Basic information

Full name
laminin subunit alpha 4
Ensembl
ENSG00000112769.20
Summary
Laminins, a family of extracellular matrix glycoproteins, are the major noncollagenous constituent of basement membranes. They have been implicated in a wide variety of biological processes including cell adhesion, differentiation, migration, signaling, neurite outgrowth and metastasis. Laminins are composed of 3 non identical chains: laminin alpha, beta and gamma (formerly A, B1, and B2, respectively) and they form a cruciform structure consisting of 3 short arms, each formed by a different chain, and a long arm composed of all 3 chains. Each laminin chain is a multidomain protein encoded by a distinct gene. Several isoforms of each chain have been described. Different alpha, beta and gamma chain isomers combine to give rise to different heterotrimeric laminin isoforms which are designated by Arabic numerals in the order of their discovery, i.e. alpha1beta1gamma1 heterotrimer is laminin 1. The biological functions of the different chains and trimer molecules are largely unknown, but some of the chains have been shown to differ with respect to their tissue distribution, presumably reflecting diverse functions in vivo. This gene encodes the alpha chain isoform laminin, alpha 4. The domain structure of alpha 4 is similar to that of alpha 3, both of which resemble truncated versions of alpha 1 and alpha 2, in that approximately 1,200 residues at the N-terminus (domains IV, V and VI) have been lost. Laminin, alpha 4 contains the C-terminal G domain which distinguishes all alpha chains from the beta and gamma chains. The RNA analysis from adult and fetal tissues revealed developmental regulation of expression, however, the exact function of laminin, alpha 4 is not known. Tissue-specific utilization of alternative polyA-signal has been described in literature. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Aug 2011]
Annotation
Ligand

Protein product

Phosphosites on the primary protein product
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Tumor and normal comparison

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Signed p-values
Data type
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
RNA-0.54-4.3e-29--5.6e-4-9.1e-22-1.8e-30-5.2e-4-
protein-3.3e-29-8.6e-25-1.2e-23--4.2e-5-1.7e-27-2.6e-33-9.4e-108.3e-9-0.01

* P-values are from Wilcoxon rank sum test and can be clicked to show the box plots. Positive values mean higher abundance in tumor. BRCA and GBM do not have normal samples.

mRNA expression at gene level
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC789101112131415log2(RSEM+1)tumornormal
Protein expression
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC24.52525.52626.52727.52828.52929.53030.5log2(MS1 intensity)tumornormal

* Mild outlier: filled circle; Extreme outlier: empty circle.

Phenotype and mutation association

Manhattan plot summarizing associations of phenotypes and mutations across all cohorts and omics data types

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC051015202530350-5-10-15-20-25-30-35Pan-cancer0204060801001201401601800-20-40-60-80-100-120-140-160-180proteinRNASCNVclinicalpathwaycell typegenomicmutation-log10 of P-value

* Data points of significant associations above and below the dotted lines can be hovered to show the phenotype.

Associations of the protein abundance of LAMA4 with phenotypes and mutations

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Signed p-values
Phenotype
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
PROGENy: TGFb3.4e-852.2e-163.5e-106e-79.7e-48.9e-92.2e-161.2e-72.2e-166.4e-42.2e-16
xcell: stroma score9.5e-832.2e-162.2e-162.2e-162.2e-160.0453.6e-90.0247.2e-98.0e-52.2e-16
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION2.6e-762.2e-162.8e-32.4e-74.8e-62.8e-82.2e-162.6e-62.2e-168.1e-32.2e-16
HALLMARK_UV_RESPONSE_DN3e-692e-102.9e-81.9e-55.3e-32.8e-62.2e-162.4e-42.2e-162.5e-42.2e-16
xcell: Endothelial cell1e-627.7e-102.2e-164.7e-37.9e-130.18.1e-131.4e-138.7e-30.0127.9e-13
ESTIMATE: StromalScore3e-582.2e-161.7e-39.4e-80.0231.1e-32.2e-162.1e-41.7e-100.032.2e-16
HALLMARK_MYOGENESIS1.6e-551.6e-112.2e-92.7e-80.0293.9e-33.4e-90.0152.9e-82.7e-52.2e-16
HALLMARK_ANGIOGENESIS4.3e-556.6e-102.6e-44.2e-64.3e-94.6e-42e-143.8e-52.2e-16-0.939.5e-9
HALLMARK_APICAL_JUNCTION1.5e-447.5e-91.2e-34.5e-30.0051.1e-31.8e-80.352.2e-167.8e-42.2e-16
HALLMARK_TGF_BETA_SIGNALING2.4e-438.6e-76.2e-137.0e-50.187.4e-33.2e-92.3e-45.3e-90.0141.7e-8
Showing 1 to 10 of 256 rows

* P-values could be from test for Spearman correlation, Wilcoxon rank sum test, Jonckheere-Terpstra trend test or Cox regression depending on the data type. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Cis-association

Associations between omics data of LAMA4

BRCA0.66-0.13-0.07proteinmRNASCNVmethylationCCRCC0.67-0.170.02-0.180.150.10proteinmRNASCNVmethylationCOAD0.360.180.01proteinmRNASCNVmethylationGBM0.61-0.000.050.100.220.15proteinmRNASCNVmethylationHNSCC0.64-0.150.17-0.010.18-0.03proteinmRNASCNVmethylationLSCC0.680.130.070.200.110.07proteinmRNASCNVmethylationLUAD0.570.17-0.070.210.070.04proteinmRNASCNVmethylationOV0.68-0.040.08proteinmRNASCNVmethylationPDAC0.280.120.09-0.120.05-0.15proteinmRNASCNVmethylationUCEC0.85-0.03-0.04-0.03-0.010.13proteinmRNASCNVmethylation

* The numbers are Spearman correlation coefficients and can be clicked to show the scatter plots. The color and size of the circles correlate with the coefficients.

Trans-association

Associations of the protein abundance of LAMA4 and the protein abundance of other genes

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Signed p-values
Gene
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
No matching records found

* P-values are from test for Spearman correlation. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Gene set enrichment analysis

Submit genes and the common logarithm of the p-values of their association with to WebGestalt.