Single cell type - BCAT1 - 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.	BCAT1
Gene descriptionⁱ Full gene name according to HGNC.	Branched chain amino acid transaminase 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.	6

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	Spermatids - Unknown function (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, Langerhans cells, Bipolar cells, Early spermatids, Exocrine glandular cells)
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 (non-classical monocyte)
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	Cell line enhanced (HDLM-2, NTERA-2, RH-30)
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: Cell type enhanced (Late spermatids, Langerhans cells, Bipolar cells, Early spermatids, Exocrine glandular cells)

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

BCAT1 is part of cluster 34 Spermatids - Unknown function with confidenceⁱ 1
366 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
ATP6V1A	ATPase H+ transporting V1 subunit A	0.5473	31
FAM78A	Family with sequence similarity 78 member A	0.5077	40
HOOK1	Hook microtubule tethering protein 1	0.4877	34
NAPB	NSF attachment protein beta	0.4824	56
KIAA1210	KIAA1210	0.4749	36
HPCA	Hippocalcin	0.4508	56
SPATA7	Spermatogenesis associated 7	0.4494	34
SOCS7	Suppressor of cytokine signaling 7	0.4460	34
SERAC1	Serine active site containing 1	0.4458	34
DCAF12L1	DDB1 and CUL4 associated factor 12 like 1	0.4316	31
ZNF516	Zinc finger protein 516	0.4315	44
KSR1	Kinase suppressor of ras 1	0.4309	44
SFXN3	Sideroflexin 3	0.4299	31
AVPI1	Arginine vasopressin induced 1	0.4274	40
SOGA1	Suppressor of glucose, autophagy associated 1	0.4274	40

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	1.7 nTPM
Adipose tissue	2.0 nTPM
Breast	1.3 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	26.0 nTPM
Lung	26.0 nTPM

Astrocytes	1.6 nTPM
Brain	1.6 nTPM

B-cells	1.3 nTPM
Liver	2.5 nTPM
Stomach	2.2 nTPM
Adipose tissue	2.0 nTPM
Spleen	1.7 nTPM
Colon	1.6 nTPM
Lymph node	1.5 nTPM
Breast	1.3 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM

Dendritic cells	4.3 nTPM
PBMC	12.0 nTPM
Adipose tissue	0.8 nTPM
Breast	0.0 nTPM

Endothelial cells	16.8 nTPM
Lung	62.4 nTPM
Pancreas	34.7 nTPM
Endometrium	26.5 nTPM
Eye	24.2 nTPM
Ovary	21.4 nTPM
Placenta	21.0 nTPM
Skin	14.5 nTPM
Esophagus	11.3 nTPM
Liver	8.2 nTPM
Prostate	3.2 nTPM
Heart muscle	3.0 nTPM
Testis	1.8 nTPM
Skeletal muscle	1.7 nTPM
Breast	1.4 nTPM

Fibroblasts	27.6 nTPM
Ovary	111.9 nTPM
Placenta	52.1 nTPM
Esophagus	36.3 nTPM
Stomach	25.3 nTPM
Heart muscle	16.0 nTPM
Adipose tissue	15.2 nTPM
Skeletal muscle	14.7 nTPM
Lung	14.5 nTPM
Skin	8.3 nTPM
Breast	5.6 nTPM
Prostate	3.4 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Macrophages	59.9 nTPM
Esophagus	136.9 nTPM
Testis	102.8 nTPM
Adipose tissue	96.8 nTPM
Prostate	92.8 nTPM
Ovary	81.2 nTPM
Skeletal muscle	76.2 nTPM
Bone marrow	62.5 nTPM
Spleen	53.9 nTPM
Kidney	38.6 nTPM
Stomach	38.1 nTPM
Pancreas	35.7 nTPM
Endometrium	28.0 nTPM
Lung	21.5 nTPM
Breast	20.6 nTPM
PBMC	13.6 nTPM

Paneth cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Plasma cells	0.7 nTPM
Stomach	1.4 nTPM
Adipose tissue	1.3 nTPM
Spleen	0.6 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	3.3 nTPM
Bronchus	6.5 nTPM
Lung	0.0 nTPM

Smooth muscle cells	17.4 nTPM
Ovary	86.3 nTPM
Pancreas	81.8 nTPM
Endometrium	12.8 nTPM
Skin	2.5 nTPM
Bronchus	1.8 nTPM
Adipose tissue	1.8 nTPM
Esophagus	1.5 nTPM
Skeletal muscle	1.2 nTPM
Prostate	0.9 nTPM
Heart muscle	0.5 nTPM
Breast	0.2 nTPM

T-cells	2.8 nTPM
Endometrium	13.5 nTPM
Prostate	9.5 nTPM
Skin	6.4 nTPM
Colon	6.2 nTPM
Lung	4.5 nTPM
Adipose tissue	1.4 nTPM
Skeletal muscle	1.3 nTPM
Liver	0.8 nTPM
Stomach	0.8 nTPM
Kidney	0.7 nTPM
Lymph node	0.7 nTPM
PBMC	0.5 nTPM
Spleen	0.5 nTPM
Breast	0.2 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Basal keratinocytes	8.7 nTPM
Skin	8.7 nTPM

Basal prostatic cells	0.1 nTPM
Prostate	0.1 nTPM

Cone photoreceptor cells	2.1 nTPM
Eye	2.1 nTPM

Cytotrophoblasts	61.2 nTPM
Placenta	61.2 nTPM

Undifferentiated cells	0.1 nTPM
Colon	0.3 nTPM
Small intestine	0.0 nTPM
Rectum	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