Single cell type - TMED7-TICAM2 - 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.	TMED7-TICAM2
Gene descriptionⁱ Full gene name according to HGNC.	TMED7-TICAM2 readthrough
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.	Non-specific - Transcription (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 (Oligodendrocytes, Gastric mucus-secreting cells, Oligodendrocyte precursor cells, Inhibitory neurons, Excitatory neurons, Microglial cells, Schwann cells)
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.	0.89
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.	Not available
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 type

Immune cells

Expression clustering

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 (Oligodendrocytes, Gastric mucus-secreting cells, Oligodendrocyte precursor cells, Inhibitory neurons, Excitatory neurons, Microglial cells, Schwann cells)

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

TMED7-TICAM2 is part of cluster 49 Non-specific - Transcription with confidenceⁱ 1
378 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.
GTF2H4	General transcription factor IIH subunit 4	0.7835	49
ENSG00000280571	Novel protein	0.7281	49
ENSG00000258311	Novel protein	0.7165	49
ST20-MTHFS	ST20-MTHFS readthrough	0.7011	49
ENSG00000255639	Novel protein	0.7007	49
ENSG00000286264	Novel protein	0.6952	49
TMEM35B	Transmembrane protein 35B	0.6914	49
NAPA	NSF attachment protein alpha	0.6895	49
WBP1	WW domain binding protein 1	0.6846	49
ENSG00000263620	Novel protein	0.6803	49
COQ8A	Coenzyme Q8A	0.6802	49
THTPA	Thiamine triphosphatase	0.6772	49
ENSG00000285827	Novel protein	0.6736	49
DIABLO	Diablo IAP-binding mitochondrial protein	0.6634	49
ATP6V0C	ATPase H+ transporting V0 subunit c	0.6632	49

IMMUNE CELLS

TMED7-TICAM2 is part of cluster 10 Non-specific - Membrane trafficking with confidenceⁱ 0.89
408 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.
SPA17	Sperm autoantigenic protein 17	0.9762	10
DHX8	DEAH-box helicase 8	0.9762	42
IFI35	Interferon induced protein 35	0.9762	10
PLXNB2	Plexin B2	0.9762	10
LACC1	Laccase domain containing 1	0.9762	10
CERS5	Ceramide synthase 5	0.9762	42
CEBPA	CCAAT enhancer binding protein alpha	0.9524	40
C1orf112	Chromosome 1 open reading frame 112	0.9524	10
IDH2	Isocitrate dehydrogenase (NADP(+)) 2	0.9524	10
AGFG1	ArfGAP with FG repeats 1	0.9524	10
CD300C	CD300c molecule	0.9524	40
SMCO4	Single-pass membrane protein with coiled-coil domains 4	0.9524	10
PEA15	Proliferation and apoptosis adaptor protein 15	0.9524	10
FMNL2	Formin like 2	0.9524	10
TRIM36	Tripartite motif containing 36	0.9524	10