Single cell type - ACLY - The Human Protein Atlas

ACLY

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Pathway

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.	ACLY
Gene descriptionⁱ Full gene name according to HGNC.	ATP citrate lyase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-related genes Citric acid cycle related proteins Enzymes FDA approved drug targets Metabolic proteins Plasma 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.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	7

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.	Proximal tubular cells - Transmembrane transport (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.	Low cell type specificity
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.30
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	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.	Low immune cell specificity
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized 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 RNA single cell type specificity: Low cell type specificity

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

ACLY is part of cluster 38 Proximal tubular cells - Transmembrane transport with confidenceⁱ 1
131 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ABCC6	ATP binding cassette subfamily C member 6	0.5971	38
KL	Klotho	0.5628	38
SLC17A1	Solute carrier family 17 member 1	0.5196	38
ACSM2A	Acyl-CoA synthetase medium chain family member 2A	0.4976	62
SLC36A2	Solute carrier family 36 member 2	0.4909	38
FCAMR	Fc alpha and mu receptor	0.4899	38
CLEC18C	C-type lectin domain family 18 member C	0.4860	38
SLC22A2	Solute carrier family 22 member 2	0.4837	38
LBX2	Ladybird homeobox 2	0.4837	38
UGT1A9	UDP glucuronosyltransferase family 1 member A9	0.4832	38
WDR72	WD repeat domain 72	0.4800	38
NAT8	N-acetyltransferase 8 (putative)	0.4790	38
PRODH2	Proline dehydrogenase 2	0.4770	38
SLC17A3	Solute carrier family 17 member 3	0.4767	38
CLTRN	Collectrin, amino acid transport regulator	0.4726	38

IMMUNE CELLS

ACLY is part of cluster 37 Monocytes & Neutrophils - Innate immune response with confidenceⁱ 0.57
275 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
WDR1	WD repeat domain 1	0.9762	37
ACTR1A	Actin related protein 1A	0.9762	37
ACAA1	Acetyl-CoA acyltransferase 1	0.9524	10
ATP6V1D	ATPase H+ transporting V1 subunit D	0.9524	37
VPS26C	VPS26 endosomal protein sorting factor C	0.9524	37
COX7B	Cytochrome c oxidase subunit 7B	0.9524	10
CHMP1A	Charged multivesicular body protein 1A	0.9286	37
DHX16	DEAH-box helicase 16	0.9286	37
FUCA1	Alpha-L-fucosidase 1	0.9286	37
RTL8C	Retrotransposon Gag like 8C	0.9286	37
FBXO42	F-box protein 42	0.9286	10
NUCB1	Nucleobindin 1	0.9286	37
ADGRE2	Adhesion G protein-coupled receptor E2	0.9048	37
TPMT	Thiopurine S-methyltransferase	0.9048	37
ARRB1	Arrestin beta 1	0.9048	37

Adipocytes	26.3 nTPM
Adipose tissue	29.5 nTPM
Breast	23.2 nTPM

Alveolar cells type 1	60.2 nTPM
Lung	60.2 nTPM

Alveolar cells type 2	77.5 nTPM
Lung	77.5 nTPM

Astrocytes	11.8 nTPM
Brain	11.8 nTPM

B-cells	21.6 nTPM
Thymus	27.7 nTPM
Spleen	26.7 nTPM
Lymph node	26.1 nTPM
Kidney	26.0 nTPM
Stomach	24.9 nTPM
Salivary gland	24.6 nTPM
Skin	23.7 nTPM
Esophagus	23.6 nTPM
Bone marrow	22.5 nTPM
Lung	18.8 nTPM
Adipose tissue	15.2 nTPM
PBMC	10.8 nTPM
Liver	9.7 nTPM

Ciliated cells	30.3 nTPM
Bronchus	34.4 nTPM
Endometrium	31.6 nTPM
Fallopian tube	29.1 nTPM
Lung	26.2 nTPM

Club cells	23.1 nTPM
Lung	30.1 nTPM
Bronchus	22.9 nTPM
Prostate	16.1 nTPM

Dendritic cells	23.1 nTPM
PBMC	25.2 nTPM
Adipose tissue	21.1 nTPM

Endothelial cells	31.6 nTPM
Liver	47.9 nTPM
Placenta	47.1 nTPM
Lung	41.6 nTPM
Breast	38.7 nTPM
Vascular	37.4 nTPM
Thymus	34.2 nTPM
Endometrium	34.1 nTPM
Heart muscle	32.6 nTPM
Esophagus	30.2 nTPM
Testis	28.4 nTPM
Pancreas	28.4 nTPM
Salivary gland	28.1 nTPM
Fallopian tube	25.3 nTPM
Skeletal muscle	24.9 nTPM
Skin	24.6 nTPM
Prostate	23.6 nTPM
Tongue	21.1 nTPM
Ovary	20.6 nTPM

Enteroendocrine cells	43.8 nTPM
Rectum	57.0 nTPM
Small intestine	54.9 nTPM
Colon	19.6 nTPM

Fibroblasts	33.0 nTPM
Pancreas	67.7 nTPM
Thymus	56.7 nTPM
Vascular	47.8 nTPM
Liver	41.5 nTPM
Skeletal muscle	35.4 nTPM
Lung	32.4 nTPM
Skin	31.9 nTPM
Heart muscle	29.3 nTPM
Fallopian tube	29.0 nTPM
Adipose tissue	28.8 nTPM
Salivary gland	28.4 nTPM
Placenta	21.9 nTPM
Esophagus	21.7 nTPM
Prostate	21.1 nTPM
Stomach	17.3 nTPM
Breast	16.4 nTPM

Granulocytes	22.7 nTPM
Lung	26.2 nTPM
Tongue	24.3 nTPM
Fallopian tube	17.7 nTPM

Intestinal goblet cells	43.3 nTPM
Rectum	53.6 nTPM
Colon	38.6 nTPM
Small intestine	37.7 nTPM

Lymphatic endothelial cells	36.6 nTPM
Fallopian tube	51.3 nTPM
Ovary	21.8 nTPM

Macrophages	30.7 nTPM
Spleen	58.1 nTPM
Bone marrow	44.6 nTPM
Lung	37.9 nTPM
Kidney	36.3 nTPM
Stomach	36.0 nTPM
Thymus	35.0 nTPM
Vascular	32.5 nTPM
Fallopian tube	32.0 nTPM
Skeletal muscle	30.6 nTPM
Adipose tissue	30.3 nTPM
Salivary gland	30.2 nTPM
Tongue	29.3 nTPM
Prostate	27.3 nTPM
Skin	25.6 nTPM
Testis	23.6 nTPM
Endometrium	22.8 nTPM
Breast	18.6 nTPM
Esophagus	18.0 nTPM
Pancreas	14.4 nTPM

Basal prostatic cells	16.9 nTPM
Prostate	16.9 nTPM

Basal respiratory cells	24.8 nTPM
Bronchus	24.8 nTPM

Basal squamous epithelial cells	14.8 nTPM
Esophagus	14.8 nTPM

Bipolar cells	11.4 nTPM
Eye	11.4 nTPM

Paneth cells	17.1 nTPM
Rectum	22.8 nTPM
Colon	21.7 nTPM
Small intestine	6.9 nTPM

Plasma cells	24.0 nTPM
Thymus	46.3 nTPM
Liver	33.5 nTPM
Spleen	32.5 nTPM
Bone marrow	19.6 nTPM
Fallopian tube	15.8 nTPM
Esophagus	15.6 nTPM
Stomach	15.5 nTPM
Salivary gland	13.0 nTPM

Schwann cells	38.6 nTPM
Esophagus	47.9 nTPM
Vascular	37.1 nTPM
Adipose tissue	30.8 nTPM

Serous glandular cells	15.5 nTPM
Salivary gland	22.2 nTPM
Tongue	8.8 nTPM

Smooth muscle cells	22.7 nTPM
Placenta	43.5 nTPM
Liver	42.0 nTPM
Thymus	37.4 nTPM
Vascular	32.8 nTPM
Lung	25.9 nTPM
Esophagus	22.8 nTPM
Endometrium	21.7 nTPM
Tongue	18.6 nTPM
Skin	18.0 nTPM
Salivary gland	16.3 nTPM
Prostate	15.8 nTPM
Adipose tissue	15.6 nTPM
Skeletal muscle	15.2 nTPM
Breast	14.4 nTPM
Fallopian tube	12.9 nTPM
Ovary	10.6 nTPM

Suprabasal keratinocytes	32.3 nTPM
Tongue	34.5 nTPM
Skin	30.2 nTPM

T-cells	24.7 nTPM
Stomach	35.5 nTPM
Tongue	35.2 nTPM
Thymus	32.9 nTPM
Bone marrow	31.4 nTPM
Skeletal muscle	30.6 nTPM
Spleen	30.4 nTPM
Vascular	26.9 nTPM
Skin	25.9 nTPM
Liver	25.6 nTPM
Lung	25.6 nTPM
Lymph node	25.5 nTPM
Endometrium	24.1 nTPM
Salivary gland	21.9 nTPM
Adipose tissue	21.0 nTPM
Prostate	20.8 nTPM
Kidney	20.4 nTPM
Esophagus	19.5 nTPM
Breast	19.3 nTPM
PBMC	18.2 nTPM
Fallopian tube	16.2 nTPM
Colon	11.7 nTPM

Undifferentiated cells	23.6 nTPM
Colon	28.1 nTPM
Rectum	25.5 nTPM
Small intestine	17.2 nTPM

Amygdala excitatory	18.6 nTPM
Thalamus	24.0 nTPM
Amygdala	19.8 nTPM
Hypothalamus	18.0 nTPM
Hippocampus	17.8 nTPM
Basal ganglia	16.4 nTPM
Cerebral cortex	15.3 nTPM

Astrocyte	21.4 nTPM
Spinal cord	27.8 nTPM
Medulla oblongata	27.3 nTPM
Pons	26.7 nTPM
Thalamus	22.4 nTPM
Hypothalamus	21.1 nTPM
Midbrain	20.8 nTPM
Cerebral cortex	20.1 nTPM
Cerebellum	18.9 nTPM
Hippocampus	18.8 nTPM
Amygdala	17.3 nTPM
Basal ganglia	14.8 nTPM

Bergmann glia	22.2 nTPM
Cerebellum	27.9 nTPM
Pons	21.6 nTPM
Medulla oblongata	17.0 nTPM

Central nervous system macrophage	30.0 nTPM
Cerebellum	34.4 nTPM
Midbrain	33.3 nTPM
Thalamus	32.6 nTPM
Amygdala	32.5 nTPM
Hippocampus	31.4 nTPM
Hypothalamus	31.0 nTPM
Pons	30.8 nTPM
Medulla oblongata	29.4 nTPM
Cerebral cortex	26.3 nTPM
Basal ganglia	25.9 nTPM
Spinal cord	22.7 nTPM

Cerebellar inhibitory	26.7 nTPM
Pons	28.1 nTPM
Spinal cord	27.5 nTPM
Midbrain	26.4 nTPM
Medulla oblongata	26.1 nTPM
Cerebellum	25.5 nTPM

Cge interneuron	26.2 nTPM
Thalamus	34.7 nTPM
Hippocampus	27.1 nTPM
Hypothalamus	25.9 nTPM
Midbrain	25.4 nTPM
Amygdala	24.3 nTPM
Cerebral cortex	23.4 nTPM
Basal ganglia	22.6 nTPM

Choroid plexus epithelial cell	22.7 nTPM
Basal ganglia	29.0 nTPM
Medulla oblongata	23.1 nTPM
Hippocampus	19.4 nTPM
Thalamus	19.2 nTPM

Committed oligodendrocyte precursor	48.6 nTPM
Pons	78.8 nTPM
Spinal cord	69.9 nTPM
Midbrain	54.6 nTPM
Hippocampus	52.0 nTPM
Cerebral cortex	50.0 nTPM
Medulla oblongata	47.8 nTPM
Cerebellum	46.0 nTPM
Amygdala	42.9 nTPM
Basal ganglia	34.5 nTPM
Hypothalamus	29.4 nTPM
Thalamus	28.6 nTPM

Deep-layer corticothalamic and 6b	16.4 nTPM
Midbrain	17.8 nTPM
Hippocampus	17.7 nTPM
Hypothalamus	17.6 nTPM
Amygdala	17.4 nTPM
Cerebral cortex	14.2 nTPM
Basal ganglia	13.6 nTPM

Deep-layer intratelencephalic	19.0 nTPM
Hypothalamus	22.1 nTPM
Amygdala	19.3 nTPM
Hippocampus	18.2 nTPM
Basal ganglia	17.9 nTPM
Cerebral cortex	17.4 nTPM

Deep-layer near-projecting	24.6 nTPM
Hypothalamus	30.2 nTPM
Cerebral cortex	25.0 nTPM
Amygdala	24.6 nTPM
Basal ganglia	23.6 nTPM
Hippocampus	19.8 nTPM

Eccentric medium spiny neuron	19.6 nTPM
Cerebral cortex	20.3 nTPM
Hypothalamus	20.3 nTPM
Hippocampus	19.9 nTPM
Thalamus	19.5 nTPM
Basal ganglia	19.1 nTPM
Amygdala	18.8 nTPM