Single cell type - GSDMD - The Human Protein Atlas

GSDMD

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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.	GSDMD
Gene descriptionⁱ Full gene name according to HGNC.	Gasdermin D
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Transporters
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.	8

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 enterocytes - Digestion (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 (Proximal enterocytes, Distal enterocytes)
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.	0.43
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.	Group enriched (Endothelial cell, Leukocyte, Astrocyte, Central nervous system macrophage, Bergmann glia, Ependymal cell, Fibroblast, Vascular associated smooth muscle cell, Choroid plexus epithelial cell, Pericyte)
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 (Proximal enterocytes, Distal enterocytes)

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: Group enriched (Endothelial cell, Leukocyte, Astrocyte, Central nervous system macrophage, Bergmann glia, Ependymal cell, Fibroblast, Vascular associated smooth muscle cell, Choroid plexus epithelial cell, Pericyte)

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

GSDMD is part of cluster 22 Proximal enterocytes - Digestion with confidenceⁱ 1
255 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.
AQP12B	Aquaporin 12B	0.6831	5
MOGAT3	Monoacylglycerol O-acyltransferase 3	0.6363	5
NAPRT	Nicotinate phosphoribosyltransferase	0.6321	22
MYH14	Myosin heavy chain 14	0.6127	5
DGAT1	Diacylglycerol O-acyltransferase 1	0.6093	22
URAD	Ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase	0.5902	22
MYO1A	Myosin IA	0.5858	22
TNFRSF14	TNF receptor superfamily member 14	0.5851	22
FABP6	Fatty acid binding protein 6	0.5826	22
AOC1	Amine oxidase copper containing 1	0.5793	5
AMN	Amnion associated transmembrane protein	0.5763	22
TMEM82	Transmembrane protein 82	0.5745	5
VIL1	Villin 1	0.5718	22
DQX1	DEAQ-box RNA dependent ATPase 1	0.5690	22
FAM151A	Family with sequence similarity 151 member A	0.5638	22

IMMUNE CELLS

GSDMD is part of cluster 33 Non-specific - ATP binding with confidenceⁱ 0.81
757 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.
ATP8B3	ATPase phospholipid transporting 8B3	1.0000	33
OGDH	Oxoglutarate dehydrogenase	0.9762	33
GDAP1	Ganglioside induced differentiation associated protein 1	0.9762	33
LPAR6	Lysophosphatidic acid receptor 6	0.9762	33
CHST7	Carbohydrate sulfotransferase 7	0.9762	33
GSTK1	Glutathione S-transferase kappa 1	0.9524	33
SLC9A9	Solute carrier family 9 member A9	0.9524	33
PUF60	Poly(U) binding splicing factor 60	0.9524	33
PCCA	Propionyl-CoA carboxylase subunit alpha	0.9524	33
POC1A	POC1 centriolar protein A	0.9524	33
PTGES3	Prostaglandin E synthase 3	0.9524	33
WASHC5	WASH complex subunit 5	0.9286	33
CDYL2	Chromodomain Y like 2	0.9286	33
HNRNPF	Heterogeneous nuclear ribonucleoprotein F	0.9286	33
NETO2	Neuropilin and tolloid like 2	0.9286	9

Adipocytes	89.2 nTPM
Breast	92.7 nTPM
Adipose tissue	85.6 nTPM

Alveolar cells type 1	43.2 nTPM
Lung	43.2 nTPM

Alveolar cells type 2	48.0 nTPM
Lung	48.0 nTPM

Astrocytes	6.5 nTPM
Brain	6.5 nTPM

B-cells	36.7 nTPM
Kidney	62.4 nTPM
Lung	57.7 nTPM
Thymus	46.9 nTPM
Stomach	39.7 nTPM
PBMC	38.5 nTPM
Skin	37.3 nTPM
Salivary gland	35.9 nTPM
Bone marrow	35.0 nTPM
Liver	33.8 nTPM
Spleen	28.6 nTPM
Adipose tissue	24.3 nTPM
Lymph node	19.3 nTPM
Esophagus	17.7 nTPM

Ciliated cells	57.1 nTPM
Lung	71.1 nTPM
Bronchus	61.5 nTPM
Fallopian tube	56.7 nTPM
Endometrium	39.0 nTPM

Club cells	47.1 nTPM
Bronchus	56.3 nTPM
Lung	53.1 nTPM
Prostate	32.0 nTPM

Dendritic cells	48.8 nTPM
Adipose tissue	54.4 nTPM
PBMC	43.2 nTPM

Endothelial cells	66.6 nTPM
Lung	108.5 nTPM
Skeletal muscle	94.0 nTPM
Ovary	84.4 nTPM
Testis	83.9 nTPM
Thymus	82.0 nTPM
Breast	74.7 nTPM
Vascular	71.5 nTPM
Placenta	68.1 nTPM
Liver	68.0 nTPM
Salivary gland	64.8 nTPM
Fallopian tube	61.6 nTPM
Pancreas	54.3 nTPM
Skin	54.0 nTPM
Esophagus	53.6 nTPM
Endometrium	50.1 nTPM
Prostate	49.9 nTPM
Tongue	46.9 nTPM
Heart muscle	28.4 nTPM

Enteroendocrine cells	66.5 nTPM
Colon	83.8 nTPM
Small intestine	75.5 nTPM
Rectum	40.3 nTPM

Fibroblasts	39.1 nTPM
Liver	103.2 nTPM
Breast	49.4 nTPM
Stomach	47.6 nTPM
Adipose tissue	44.5 nTPM
Lung	41.2 nTPM
Esophagus	38.9 nTPM
Skeletal muscle	38.2 nTPM
Fallopian tube	36.9 nTPM
Skin	34.4 nTPM
Thymus	33.9 nTPM
Placenta	28.0 nTPM
Prostate	27.7 nTPM
Pancreas	27.1 nTPM
Salivary gland	27.1 nTPM
Vascular	26.7 nTPM
Heart muscle	21.5 nTPM

Granulocytes	38.6 nTPM
Lung	68.1 nTPM
Fallopian tube	38.2 nTPM
Tongue	9.7 nTPM

Intestinal goblet cells	100.0 nTPM
Small intestine	148.8 nTPM
Colon	88.3 nTPM
Rectum	62.8 nTPM

Lymphatic endothelial cells	71.0 nTPM
Fallopian tube	76.6 nTPM
Ovary	65.5 nTPM

Macrophages	47.2 nTPM
Kidney	94.7 nTPM
Lung	78.6 nTPM
Stomach	77.2 nTPM
Spleen	59.1 nTPM
Bone marrow	58.8 nTPM
Fallopian tube	55.5 nTPM
Breast	51.8 nTPM
Testis	47.7 nTPM
Skeletal muscle	47.6 nTPM
Adipose tissue	47.2 nTPM
Thymus	41.6 nTPM
Prostate	39.3 nTPM
Salivary gland	32.0 nTPM
Esophagus	30.8 nTPM
Pancreas	28.8 nTPM
Endometrium	28.3 nTPM
Skin	27.9 nTPM
Tongue	26.2 nTPM
Vascular	24.1 nTPM

Basal keratinocytes	14.3 nTPM
Tongue	20.9 nTPM
Skin	7.6 nTPM

Basal respiratory cells	53.4 nTPM
Bronchus	53.4 nTPM

Bipolar cells	0.2 nTPM
Eye	0.2 nTPM

Collecting duct cells	33.1 nTPM
Kidney	33.1 nTPM

Paneth cells	126.1 nTPM
Small intestine	141.6 nTPM
Colon	137.5 nTPM
Rectum	99.3 nTPM

Plasma cells	41.8 nTPM
Stomach	51.1 nTPM
Bone marrow	46.8 nTPM
Thymus	46.4 nTPM
Fallopian tube	45.7 nTPM
Spleen	44.3 nTPM
Liver	41.1 nTPM
Salivary gland	33.1 nTPM
Esophagus	26.0 nTPM

Schwann cells	22.9 nTPM
Adipose tissue	31.6 nTPM
Vascular	25.1 nTPM
Esophagus	12.0 nTPM

Serous glandular cells	37.5 nTPM
Tongue	39.8 nTPM
Salivary gland	35.3 nTPM

Smooth muscle cells	37.1 nTPM
Lung	64.7 nTPM
Liver	61.1 nTPM
Breast	50.6 nTPM
Skeletal muscle	46.2 nTPM
Ovary	43.5 nTPM
Fallopian tube	38.6 nTPM
Placenta	38.3 nTPM
Esophagus	37.2 nTPM
Thymus	36.5 nTPM
Adipose tissue	30.5 nTPM
Skin	28.0 nTPM
Endometrium	27.3 nTPM
Tongue	26.0 nTPM
Vascular	25.5 nTPM
Salivary gland	22.9 nTPM
Prostate	15.8 nTPM

T-cells	56.3 nTPM
Kidney	110.0 nTPM
Lung	94.4 nTPM
Liver	78.4 nTPM
Bone marrow	72.4 nTPM
Colon	67.3 nTPM
Stomach	66.4 nTPM
Breast	65.8 nTPM
PBMC	63.7 nTPM
Thymus	63.6 nTPM
Spleen	58.1 nTPM
Skeletal muscle	52.6 nTPM
Fallopian tube	50.5 nTPM
Esophagus	48.7 nTPM
Vascular	43.0 nTPM
Prostate	37.7 nTPM
Salivary gland	36.9 nTPM
Skin	36.8 nTPM
Adipose tissue	36.8 nTPM
Endometrium	34.1 nTPM
Tongue	34.0 nTPM
Lymph node	32.3 nTPM

Undifferentiated cells	92.4 nTPM
Small intestine	119.6 nTPM
Colon	81.1 nTPM
Rectum	76.4 nTPM

Amygdala excitatory	0.1 nTPM
Hypothalamus	0.2 nTPM
Amygdala	0.1 nTPM
Hippocampus	0.1 nTPM
Basal ganglia	0.0 nTPM
Cerebral cortex	0.0 nTPM
Thalamus	0.0 nTPM

Astrocyte	22.6 nTPM
Cerebellum	31.4 nTPM
Pons	31.3 nTPM
Midbrain	27.1 nTPM
Spinal cord	25.4 nTPM
Hippocampus	24.8 nTPM
Medulla oblongata	23.2 nTPM
Basal ganglia	21.9 nTPM
Cerebral cortex	21.3 nTPM
Thalamus	19.4 nTPM
Amygdala	12.8 nTPM
Hypothalamus	10.6 nTPM

Bergmann glia	19.0 nTPM
Cerebellum	21.2 nTPM
Pons	18.7 nTPM
Medulla oblongata	17.0 nTPM

Central nervous system macrophage	21.3 nTPM
Cerebral cortex	30.5 nTPM
Hippocampus	28.9 nTPM
Cerebellum	26.7 nTPM
Midbrain	22.7 nTPM
Pons	21.5 nTPM
Basal ganglia	19.4 nTPM
Spinal cord	19.1 nTPM
Medulla oblongata	18.8 nTPM
Thalamus	16.5 nTPM
Hypothalamus	15.2 nTPM
Amygdala	14.6 nTPM

Cerebellar inhibitory	0.2 nTPM
Midbrain	0.3 nTPM
Cerebellum	0.2 nTPM
Medulla oblongata	0.2 nTPM
Pons	0.1 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	0.1 nTPM
Midbrain	0.2 nTPM
Amygdala	0.1 nTPM
Basal ganglia	0.1 nTPM
Hippocampus	0.1 nTPM
Thalamus	0.1 nTPM
Cerebral cortex	0.0 nTPM
Hypothalamus	0.0 nTPM

Choroid plexus epithelial cell	12.3 nTPM
Hippocampus	16.6 nTPM
Basal ganglia	11.3 nTPM
Thalamus	11.0 nTPM
Medulla oblongata	10.2 nTPM

Committed oligodendrocyte precursor	1.7 nTPM
Medulla oblongata	5.2 nTPM
Basal ganglia	3.8 nTPM
Cerebral cortex	2.5 nTPM
Hippocampus	1.8 nTPM
Pons	1.8 nTPM
Cerebellum	1.6 nTPM
Thalamus	0.9 nTPM
Hypothalamus	0.7 nTPM
Amygdala	0.0 nTPM
Midbrain	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	0.2 nTPM
Hippocampus	0.5 nTPM
Basal ganglia	0.3 nTPM
Amygdala	0.1 nTPM
Cerebral cortex	0.1 nTPM
Hypothalamus	0.1 nTPM
Midbrain	0.0 nTPM

Deep-layer intratelencephalic	0.1 nTPM
Hypothalamus	0.3 nTPM
Amygdala	0.1 nTPM
Basal ganglia	0.1 nTPM
Cerebral cortex	0.1 nTPM
Hippocampus	0.0 nTPM

Deep-layer near-projecting	0.5 nTPM
Basal ganglia	0.8 nTPM
Hippocampus	0.7 nTPM
Hypothalamus	0.6 nTPM
Cerebral cortex	0.3 nTPM
Amygdala	0.2 nTPM

Eccentric medium spiny neuron	0.1 nTPM
Amygdala	0.1 nTPM
Basal ganglia	0.1 nTPM
Hypothalamus	0.1 nTPM
Thalamus	0.1 nTPM
Cerebral cortex	0.0 nTPM
Hippocampus	0.0 nTPM

Endothelial cell	44.7 nTPM
Cerebellum	63.5 nTPM
Medulla oblongata	55.4 nTPM
Cerebral cortex	51.1 nTPM
Spinal cord	48.3 nTPM
Hippocampus	45.2 nTPM
Thalamus	44.1 nTPM
Pons	42.4 nTPM
Basal ganglia	40.1 nTPM
Midbrain	37.8 nTPM
Amygdala	36.9 nTPM
Hypothalamus	27.3 nTPM