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Field

Term
Gene name

Class

Subclass

Chromosome

External id

In atlas

Reliability

Reliability

Reliability

Validation

Method

Validation

Method

Validation

Method

Validation

Location

Searches

Tissue

Cell type

Expression

Tissue

Specificity

Cell line

Specificity

Cancer

Specificity

Tissue

Detectable

Cell line

Detectable

Cancer

Detectable

Cancer

Prognosis

Category

Score

Score

Score

Antibodies

Column

 
 
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VCAM1
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    TISSUE

  • CELL

  • PATHOLOGY

PATHOLOGY ATLAS

GENE/PROTEIN

Antibody validation

Dictionary

Level of antibody staining/expression





High
Medium
Low
Not detected

GENERAL INFORMATION

Gene name

VCAM1

Gene description

Vascular cell adhesion molecule 1

Protein class

Cancer-related genes
CD markers
Plasma proteins
Predicted membrane proteins

Predicted localization

Membrane

Number of transcripts

4
SHOW MORE

HUMAN PROTEIN ATLAS INFORMATION

RNA category

TCGA (cancer tissue):Tissue enriched (renal cancer)
HPA (cell line):Group enriched (HDLM-2, U-138 MG)
HPA (normal tissue):Tissue enriched (spleen)

Protein evidence

Evidence at protein level

Protein expression
normal tissue

Cytoplasmic expression in subsets of immune cells and vascular endothelium.

ANTIBODY IHC RELIABILITY

Data reliability
description

Antibody staining consistent with RNA expression data.

Reliability score

Supported based on 2 antibodies.
HPA034796 , CAB000154
SHOW MORE

PROGNOSTIC SUMMARY

Prognostic marker in head and neck cancer (favourable) and cervical cancer (favourable).
Head and neck cancer p<0.001
Cervical cancer p<0.001
Show all

RNA EXPRESSION OVERVIEW

TCGA dataset
RNA cancer category: Tissue enriched (renal cancer)

PROTEIN EXPRESSION

Colorectal cancer
Breast cancer
Prostate cancer
Lung cancer

STAINING SUMMARY

HPA034796
CAB000154

Cancer

Cancer staining

Protein
expression of
normal tissue

Breast cancer
 
Carcinoid
 
Cervical cancer
 
 
Colorectal cancer
 
 
Endometrial cancer
 
 
Glioma
 
Head and neck cancer
 
 
Liver cancer
 
 
Lung cancer
 
 
Lymphoma
 
 
 

Cancer

Cancer staining

Protein
expression of
normal tissue

Melanoma
 
Ovarian cancer
 
Pancreatic cancer
 
Prostate cancer
 
Renal cancer
 
Skin cancer
 
Stomach cancer
 
 
Testis cancer
 
Thyroid cancer
 
Urothelial cancer
 

Staining summary

Cancer tissues displayed weak to moderate cytoplasmic and nucleolar staining with occasional membranous positivity. A few cases of skin and renal cancers showed strong staining. Several carcinoids, gliomas and lymphomas were negative.

Cancer

Cancer staining

Protein
expression of
normal tissue

Breast cancer
 
Carcinoid
 
Cervical cancer
 
 
Colorectal cancer
 
 
Endometrial cancer
 
 
Glioma
 
Head and neck cancer
 
 
Liver cancer
 
 
Lung cancer
 
 
Lymphoma
 
 
 

Cancer

Cancer staining

Protein
expression of
normal tissue

Melanoma
 
Ovarian cancer
 
Pancreatic cancer
 
Prostate cancer
 
Renal cancer
 
Skin cancer
 
Stomach cancer
 
 
Testis cancer
 
Thyroid cancer
 
Urothelial cancer
 

Staining summary

Rare cases of renal cancer showed moderate membranous staining. Remaining cancer tissues were negative.

GENE INFORMATION

Gene name

VCAM1 (HGNC Symbol)

Synonyms

CD106

Description

Vascular cell adhesion molecule 1 (HGNC Symbol)

Entrez gene summary

This gene is a member of the Ig superfamily and encodes a cell surface sialoglycoprotein expressed by cytokine-activated endothelium. This type I membrane protein mediates leukocyte-endothelial cell adhesion and signal transduction, and may play a role in the development of artherosclerosis and rheumatoid arthritis. Three alternatively spliced transcripts encoding different isoforms have been described for this gene. [provided by RefSeq, Dec 2010]

Chromosome

1

Cytoband

p21.2

Chromosome location (bp)

100719742 - 100739045

Protein evidence

Evidence at protein level (all genes)

Ensembl

ENSG00000162692 (version 83.38)

Entrez gene

7412

UniProt

P19320 (UniProt - Evidence at protein level)

neXtProt

NX_P19320

Antibodypedia

VCAM1 antibodies

PROTEIN BROWSER

VCAM1-001
VCAM1-002
VCAM1-003
VCAM1-004

PROTEIN INFORMATION

Splice variant

UniProt

Protein class

Gene ontology

Length & mass

Signal peptide
(predicted)

Transmembrane regions
(predicted)

VCAM1-001
ENSP00000294728
ENST00000294728
P19320 [Direct mapping]
Vascular cell adhesion protein 1
Show all
CD markers
Predicted membrane proteins
   Prediction method-based
   Membrane proteins predicted by MDM
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
   # TM segments-based
   1TM proteins predicted by MDM
Plasma proteins
Cancer-related genes
   Candidate cancer biomarkers
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0001666 [response to hypoxia]
GO:0002102 [podosome]
GO:0002526 [acute inflammatory response]
GO:0002544 [chronic inflammatory response]
GO:0005178 [integrin binding]
GO:0005515 [protein binding]
GO:0005615 [extracellular space]
GO:0005769 [early endosome]
GO:0005783 [endoplasmic reticulum]
GO:0005794 [Golgi apparatus]
GO:0005886 [plasma membrane]
GO:0005902 [microvillus]
GO:0007155 [cell adhesion]
GO:0007157 [heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules]
GO:0007159 [leukocyte cell-cell adhesion]
GO:0007160 [cell-matrix adhesion]
GO:0007507 [heart development]
GO:0007568 [aging]
GO:0007584 [response to nutrient]
GO:0008131 [primary amine oxidase activity]
GO:0009308 [amine metabolic process]
GO:0009897 [external side of plasma membrane]
GO:0009986 [cell surface]
GO:0010043 [response to zinc ion]
GO:0010212 [response to ionizing radiation]
GO:0016021 [integral component of membrane]
GO:0016032 [viral process]
GO:0019221 [cytokine-mediated signaling pathway]
GO:0022614 [membrane to membrane docking]
GO:0030175 [filopodium]
GO:0030183 [B cell differentiation]
GO:0030198 [extracellular matrix organization]
GO:0032496 [response to lipopolysaccharide]
GO:0035094 [response to nicotine]
GO:0035584 [calcium-mediated signaling using intracellular calcium source]
GO:0035924 [cellular response to vascular endothelial growth factor stimulus]
GO:0042102 [positive regulation of T cell proliferation]
GO:0042383 [sarcolemma]
GO:0045177 [apical part of cell]
GO:0045471 [response to ethanol]
GO:0050776 [regulation of immune response]
GO:0050839 [cell adhesion molecule binding]
GO:0050901 [leukocyte tethering or rolling]
GO:0055114 [oxidation-reduction process]
GO:0060326 [cell chemotaxis]
GO:0060333 [interferon-gamma-mediated signaling pathway]
GO:0060669 [embryonic placenta morphogenesis]
GO:0060710 [chorio-allantoic fusion]
GO:0070062 [extracellular exosome]
GO:0071065 [alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex]
GO:0071333 [cellular response to glucose stimulus]
GO:0071356 [cellular response to tumor necrosis factor]
GO:0071944 [cell periphery]
Show all
739 aa
81.3 kDa
Yes 1
VCAM1-002
ENSP00000304611
ENST00000347652
P19320 [Direct mapping]
Vascular cell adhesion protein 1
Show all
CD markers
Predicted membrane proteins
   Prediction method-based
   Membrane proteins predicted by MDM
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
   # TM segments-based
   1TM proteins predicted by MDM
Plasma proteins
Cancer-related genes
   Candidate cancer biomarkers
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0002102 [podosome]
GO:0005178 [integrin binding]
GO:0005515 [protein binding]
GO:0005615 [extracellular space]
GO:0005769 [early endosome]
GO:0005783 [endoplasmic reticulum]
GO:0005794 [Golgi apparatus]
GO:0005886 [plasma membrane]
GO:0005902 [microvillus]
GO:0007155 [cell adhesion]
GO:0007157 [heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules]
GO:0007159 [leukocyte cell-cell adhesion]
GO:0007160 [cell-matrix adhesion]
GO:0008131 [primary amine oxidase activity]
GO:0009308 [amine metabolic process]
GO:0009897 [external side of plasma membrane]
GO:0009986 [cell surface]
GO:0016021 [integral component of membrane]
GO:0016032 [viral process]
GO:0019221 [cytokine-mediated signaling pathway]
GO:0022614 [membrane to membrane docking]
GO:0030175 [filopodium]
GO:0030183 [B cell differentiation]
GO:0030198 [extracellular matrix organization]
GO:0035584 [calcium-mediated signaling using intracellular calcium source]
GO:0042102 [positive regulation of T cell proliferation]
GO:0045177 [apical part of cell]
GO:0050776 [regulation of immune response]
GO:0050839 [cell adhesion molecule binding]
GO:0050901 [leukocyte tethering or rolling]
GO:0055114 [oxidation-reduction process]
GO:0060333 [interferon-gamma-mediated signaling pathway]
GO:0070062 [extracellular exosome]
GO:0071065 [alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex]
Show all
647 aa
71.3 kDa
Yes 1
VCAM1-003
ENSP00000359133
ENST00000370115
E9PDD2 [Direct mapping]
Vascular cell adhesion protein 1
Show all
Predicted membrane proteins
   Prediction method-based
   Membrane proteins predicted by MDM
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
   # TM segments-based
   1TM proteins predicted by MDM
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005515 [protein binding]
GO:0007155 [cell adhesion]
GO:0016021 [integral component of membrane]
GO:0016337 [single organismal cell-cell adhesion]
Show all
540 aa
59.2 kDa
Yes 1
VCAM1-004
ENSP00000359137
ENST00000370119
P19320 [Direct mapping]
Vascular cell adhesion protein 1
Show all
CD markers
Predicted membrane proteins
   Prediction method-based
   Membrane proteins predicted by MDM
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
   # TM segments-based
   1TM proteins predicted by MDM
Plasma proteins
Cancer-related genes
   Candidate cancer biomarkers
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0002102 [podosome]
GO:0005178 [integrin binding]
GO:0005515 [protein binding]
GO:0005615 [extracellular space]
GO:0005769 [early endosome]
GO:0005783 [endoplasmic reticulum]
GO:0005794 [Golgi apparatus]
GO:0005886 [plasma membrane]
GO:0005902 [microvillus]
GO:0007155 [cell adhesion]
GO:0007157 [heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules]
GO:0007159 [leukocyte cell-cell adhesion]
GO:0007160 [cell-matrix adhesion]
GO:0008131 [primary amine oxidase activity]
GO:0009308 [amine metabolic process]
GO:0009897 [external side of plasma membrane]
GO:0009986 [cell surface]
GO:0016021 [integral component of membrane]
GO:0016032 [viral process]
GO:0019221 [cytokine-mediated signaling pathway]
GO:0022614 [membrane to membrane docking]
GO:0030175 [filopodium]
GO:0030183 [B cell differentiation]
GO:0030198 [extracellular matrix organization]
GO:0035584 [calcium-mediated signaling using intracellular calcium source]
GO:0042102 [positive regulation of T cell proliferation]
GO:0045177 [apical part of cell]
GO:0050776 [regulation of immune response]
GO:0050839 [cell adhesion molecule binding]
GO:0050901 [leukocyte tethering or rolling]
GO:0055114 [oxidation-reduction process]
GO:0060333 [interferon-gamma-mediated signaling pathway]
GO:0070062 [extracellular exosome]
GO:0071065 [alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex]
Show all
677 aa
74.3 kDa
Yes 1

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The Human Protein Atlas project is funded
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