Single cell type - TTLL1 - The Human Protein Atlas

TTLL1

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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.	TTLL1
Gene descriptionⁱ Full gene name according to HGNC.	TTL family tubulin polyglutamylase complex subunit L1
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.	2

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.	Spermatogonia - 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.	Cell type enhanced (Spermatogonia, Late spermatids, Early spermatids)
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.	0.53
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: Cell type enhanced (Spermatogonia, Late spermatids, Early spermatids)

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

TTLL1 is part of cluster 67 Spermatogonia - Spermatogenesis with confidenceⁱ 1
123 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.
TRIM43	Tripartite motif containing 43	0.5663	67
TRIM51	Tripartite motif-containing 51	0.4980	67
ZNF428	Zinc finger protein 428	0.4974	10
BFSP1	Beaded filament structural protein 1	0.4963	67
KRT26	Keratin 26	0.4928	67
GSC2	Goosecoid homeobox 2	0.4793	67
ZSCAN5B	Zinc finger and SCAN domain containing 5B	0.4780	67
FAM240B	Family with sequence similarity 240 member B	0.4665	67
DMRT1	Doublesex and mab-3 related transcription factor 1	0.4649	67
DND1	DND microRNA-mediated repression inhibitor 1	0.4588	21
TRIM49	Tripartite motif containing 49	0.4585	67
IFNL3	Interferon lambda 3	0.4504	21
NEIL2	Nei like DNA glycosylase 2	0.4496	67
ZBTB3	Zinc finger and BTB domain containing 3	0.4419	21
LIN7B	Lin-7 homolog B, crumbs cell polarity complex component	0.4399	67

IMMUNE CELLS

TTLL1 is part of cluster 5 Non-specific - Cell proliferation with confidenceⁱ 1
689 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.
RBM12B	RNA binding motif protein 12B	0.9762	5
CCR5	C-C motif chemokine receptor 5	0.9762	5
SUV39H2	SUV39H2 histone lysine methyltransferase	0.9762	5
SERPINH1	Serpin family H member 1	0.9762	5
YIPF5	Yip1 domain family member 5	0.9762	5
ZNF17	Zinc finger protein 17	0.9524	5
PLEKHA5	Pleckstrin homology domain containing A5	0.9524	5
BTRC	Beta-transducin repeat containing E3 ubiquitin protein ligase	0.9524	5
ENOPH1	Enolase-phosphatase 1	0.9524	1
LRRC47	Leucine rich repeat containing 47	0.9524	5
GORASP2	Golgi reassembly stacking protein 2	0.9524	5
VGLL4	Vestigial like family member 4	0.9286	5
AASDHPPT	Aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase	0.9286	1
MREG	Melanoregulin	0.9286	1
SRP19	Signal recognition particle 19	0.9286	5

Adipocytes	3.6 nTPM
Breast	4.6 nTPM
Adipose tissue	2.6 nTPM

Alveolar cells type 1	2.6 nTPM
Lung	2.6 nTPM

Alveolar cells type 2	2.5 nTPM
Lung	2.5 nTPM

Astrocytes	3.7 nTPM
Brain	3.7 nTPM

B-cells	1.6 nTPM
Liver	4.8 nTPM
PBMC	3.1 nTPM
Bone marrow	2.6 nTPM
Spleen	2.3 nTPM
Thymus	2.2 nTPM
Skin	1.7 nTPM
Salivary gland	1.4 nTPM
Lung	1.3 nTPM
Lymph node	1.0 nTPM
Stomach	0.8 nTPM
Kidney	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Ciliated cells	14.0 nTPM
Lung	17.4 nTPM
Fallopian tube	15.5 nTPM
Endometrium	12.6 nTPM
Bronchus	10.5 nTPM

Club cells	5.9 nTPM
Bronchus	6.5 nTPM
Prostate	6.4 nTPM
Lung	4.9 nTPM

Endothelial cells	4.2 nTPM
Heart muscle	15.4 nTPM
Breast	6.2 nTPM
Ovary	5.4 nTPM
Vascular	5.0 nTPM
Thymus	4.9 nTPM
Prostate	4.8 nTPM
Placenta	4.5 nTPM
Salivary gland	4.4 nTPM
Endometrium	4.3 nTPM
Esophagus	3.9 nTPM
Lung	3.4 nTPM
Tongue	3.2 nTPM
Skeletal muscle	3.1 nTPM
Testis	2.7 nTPM
Fallopian tube	2.2 nTPM
Skin	1.9 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	2.1 nTPM
Small intestine	3.4 nTPM
Colon	3.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	5.9 nTPM
Placenta	10.7 nTPM
Esophagus	10.2 nTPM
Liver	9.5 nTPM
Breast	7.1 nTPM
Pancreas	7.0 nTPM
Adipose tissue	5.6 nTPM
Skeletal muscle	5.5 nTPM
Skin	5.4 nTPM
Thymus	5.3 nTPM
Heart muscle	5.0 nTPM
Salivary gland	4.5 nTPM
Vascular	4.3 nTPM
Prostate	4.0 nTPM
Fallopian tube	4.0 nTPM
Lung	3.2 nTPM
Stomach	2.9 nTPM

Granulocytes	4.1 nTPM
Lung	6.1 nTPM
Tongue	4.9 nTPM
Fallopian tube	1.5 nTPM

Intestinal goblet cells	3.0 nTPM
Colon	3.7 nTPM
Small intestine	3.4 nTPM
Rectum	2.1 nTPM

Lymphatic endothelial cells	5.2 nTPM
Fallopian tube	10.4 nTPM
Ovary	0.0 nTPM

Macrophages	2.6 nTPM
Breast	4.6 nTPM
Kidney	4.4 nTPM
Lung	4.3 nTPM
Pancreas	4.1 nTPM
Endometrium	3.1 nTPM
Bone marrow	3.0 nTPM
Salivary gland	3.0 nTPM
Thymus	2.9 nTPM
Stomach	2.6 nTPM
Fallopian tube	2.6 nTPM
Skeletal muscle	2.5 nTPM
Tongue	2.4 nTPM
Skin	2.2 nTPM
Prostate	2.2 nTPM
Vascular	2.2 nTPM
Adipose tissue	1.6 nTPM
Esophagus	1.3 nTPM
Testis	1.2 nTPM
Spleen	0.0 nTPM

Paneth cells	5.4 nTPM
Colon	7.2 nTPM
Small intestine	6.9 nTPM
Rectum	1.9 nTPM

Basal respiratory cells	5.8 nTPM
Bronchus	5.8 nTPM

Cone photoreceptor cells	15.3 nTPM
Eye	15.3 nTPM

Distal tubular cells	9.2 nTPM
Kidney	9.2 nTPM

Plasma cells	1.3 nTPM
Fallopian tube	3.2 nTPM
Spleen	2.2 nTPM
Salivary gland	1.8 nTPM
Liver	1.5 nTPM
Thymus	1.1 nTPM
Stomach	0.4 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Schwann cells	11.4 nTPM
Esophagus	24.0 nTPM
Vascular	6.8 nTPM
Adipose tissue	3.5 nTPM

Serous glandular cells	6.3 nTPM
Tongue	8.8 nTPM
Salivary gland	3.7 nTPM

Smooth muscle cells	4.5 nTPM
Placenta	8.1 nTPM
Endometrium	8.0 nTPM
Ovary	6.9 nTPM
Liver	6.4 nTPM
Breast	5.7 nTPM
Thymus	4.6 nTPM
Fallopian tube	4.6 nTPM
Adipose tissue	4.2 nTPM
Skeletal muscle	4.1 nTPM
Vascular	3.4 nTPM
Tongue	3.3 nTPM
Salivary gland	2.7 nTPM
Skin	2.6 nTPM
Esophagus	2.4 nTPM
Lung	2.4 nTPM
Prostate	2.4 nTPM

T-cells	5.5 nTPM
Esophagus	12.2 nTPM
Kidney	9.8 nTPM
Spleen	8.7 nTPM
Bone marrow	7.4 nTPM
PBMC	6.8 nTPM
Breast	6.6 nTPM
Fallopian tube	6.0 nTPM
Stomach	5.8 nTPM
Liver	5.7 nTPM
Lung	5.2 nTPM
Skeletal muscle	4.9 nTPM
Lymph node	4.6 nTPM
Endometrium	4.5 nTPM
Thymus	4.5 nTPM
Prostate	4.2 nTPM
Adipose tissue	3.9 nTPM
Salivary gland	3.8 nTPM
Tongue	3.8 nTPM
Colon	2.9 nTPM
Skin	2.5 nTPM
Vascular	2.0 nTPM

Undifferentiated cells	2.8 nTPM
Colon	3.0 nTPM
Small intestine	2.8 nTPM
Rectum	2.5 nTPM

Amygdala excitatory	27.4 nTPM
Hypothalamus	37.2 nTPM
Amygdala	32.2 nTPM
Hippocampus	26.5 nTPM
Cerebral cortex	26.3 nTPM
Basal ganglia	24.0 nTPM
Thalamus	18.1 nTPM

Astrocyte	11.5 nTPM
Hypothalamus	13.8 nTPM
Cerebellum	13.6 nTPM
Spinal cord	12.2 nTPM
Amygdala	11.5 nTPM
Pons	11.4 nTPM
Thalamus	11.2 nTPM
Midbrain	11.0 nTPM
Medulla oblongata	10.8 nTPM
Basal ganglia	10.7 nTPM
Cerebral cortex	10.3 nTPM
Hippocampus	10.3 nTPM

Bergmann glia	7.9 nTPM
Cerebellum	10.8 nTPM
Pons	8.6 nTPM
Medulla oblongata	4.3 nTPM

Central nervous system macrophage	8.2 nTPM
Cerebellum	10.3 nTPM
Hippocampus	9.2 nTPM
Amygdala	9.1 nTPM
Pons	8.8 nTPM
Midbrain	8.7 nTPM
Cerebral cortex	8.2 nTPM
Basal ganglia	7.5 nTPM
Medulla oblongata	7.5 nTPM
Hypothalamus	7.2 nTPM
Spinal cord	7.1 nTPM
Thalamus	6.4 nTPM

Cerebellar inhibitory	10.1 nTPM
Cerebellum	11.5 nTPM
Midbrain	11.2 nTPM
Spinal cord	11.0 nTPM
Medulla oblongata	8.5 nTPM
Pons	8.3 nTPM

Cge interneuron	23.3 nTPM
Hypothalamus	38.2 nTPM
Amygdala	25.8 nTPM
Cerebral cortex	22.6 nTPM
Basal ganglia	22.4 nTPM
Hippocampus	21.3 nTPM
Midbrain	16.9 nTPM
Thalamus	15.9 nTPM

Choroid plexus epithelial cell	15.4 nTPM
Basal ganglia	23.1 nTPM
Medulla oblongata	13.7 nTPM
Thalamus	13.7 nTPM
Hippocampus	11.1 nTPM

Committed oligodendrocyte precursor	13.6 nTPM
Midbrain	20.2 nTPM
Hypothalamus	15.7 nTPM
Amygdala	14.7 nTPM
Spinal cord	14.7 nTPM
Medulla oblongata	14.2 nTPM
Thalamus	13.3 nTPM
Basal ganglia	13.1 nTPM
Hippocampus	11.6 nTPM
Pons	11.5 nTPM
Cerebral cortex	10.8 nTPM
Cerebellum	9.5 nTPM

Deep-layer corticothalamic and 6b	21.6 nTPM
Hypothalamus	32.7 nTPM
Amygdala	21.8 nTPM
Basal ganglia	19.6 nTPM
Hippocampus	19.2 nTPM
Cerebral cortex	18.3 nTPM
Midbrain	17.8 nTPM

Deep-layer intratelencephalic	24.5 nTPM
Hypothalamus	36.1 nTPM
Basal ganglia	22.6 nTPM
Amygdala	22.2 nTPM
Hippocampus	22.2 nTPM
Cerebral cortex	19.3 nTPM

Deep-layer near-projecting	21.2 nTPM
Hypothalamus	36.2 nTPM
Amygdala	21.4 nTPM
Basal ganglia	20.0 nTPM
Cerebral cortex	17.8 nTPM
Hippocampus	10.7 nTPM

Eccentric medium spiny neuron	16.0 nTPM
Amygdala	17.8 nTPM
Hypothalamus	16.6 nTPM
Hippocampus	16.2 nTPM
Thalamus	15.5 nTPM
Cerebral cortex	15.0 nTPM
Basal ganglia	14.6 nTPM

Endothelial cell	6.0 nTPM
Basal ganglia	9.3 nTPM
Amygdala	8.9 nTPM
Cerebral cortex	7.7 nTPM
Hypothalamus	7.4 nTPM
Thalamus	6.8 nTPM
Hippocampus	6.1 nTPM
Pons	5.6 nTPM
Cerebellum	3.9 nTPM
Midbrain	3.8 nTPM
Spinal cord	3.5 nTPM
Medulla oblongata	3.1 nTPM

Ependymal cell	31.4 nTPM
Spinal cord	47.9 nTPM
Basal ganglia	41.6 nTPM
Hypothalamus	35.7 nTPM
Thalamus	31.2 nTPM
Medulla oblongata	31.0 nTPM
Hippocampus	26.9 nTPM
Pons	24.0 nTPM
Midbrain	22.9 nTPM
Amygdala	21.6 nTPM