We use cookies to enhance the usability of our website. If you continue, we'll assume that you are happy to receive all cookies. More information. Don't show this again.
PLXNB2
HPA
RESOURCES
  • TISSUE
  • BRAIN
  • SINGLE CELL
  • SUBCELLULAR
  • CANCER
  • BLOOD
  • CELL LINE
  • STRUCTURE & INTERACTION
ABOUT
  • INTRODUCTION
  • HISTORY
  • ORGANIZATION
  • PUBLICATIONS
  • ANTIBODY SUBMISSION
  • ANTIBODY AVAILABILITY
  • ACKNOWLEDGMENTS
  • CONTACT
NEWS
  • NEWS ARTICLES
  • PRESS ROOM
LEARN
  • DICTIONARY
  • PROTEIN CLASSES
  • PROTEIN EVIDENCE
  • METHODS
  • EDUCATIONAL VIDEOS
DATA
  • DOWNLOADABLE DATA
  • PUBLICATION DATA
  • RELEASE HISTORY
HELP
  • ANTIBODY VALIDATION
  • ASSAYS & ANNOTATION
  • DISCLAIMER
  • HELP & FAQ
  • PRIVACY STATEMENT
  • LICENCE & CITATION
Fields »
Search result

Field
Term
Gene name
Class
Subclass
Class
Keyword
Chromosome
External id
Tissue
Cell type
Expression
Antibody panel
Tissue
Main location
Patient ID
Annotation
Tissue
Category
Tau score
Cluster
Reliability
Brain region
Category
Tau score
Brain region
Category
Tau score
Brain region
Category
Tau score
Cluster
Reliability
Tissue
Cell type
Enrichment
Cell type
Category
Tau score
Cell type
Category
Tau score
Cell type
Category
Tau score
Cell lineage
Category
Tau score
Cluster
Cluster
Location
Searches
Location
Cell line
Class
Type
Phase
Reliability
Cancer
Prognosis
Cancer
Category
Cancer
Category
Tau score
Cluster
Variants
Interacting gene (ensg_id)
Type
Number of interactions
Pathway
Category
Score
Score
Score
Validation
Validation
Validation
Validation
Antibodies
Data type
Column


  • SUMMARY

  • TISSUE

  • BRAIN

  • SINGLE CELL

  • SUBCELL

  • CANCER

  • BLOOD

  • CELL LINE

  • STRUCT & INT

  • PLXNB2
SINGLE CELL SINGLE CELL TYPES TISSUE CELL TYPE SINGLE NUCLEI BRAIN IMMUNE CELLS EXPRESSION CLUSTER TISSUES Show tissue menu
ADIPOSE TISSUE ADRENAL GLAND BONE MARROW BRAIN BREAST BRONCHUS COLON ENDOMETRIUM ESOPHAGUS EYE
FALLOPIAN TUBE HEART MUSCLE KIDNEY LIVER LUNG LYMPH NODE OVARY PANCREAS PBMC PITUITARY GLAND
PLACENTA PROSTATE RECTUM SALIVARY GLAND SKELETAL MUSCLE SKIN SMALL INTESTINE SPLEEN STOMACH TESTIS
THYMUS THYROID GLAND TONGUE VASCULAR
Single cell type
Tabula sapiens
Tissue cell type
Cell type proteome
Cell type enrichment
Brain cells
Immune cells
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.

PLXNB2
Gene descriptioni

Full gene name according to HGNC.

Plexin B2
Protein classi

Assigned HPA protein class(es) for the encoded protein(s).

Plasma proteins
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.

Membrane, Intracellular
Number of transcriptsi

Number of protein-coding transcripts from the gene as defined by Ensembl.

7
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.

Respiratory epithelial cells - Unknown function (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 (Gastric mucus-secreting 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.

0.42
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.

Group enriched (non-classical monocyte, intermediate monocyte, classical monocyte, myeloid DC, plasmacytoid DC)
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

Overview of the different datasets included in the Single Cell resource.

Single cell type
Cell type enrichment
Single nuclei - Brain
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 (Gastric mucus-secreting 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

A summary of normalized single nuclei RNA (nTPM) from the brain single nuclei. Color-coding is based on cell type groups (as defined in the single cell type data representing the whole body), in this case separated into the main cell categories of neuron, glial cells, endothelial cells, fibroblasts and muscle cell (vascular smooth muscle cells and pericytes).

The data is based on Siletti K et al. (2023) public data.

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: Group enriched (non-classical monocyte, intermediate monocyte, classical monocyte, myeloid DC, plasmacytoid DC)
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

The RNA data was used to cluster genes according to their expression across samples. The resulting clusters have been manually annotated to describe common features in terms of function and specificity. The annotation of the cluster is displayed together with a confidence score of the gene's assignment to the cluster. The confidence is calculated as the fraction of times the gene was assigned to this cluster in repeated calculations and is reported between 0 to 1, where 1 is the highest possible confidence. The clustering results are shown in a UMAP, where the cluster this gene was assigned to is highlighted as a colored area in which most of the cluster genes reside. A table shows the 15 most similar genes in terms of expression profile.

SINGLE CELL TYPE
PLXNB2 is part of cluster 35 Respiratory epithelial cells - Unknown function with confidencei

Confidence is the fraction of times a gene was assigned to the cluster in repeated clustering, and therefore reflects how strongly associated it is to the cluster. A confidence of 1 indicates that the gene was assigned to this cluster in all repeated clusterings.

1
196 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.

TMC5 Transmembrane channel like 5 0.6710 35
GIPR Gastric inhibitory polypeptide receptor 0.6396 42
PSCA Prostate stem cell antigen 0.6345 35
CLIC6 Chloride intracellular channel 6 0.6219 42
MST1R Macrophage stimulating 1 receptor 0.6015 46
SH2D3A SH2 domain containing 3A 0.5983 45
CST6 Cystatin E/M 0.5911 45
ADGRF1 Adhesion G protein-coupled receptor F1 0.5739 35
ALS2CL ALS2 C-terminal like 0.5738 35
CLDN9 Claudin 9 0.5708 42
KHNYN KH and NYN domain containing 0.5690 45
LIPH Lipase H 0.5658 16
ENSG00000251537 Novel tripartite motif-containing 16 (TRIM16) and CMT1A duplicated region transcript 1 (CDRT1) protein 0.5528 35
CGN Cingulin 0.5470 72
DDR1 Discoidin domain receptor tyrosine kinase 1 0.5432 35
IMMUNE CELLS
PLXNB2 is part of cluster 10 Non-specific - Membrane trafficking with confidencei

Confidence is the fraction of times a gene was assigned to the cluster in repeated clustering, and therefore reflects how strongly associated it is to the cluster. A confidence of 1 indicates that the gene was assigned to this cluster in all repeated clusterings.

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.

IFI35 Interferon induced protein 35 1.0000 10
LACC1 Laccase domain containing 1 1.0000 10
NSL1 NSL1 component of MIS12 kinetochore complex 0.9762 10
TMED7-TICAM2 TMED7-TICAM2 readthrough 0.9762 10
IDH2 Isocitrate dehydrogenase (NADP(+)) 2 0.9762 10
CD300C CD300c molecule 0.9762 40
SMCO4 Single-pass membrane protein with coiled-coil domains 4 0.9762 10
PEA15 Proliferation and apoptosis adaptor protein 15 0.9762 10
FMNL2 Formin like 2 0.9762 10
TRIM36 Tripartite motif containing 36 0.9762 10
SLC43A3 Solute carrier family 43 member 3 0.9762 10
SNAP29 Synaptosome associated protein 29 0.9762 10
DNASE1L1 Deoxyribonuclease 1 like 1 0.9524 10
SEZ6L Seizure related 6 homolog like 0.9524 40
OAS1 2'-5'-oligoadenylate synthetase 1 0.9524 10
 

Contact

  • NEWS ARTICLES
  • PRESS ROOM

The Project

  • INTRODUCTION
  • ORGANIZATION
  • PUBLICATIONS

The Human Protein Atlas

  • DOWNLOADABLE DATA
  • LICENCE & CITATION
  • HELP & FAQ
The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.


contact@proteinatlas.org