Single cell type - FUNDC1 - The Human Protein Atlas

FUNDC1

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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.	FUNDC1
Gene descriptionⁱ Full gene name according to HGNC.	FUN14 domain containing 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.	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.	Non-specific - Basic cellular processes (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.	0.35
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

FUNDC1 is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 0.98
835 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.
MTRES1	Mitochondrial transcription rescue factor 1	0.5556	39
CLNS1A	Chloride nucleotide-sensitive channel 1A	0.5408	39
SNAPIN	SNAP associated protein	0.5396	39
HPF1	Histone PARylation factor 1	0.5393	39
SMIM8	Small integral membrane protein 8	0.5228	68
ZNF428	Zinc finger protein 428	0.5136	10
ZNF226	Zinc finger protein 226	0.5083	35
BSND	Barttin CLCNK type accessory subunit beta	0.5042	39
PFN2	Profilin 2	0.4985	10
DARS1	Aspartyl-tRNA synthetase 1	0.4802	39
KPTN	Kaptin, actin binding protein	0.4797	58
TMEM128	Transmembrane protein 128	0.4775	6
LRRC42	Leucine rich repeat containing 42	0.4771	35
HS3ST1	Heparan sulfate-glucosamine 3-sulfotransferase 1	0.4769	6
NDUFS4	NADH:ubiquinone oxidoreductase subunit S4	0.4721	39

IMMUNE CELLS

FUNDC1 is part of cluster 12 Non-specific - Mitochondrial translation with confidenceⁱ 0.72
566 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.
TASP1	Taspase 1	0.9762	12
EIF1AX	Eukaryotic translation initiation factor 1A X-linked	0.9762	12
GPX7	Glutathione peroxidase 7	0.9762	12
CETN3	Centrin 3	0.9762	12
CNPY2	Canopy FGF signaling regulator 2	0.9524	12
USP7	Ubiquitin specific peptidase 7	0.9524	12
EMD	Emerin	0.9524	12
EIF3J	Eukaryotic translation initiation factor 3 subunit J	0.9524	12
CHCHD7	Coiled-coil-helix-coiled-coil-helix domain containing 7	0.9524	12
DUS1L	Dihydrouridine synthase 1 like	0.9524	12
TM7SF2	Transmembrane 7 superfamily member 2	0.9524	30
XPA	XPA, DNA damage recognition and repair factor	0.9286	12
PRIM2	DNA primase subunit 2	0.9286	8
FOXK2	Forkhead box K2	0.9286	8
MYO9A	Myosin IXA	0.9286	30

Adipocytes	14.2 nTPM
Breast	15.6 nTPM
Adipose tissue	12.9 nTPM

Alveolar cells type 1	12.1 nTPM
Lung	12.1 nTPM

Alveolar cells type 2	15.3 nTPM
Lung	15.3 nTPM

Astrocytes	5.0 nTPM
Brain	5.0 nTPM

B-cells	12.2 nTPM
Liver	19.3 nTPM
Lung	17.4 nTPM
Salivary gland	16.1 nTPM
Kidney	15.6 nTPM
Bone marrow	14.1 nTPM
PBMC	13.9 nTPM
Lymph node	13.1 nTPM
Esophagus	11.8 nTPM
Spleen	10.1 nTPM
Stomach	9.3 nTPM
Thymus	8.7 nTPM
Adipose tissue	7.4 nTPM
Skin	1.7 nTPM

Ciliated cells	23.5 nTPM
Bronchus	32.1 nTPM
Endometrium	24.3 nTPM
Fallopian tube	20.4 nTPM
Lung	17.2 nTPM

Club cells	31.7 nTPM
Bronchus	48.2 nTPM
Prostate	25.2 nTPM
Lung	21.6 nTPM

Dendritic cells	16.5 nTPM
PBMC	21.6 nTPM
Adipose tissue	11.4 nTPM

Endothelial cells	15.3 nTPM
Breast	24.6 nTPM
Placenta	23.3 nTPM
Testis	22.6 nTPM
Heart muscle	22.5 nTPM
Ovary	20.3 nTPM
Skeletal muscle	18.3 nTPM
Endometrium	14.1 nTPM
Tongue	13.8 nTPM
Vascular	13.7 nTPM
Fallopian tube	13.7 nTPM
Pancreas	12.9 nTPM
Lung	12.8 nTPM
Thymus	12.1 nTPM
Esophagus	11.7 nTPM
Salivary gland	10.7 nTPM
Prostate	10.6 nTPM
Skin	9.7 nTPM
Liver	7.6 nTPM

Enteroendocrine cells	19.5 nTPM
Small intestine	30.9 nTPM
Colon	20.9 nTPM
Rectum	6.7 nTPM

Fibroblasts	19.6 nTPM
Placenta	40.2 nTPM
Heart muscle	36.1 nTPM
Pancreas	26.9 nTPM
Breast	24.3 nTPM
Liver	22.5 nTPM
Adipose tissue	22.3 nTPM
Prostate	21.8 nTPM
Lung	15.2 nTPM
Skeletal muscle	15.0 nTPM
Esophagus	14.6 nTPM
Stomach	13.0 nTPM
Vascular	12.7 nTPM
Skin	12.3 nTPM
Thymus	12.3 nTPM
Fallopian tube	12.3 nTPM
Salivary gland	11.6 nTPM

Granulocytes	15.3 nTPM
Lung	25.7 nTPM
Fallopian tube	10.6 nTPM
Tongue	9.7 nTPM

Intestinal goblet cells	12.1 nTPM
Rectum	17.0 nTPM
Colon	12.1 nTPM
Small intestine	7.4 nTPM

Lymphatic endothelial cells	13.8 nTPM
Fallopian tube	16.6 nTPM
Ovary	10.9 nTPM

Macrophages	13.2 nTPM
Testis	22.9 nTPM
Breast	18.1 nTPM
Vascular	17.9 nTPM
Kidney	17.7 nTPM
Esophagus	15.4 nTPM
Lung	15.0 nTPM
Endometrium	14.8 nTPM
Tongue	14.3 nTPM
Spleen	14.0 nTPM
Prostate	14.0 nTPM
Thymus	12.8 nTPM
Skin	11.1 nTPM
Salivary gland	10.5 nTPM
Pancreas	10.3 nTPM
Stomach	10.3 nTPM
Skeletal muscle	9.6 nTPM
Bone marrow	9.1 nTPM
Fallopian tube	8.4 nTPM
Adipose tissue	5.4 nTPM

Basal respiratory cells	67.0 nTPM
Bronchus	67.0 nTPM

Basal squamous epithelial cells	18.0 nTPM
Esophagus	18.0 nTPM

Bipolar cells	23.6 nTPM
Eye	23.6 nTPM

Collecting duct cells	25.3 nTPM
Kidney	25.3 nTPM

Paneth cells	21.2 nTPM
Small intestine	31.1 nTPM
Rectum	28.9 nTPM
Colon	3.6 nTPM

Plasma cells	12.6 nTPM
Liver	18.5 nTPM
Spleen	15.2 nTPM
Fallopian tube	14.2 nTPM
Bone marrow	13.6 nTPM
Thymus	11.2 nTPM
Esophagus	10.4 nTPM
Stomach	9.2 nTPM
Salivary gland	8.5 nTPM

Schwann cells	16.3 nTPM
Esophagus	24.0 nTPM
Vascular	19.9 nTPM
Adipose tissue	5.1 nTPM

Serous glandular cells	38.1 nTPM
Tongue	44.2 nTPM
Salivary gland	32.0 nTPM

Smooth muscle cells	17.2 nTPM
Placenta	38.7 nTPM
Ovary	26.6 nTPM
Breast	21.7 nTPM
Liver	19.5 nTPM
Salivary gland	17.7 nTPM
Endometrium	17.2 nTPM
Prostate	17.0 nTPM
Adipose tissue	16.5 nTPM
Fallopian tube	15.8 nTPM
Skeletal muscle	15.3 nTPM
Vascular	14.4 nTPM
Lung	12.9 nTPM
Thymus	11.6 nTPM
Tongue	10.8 nTPM
Skin	10.0 nTPM
Esophagus	9.6 nTPM

Suprabasal keratinocytes	23.3 nTPM
Tongue	29.5 nTPM
Skin	17.0 nTPM

T-cells	11.9 nTPM
PBMC	18.4 nTPM
Lung	17.5 nTPM
Salivary gland	16.9 nTPM
Endometrium	14.1 nTPM
Bone marrow	13.7 nTPM
Kidney	13.3 nTPM
Lymph node	13.2 nTPM
Skin	13.0 nTPM
Prostate	12.6 nTPM
Spleen	11.9 nTPM
Liver	11.7 nTPM
Stomach	11.4 nTPM
Colon	10.7 nTPM
Breast	10.6 nTPM
Esophagus	9.7 nTPM
Thymus	9.7 nTPM
Fallopian tube	9.4 nTPM
Tongue	9.1 nTPM
Skeletal muscle	8.7 nTPM
Vascular	7.6 nTPM
Adipose tissue	5.9 nTPM

Undifferentiated cells	21.5 nTPM
Rectum	23.7 nTPM
Colon	22.9 nTPM
Small intestine	18.0 nTPM

Amygdala excitatory	8.0 nTPM
Thalamus	13.6 nTPM
Basal ganglia	9.9 nTPM
Hippocampus	7.2 nTPM
Cerebral cortex	6.6 nTPM
Amygdala	5.9 nTPM
Hypothalamus	4.9 nTPM

Astrocyte	7.4 nTPM
Cerebral cortex	10.6 nTPM
Basal ganglia	9.2 nTPM
Hippocampus	8.9 nTPM
Thalamus	8.9 nTPM
Amygdala	7.7 nTPM
Cerebellum	7.2 nTPM
Medulla oblongata	6.9 nTPM
Midbrain	6.6 nTPM
Pons	6.4 nTPM
Hypothalamus	5.3 nTPM
Spinal cord	3.9 nTPM

Bergmann glia	13.6 nTPM
Pons	18.7 nTPM
Medulla oblongata	12.8 nTPM
Cerebellum	9.3 nTPM

Central nervous system macrophage	8.7 nTPM
Thalamus	10.5 nTPM
Midbrain	9.6 nTPM
Hypothalamus	9.1 nTPM
Medulla oblongata	9.0 nTPM
Pons	9.0 nTPM
Cerebral cortex	8.8 nTPM
Basal ganglia	8.2 nTPM
Hippocampus	8.2 nTPM
Amygdala	8.0 nTPM
Cerebellum	8.0 nTPM
Spinal cord	7.1 nTPM

Cerebellar inhibitory	16.7 nTPM
Pons	21.4 nTPM
Midbrain	18.0 nTPM
Medulla oblongata	17.5 nTPM
Cerebellum	15.4 nTPM
Spinal cord	11.0 nTPM

Cge interneuron	13.2 nTPM
Thalamus	20.2 nTPM
Midbrain	16.8 nTPM
Hippocampus	13.2 nTPM
Basal ganglia	12.7 nTPM
Cerebral cortex	11.8 nTPM
Amygdala	10.4 nTPM
Hypothalamus	7.2 nTPM

Choroid plexus epithelial cell	12.7 nTPM
Hippocampus	19.4 nTPM
Thalamus	13.7 nTPM
Medulla oblongata	10.2 nTPM
Basal ganglia	7.6 nTPM

Committed oligodendrocyte precursor	8.1 nTPM
Medulla oblongata	19.4 nTPM
Pons	10.6 nTPM
Thalamus	9.5 nTPM
Basal ganglia	8.8 nTPM
Hippocampus	8.8 nTPM
Midbrain	8.4 nTPM
Cerebral cortex	6.3 nTPM
Amygdala	5.1 nTPM
Cerebellum	4.8 nTPM
Hypothalamus	4.1 nTPM
Spinal cord	3.7 nTPM

Deep-layer corticothalamic and 6b	7.5 nTPM
Hippocampus	9.5 nTPM
Cerebral cortex	8.3 nTPM
Basal ganglia	7.9 nTPM
Amygdala	7.6 nTPM
Hypothalamus	5.9 nTPM
Midbrain	5.5 nTPM

Deep-layer intratelencephalic	8.2 nTPM
Hippocampus	9.7 nTPM
Cerebral cortex	9.2 nTPM
Basal ganglia	9.1 nTPM
Amygdala	6.6 nTPM
Hypothalamus	6.3 nTPM

Deep-layer near-projecting	11.2 nTPM
Hippocampus	15.9 nTPM
Basal ganglia	11.5 nTPM
Cerebral cortex	11.5 nTPM
Amygdala	10.0 nTPM
Hypothalamus	7.1 nTPM

Eccentric medium spiny neuron	9.9 nTPM
Hypothalamus	11.6 nTPM
Basal ganglia	10.9 nTPM
Cerebral cortex	10.6 nTPM
Amygdala	9.6 nTPM
Thalamus	9.0 nTPM
Hippocampus	7.9 nTPM