin	24.0 nTPM
Prostate	23.6 nTPM
Lung	22.8 nTPM
Endometrium	22.7 nTPM
Colon	21.4 nTPM
Lymph node	21.1 nTPM
Bone marrow	20.8 nTPM
Stomach	18.7 nTPM
Breast	16.9 nTPM
Spleen	16.6 nTPM
Skeletal muscle	12.4 nTPM
Ovary	8.9 nTPM

Basal keratinocytes	32.9 nTPM
Skin	32.9 nTPM

Basal respiratory cells	52.0 nTPM
Bronchus	52.0 nTPM

Basal squamous epithelial cells	29.6 nTPM
Esophagus	29.6 nTPM

Cholangiocytes	47.1 nTPM
Liver	47.1 nTPM

Undifferentiated cells	44.0 nTPM
Colon	47.4 nTPM
Small intestine	45.2 nTPM
Rectum	39.2 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