Single cell type - SEC24B - The Human Protein Atlas

SEC24B

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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.	SEC24B
Gene descriptionⁱ Full gene name according to HGNC.	SEC24 homolog B, COPII coat complex component
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.	3

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, Microglial 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.	0.36
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 (Oligodendrocytes, Microglial cells)

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

SEC24B is part of cluster 55 Non-specific - Transcription with confidenceⁱ 1
709 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.
NBPF11	NBPF member 11	0.5643	55
SCAF8	SR-related CTD associated factor 8	0.5462	69
TMLHE	Trimethyllysine hydroxylase, epsilon	0.5296	76
PPP6R3	Protein phosphatase 6 regulatory subunit 3	0.5094	55
RAB3GAP1	RAB3 GTPase activating protein catalytic subunit 1	0.5003	55
EGLN1	Egl-9 family hypoxia inducible factor 1	0.4955	49
PUM2	Pumilio RNA binding family member 2	0.4947	55
RNF111	Ring finger protein 111	0.4802	55
ABI1	Abl interactor 1	0.4649	47
SCYL2	SCY1 like pseudokinase 2	0.4644	55
BICRA	BRD4 interacting chromatin remodeling complex associated protein	0.4614	69
ABCB7	ATP binding cassette subfamily B member 7	0.4566	39
PIKFYVE	Phosphoinositide kinase, FYVE-type zinc finger containing	0.4495	73
REPS1	RALBP1 associated Eps domain containing 1	0.4490	47
MED14	Mediator complex subunit 14	0.4489	55

IMMUNE CELLS

SEC24B is part of cluster 35 Neutrophils - Protein binding with confidenceⁱ 0.9
504 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.
ERBIN	Erbb2 interacting protein	1.0000	35
CARD8	Caspase recruitment domain family member 8	0.9762	35
HLA-E	Major histocompatibility complex, class I, E	0.9762	35
IER2	Immediate early response 2	0.9762	35
OSBPL2	Oxysterol binding protein like 2	0.9762	35
IFIT3	Interferon induced protein with tetratricopeptide repeats 3	0.9762	35
VPS4B	Vacuolar protein sorting 4 homolog B	0.9762	35
COQ10B	Coenzyme Q10B	0.9762	35
IDI1	Isopentenyl-diphosphate delta isomerase 1	0.9762	35
EIF2AK2	Eukaryotic translation initiation factor 2 alpha kinase 2	0.9762	35
RAB18	RAB18, member RAS oncogene family	0.9524	35
IDS	Iduronate 2-sulfatase	0.9524	35
TUT7	Terminal uridylyl transferase 7	0.9524	35
CYTIP	Cytohesin 1 interacting protein	0.9524	35
ING3	Inhibitor of growth family member 3	0.9524	35

Adipocytes	24.2 nTPM
Adipose tissue	31.8 nTPM
Breast	16.5 nTPM

Alveolar cells type 1	20.6 nTPM
Lung	20.6 nTPM

Alveolar cells type 2	14.8 nTPM
Lung	14.8 nTPM

Astrocytes	59.8 nTPM
Brain	59.8 nTPM

B-cells	22.5 nTPM
Stomach	40.1 nTPM
Lymph node	37.9 nTPM
Spleen	37.1 nTPM
Thymus	29.7 nTPM
Bone marrow	26.6 nTPM
Esophagus	23.6 nTPM
Adipose tissue	17.7 nTPM
Salivary gland	16.8 nTPM
Kidney	15.6 nTPM
Skin	15.2 nTPM
PBMC	12.3 nTPM
Lung	10.7 nTPM
Liver	9.7 nTPM

Ciliated cells	18.7 nTPM
Bronchus	21.4 nTPM
Fallopian tube	18.4 nTPM
Endometrium	17.8 nTPM
Lung	17.2 nTPM

Club cells	16.1 nTPM
Lung	16.8 nTPM
Bronchus	16.5 nTPM
Prostate	15.0 nTPM

Endothelial cells	20.9 nTPM
Heart muscle	31.1 nTPM
Skeletal muscle	27.5 nTPM
Thymus	27.4 nTPM
Esophagus	26.3 nTPM
Skin	24.8 nTPM
Salivary gland	24.6 nTPM
Fallopian tube	24.3 nTPM
Endometrium	21.2 nTPM
Prostate	20.8 nTPM
Testis	20.5 nTPM
Liver	20.2 nTPM
Tongue	20.2 nTPM
Vascular	19.5 nTPM
Placenta	17.6 nTPM
Lung	15.4 nTPM
Ovary	13.2 nTPM
Breast	10.5 nTPM
Pancreas	10.3 nTPM

Enteroendocrine cells	10.3 nTPM
Colon	15.8 nTPM
Rectum	8.4 nTPM
Small intestine	6.9 nTPM

Fibroblasts	15.3 nTPM
Esophagus	19.8 nTPM
Thymus	19.4 nTPM
Skeletal muscle	18.0 nTPM
Liver	17.8 nTPM
Heart muscle	17.7 nTPM
Stomach	17.3 nTPM
Skin	16.0 nTPM
Fallopian tube	15.5 nTPM
Vascular	15.3 nTPM
Salivary gland	14.9 nTPM
Prostate	14.5 nTPM
Adipose tissue	14.3 nTPM
Breast	12.8 nTPM
Placenta	12.6 nTPM
Pancreas	9.5 nTPM
Lung	9.3 nTPM

Granulocytes	15.0 nTPM
Fallopian tube	16.5 nTPM
Tongue	14.6 nTPM
Lung	14.1 nTPM

Intestinal goblet cells	17.0 nTPM
Small intestine	18.5 nTPM
Rectum	16.9 nTPM
Colon	15.5 nTPM

Lymphatic endothelial cells	18.4 nTPM
Fallopian tube	20.4 nTPM
Ovary	16.4 nTPM

Macrophages	20.3 nTPM
Spleen	36.1 nTPM
Adipose tissue	34.3 nTPM
Fallopian tube	29.9 nTPM
Bone marrow	25.3 nTPM
Stomach	23.1 nTPM
Skeletal muscle	22.9 nTPM
Vascular	21.8 nTPM
Esophagus	20.6 nTPM
Thymus	20.0 nTPM
Lung	19.8 nTPM
Salivary gland	18.7 nTPM
Testis	18.6 nTPM
Prostate	18.6 nTPM
Endometrium	17.2 nTPM
Skin	16.7 nTPM
Tongue	15.7 nTPM
Pancreas	10.3 nTPM
Breast	9.8 nTPM
Kidney	6.2 nTPM

Paneth cells	13.2 nTPM
Small intestine	17.3 nTPM
Rectum	15.1 nTPM
Colon	7.2 nTPM

Basal prostatic cells	19.1 nTPM
Prostate	19.1 nTPM

Basal respiratory cells	11.7 nTPM
Bronchus	11.7 nTPM

Basal squamous epithelial cells	25.0 nTPM
Esophagus	25.0 nTPM

Bipolar cells	21.7 nTPM
Eye	21.7 nTPM

Plasma cells	14.8 nTPM
Stomach	22.6 nTPM
Esophagus	20.8 nTPM
Fallopian tube	18.7 nTPM
Spleen	14.0 nTPM
Bone marrow	13.6 nTPM
Thymus	12.0 nTPM
Salivary gland	9.4 nTPM
Liver	7.0 nTPM

Schwann cells	23.2 nTPM
Adipose tissue	30.4 nTPM
Esophagus	24.0 nTPM
Vascular	15.1 nTPM

Serous glandular cells	18.2 nTPM
Tongue	22.1 nTPM
Salivary gland	14.3 nTPM

Smooth muscle cells	15.8 nTPM
Esophagus	25.2 nTPM
Thymus	20.4 nTPM
Adipose tissue	20.0 nTPM
Prostate	19.5 nTPM
Skeletal muscle	19.4 nTPM
Liver	18.7 nTPM
Skin	17.2 nTPM
Vascular	16.7 nTPM
Salivary gland	14.2 nTPM
Tongue	13.2 nTPM
Fallopian tube	13.2 nTPM
Endometrium	12.3 nTPM
Placenta	11.6 nTPM
Ovary	10.9 nTPM
Breast	10.7 nTPM
Lung	9.4 nTPM

Suprabasal keratinocytes	25.7 nTPM
Skin	37.0 nTPM
Tongue	14.4 nTPM

T-cells	18.8 nTPM
Stomach	35.3 nTPM
Lymph node	31.8 nTPM
Spleen	27.9 nTPM
Bone marrow	26.8 nTPM
Thymus	26.0 nTPM
Adipose tissue	25.8 nTPM
Fallopian tube	21.8 nTPM
Prostate	19.1 nTPM
Skin	18.9 nTPM
Tongue	17.8 nTPM
Salivary gland	17.4 nTPM
Skeletal muscle	17.0 nTPM
Lung	14.6 nTPM
Breast	14.6 nTPM
PBMC	13.3 nTPM
Vascular	13.3 nTPM
Endometrium	12.7 nTPM
Liver	10.7 nTPM
Kidney	9.8 nTPM
Colon	9.7 nTPM
Esophagus	9.7 nTPM

Undifferentiated cells	11.9 nTPM
Rectum	15.5 nTPM
Small intestine	12.5 nTPM
Colon	7.5 nTPM

Amygdala excitatory	107.1 nTPM
Hypothalamus	120.5 nTPM
Thalamus	118.0 nTPM
Basal ganglia	106.5 nTPM
Amygdala	104.6 nTPM
Hippocampus	97.1 nTPM
Cerebral cortex	96.1 nTPM

Astrocyte	115.7 nTPM
Hypothalamus	141.1 nTPM
Spinal cord	135.7 nTPM
Amygdala	130.0 nTPM
Basal ganglia	115.9 nTPM
Hippocampus	112.2 nTPM
Midbrain	109.7 nTPM
Pons	107.9 nTPM
Cerebral cortex	106.6 nTPM
Thalamus	105.2 nTPM
Cerebellum	104.5 nTPM
Medulla oblongata	103.9 nTPM

Bergmann glia	100.1 nTPM
Cerebellum	110.2 nTPM
Medulla oblongata	98.0 nTPM
Pons	92.1 nTPM

Central nervous system macrophage	205.0 nTPM
Amygdala	248.6 nTPM
Hypothalamus	240.4 nTPM
Basal ganglia	222.7 nTPM
Hippocampus	207.1 nTPM
Midbrain	206.2 nTPM
Thalamus	198.9 nTPM
Spinal cord	193.7 nTPM
Pons	190.9 nTPM
Cerebellum	188.1 nTPM
Cerebral cortex	179.3 nTPM
Medulla oblongata	178.7 nTPM

Cerebellar inhibitory	117.8 nTPM
Spinal cord	137.5 nTPM
Midbrain	117.9 nTPM
Medulla oblongata	116.2 nTPM
Cerebellum	114.3 nTPM
Pons	103.2 nTPM

Cge interneuron	115.0 nTPM
Hypothalamus	133.9 nTPM
Amygdala	128.1 nTPM
Basal ganglia	116.7 nTPM
Midbrain	108.6 nTPM
Thalamus	106.8 nTPM
Hippocampus	105.6 nTPM
Cerebral cortex	105.5 nTPM

Choroid plexus epithelial cell	204.2 nTPM
Basal ganglia	256.9 nTPM
Medulla oblongata	220.9 nTPM
Thalamus	180.9 nTPM
Hippocampus	158.1 nTPM

Committed oligodendrocyte precursor	115.0 nTPM
Amygdala	134.2 nTPM
Medulla oblongata	133.0 nTPM
Spinal cord	132.4 nTPM
Cerebral cortex	124.1 nTPM
Hypothalamus	122.2 nTPM
Midbrain	119.3 nTPM
Thalamus	113.7 nTPM
Hippocampus	102.7 nTPM
Cerebellum	99.9 nTPM
Basal ganglia	97.5 nTPM
Pons	85.9 nTPM

Deep-layer corticothalamic and 6b	96.4 nTPM
Hypothalamus	104.7 nTPM
Amygdala	102.0 nTPM
Hippocampus	96.4 nTPM
Midbrain	95.4 nTPM
Basal ganglia	89.9 nTPM
Cerebral cortex	89.8 nTPM

Deep-layer intratelencephalic	107.8 nTPM
Amygdala	119.5 nTPM
Hypothalamus	115.9 nTPM
Hippocampus	102.7 nTPM
Basal ganglia	101.3 nTPM
Cerebral cortex	99.5 nTPM

Deep-layer near-projecting	94.3 nTPM
Amygdala	104.0 nTPM
Hypothalamus	104.0 nTPM
Basal ganglia	92.4 nTPM
Cerebral cortex	91.7 nTPM
Hippocampus	79.4 nTPM

Eccentric medium spiny neuron	106.6 nTPM
Amygdala	120.4 nTPM
Thalamus	112.0 nTPM
Hypothalamus	104.3 nTPM
Cerebral cortex	103.9 nTPM
Basal ganglia	103.0 nTPM
Hippocampus	95.8 nTPM

Endothelial cell	222.1 nTPM
Hypothalamus	282.9 nTPM
Spinal cord	255.4 nTPM
Basal ganglia	240.5 nTPM
Midbrain	231.5 nTPM
Cerebral cortex	229.5 nTPM
Amygdala	214.6 nTPM
Pons	212.2 nTPM
Hippocampus	211.9 nTPM
Medulla oblongata	199.0 nTPM
Thalamus	195.4 nTPM
Cerebellum	170.4 nTPM