Single cell type - BASP1 - 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.	BASP1
Gene descriptionⁱ Full gene name according to HGNC.	Brain abundant membrane attached signal protein 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Plasma proteins 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. Read more	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. Read more	Macrophages - Immune response (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. Read more	Cell type enhanced (Muller glia cells, Syncytiotrophoblasts, Langerhans cells, Extravillous trophoblasts, Endometrial stromal cells)
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. Read more	Immune cell enriched (neutrophil)
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in many
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Cell line enhanced (GAMG, HeLa, SiHa)
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in many
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Cell type enhanced (Muller glia cells, Syncytiotrophoblasts, Langerhans cells, Extravillous trophoblasts, Endometrial stromal cells)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

BASP1 is part of cluster 41 Macrophages - Immune response with confidenceⁱ 1
307 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
SNN	Stannin	0.6470	51
SERPINB9	Serpin family B member 9	0.6039	41
C9orf72	C9orf72-SMCR8 complex subunit	0.5723	41
RILPL2	Rab interacting lysosomal protein like 2	0.5619	41
BCL2A1	BCL2 related protein A1	0.5597	41
TMEM158	Transmembrane protein 158	0.5537	5
HLA-DRA	Major histocompatibility complex, class II, DR alpha	0.5396	41
HLA-DQB1	Major histocompatibility complex, class II, DQ beta 1	0.5378	41
HLA-DQA2	Major histocompatibility complex, class II, DQ alpha 2	0.5353	41
LORICRIN	Loricrin cornified envelope precursor protein	0.5327	41
IL1R2	Interleukin 1 receptor type 2	0.5318	41
BATF3	Basic leucine zipper ATF-like transcription factor 3	0.5269	41
JARID2	Jumonji and AT-rich interaction domain containing 2	0.5262	41
IL1B	Interleukin 1 beta	0.5230	41
ENHO	Energy homeostasis associated	0.5227	5

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	8.0 nTPM
Adipose tissue	9.2 nTPM
Breast	6.7 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	4.8 nTPM
Lung	4.8 nTPM

Astrocytes	22.2 nTPM
Brain	22.2 nTPM

B-cells	158.7 nTPM
Adipose tissue	410.1 nTPM
Colon	210.8 nTPM
Breast	188.6 nTPM
Kidney	166.7 nTPM
Stomach	137.1 nTPM
Lymph node	125.6 nTPM
Liver	101.9 nTPM
Spleen	91.1 nTPM
Bone marrow	79.3 nTPM
PBMC	75.7 nTPM

Dendritic cells	3.8 nTPM
Adipose tissue	5.6 nTPM
PBMC	4.0 nTPM
Breast	1.8 nTPM

Endothelial cells	30.2 nTPM
Endometrium	171.2 nTPM
Eye	118.2 nTPM
Liver	48.6 nTPM
Skin	30.5 nTPM
Placenta	29.6 nTPM
Prostate	10.4 nTPM
Breast	6.0 nTPM
Pancreas	3.9 nTPM
Skeletal muscle	2.2 nTPM
Heart muscle	0.7 nTPM
Testis	0.6 nTPM
Esophagus	0.6 nTPM
Ovary	0.4 nTPM
Lung	0.0 nTPM

Fibroblasts	102.6 nTPM
Prostate	226.8 nTPM
Placenta	218.0 nTPM
Adipose tissue	205.4 nTPM
Skin	162.8 nTPM
Breast	74.3 nTPM
Skeletal muscle	69.3 nTPM
Lung	44.6 nTPM
Stomach	40.1 nTPM
Ovary	33.6 nTPM
Esophagus	31.2 nTPM
Heart muscle	21.9 nTPM

Intestinal goblet cells	0.7 nTPM
Rectum	1.4 nTPM
Colon	0.7 nTPM
Small intestine	0.0 nTPM

Macrophages	298.5 nTPM
Prostate	1379.1 nTPM
Adipose tissue	583.1 nTPM
Skeletal muscle	397.6 nTPM
Stomach	360.4 nTPM
Spleen	342.2 nTPM
Endometrium	314.3 nTPM
Breast	298.5 nTPM
Ovary	212.6 nTPM
Pancreas	148.0 nTPM
Kidney	130.9 nTPM
Esophagus	130.6 nTPM
Bone marrow	65.0 nTPM
Testis	52.9 nTPM
Lung	49.3 nTPM
PBMC	13.6 nTPM

Paneth cells	0.2 nTPM
Rectum	0.6 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	173.0 nTPM
Esophagus	240.1 nTPM
Stomach	229.2 nTPM
Spleen	185.2 nTPM
Bone marrow	118.6 nTPM
Adipose tissue	91.6 nTPM

Respiratory ciliated cells	93.5 nTPM
Bronchus	127.2 nTPM
Lung	59.8 nTPM

Smooth muscle cells	66.2 nTPM
Pancreas	369.0 nTPM
Bronchus	120.4 nTPM
Endometrium	76.4 nTPM
Skin	53.2 nTPM
Ovary	30.6 nTPM
Adipose tissue	29.2 nTPM
Prostate	27.5 nTPM
Esophagus	10.9 nTPM
Breast	5.2 nTPM
Skeletal muscle	3.9 nTPM
Heart muscle	2.4 nTPM

T-cells	11.9 nTPM
Prostate	66.3 nTPM
Endometrium	45.6 nTPM
Esophagus	26.2 nTPM
Lung	19.7 nTPM
Skin	10.2 nTPM
Skeletal muscle	7.0 nTPM
Spleen	5.5 nTPM
Ovary	4.5 nTPM
Breast	4.4 nTPM
Adipose tissue	3.2 nTPM
Kidney	2.0 nTPM
Liver	2.0 nTPM
PBMC	1.7 nTPM
Bone marrow	1.4 nTPM
Stomach	1.2 nTPM
Colon	1.0 nTPM
Lymph node	0.7 nTPM

Basal keratinocytes	215.9 nTPM
Skin	215.9 nTPM

Basal prostatic cells	88.0 nTPM
Prostate	88.0 nTPM

Basal respiratory cells	21.3 nTPM
Bronchus	21.3 nTPM

Basal squamous epithelial cells	58.1 nTPM
Esophagus	58.1 nTPM

Undifferentiated cells	1.8 nTPM
Colon	4.2 nTPM
Rectum	1.1 nTPM
Small intestine	0.0 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC