Gene: TPM1

LinkedOmicsKB © 2022-2023 Zhang Lab

Basic information

Full name
tropomyosin 1
Ensembl
ENSG00000140416.23
Summary
This gene is a member of the tropomyosin family of highly conserved, widely distributed actin-binding proteins involved in the contractile system of striated and smooth muscles and the cytoskeleton of non-muscle cells. Tropomyosin is composed of two alpha-helical chains arranged as a coiled-coil. It is polymerized end to end along the two grooves of actin filaments and provides stability to the filaments. The encoded protein is one type of alpha helical chain that forms the predominant tropomyosin of striated muscle, where it also functions in association with the troponin complex to regulate the calcium-dependent interaction of actin and myosin during muscle contraction. In smooth muscle and non-muscle cells, alternatively spliced transcript variants encoding a range of isoforms have been described. Mutations in this gene are associated with type 3 familial hypertrophic cardiomyopathy. [provided by RefSeq, Jul 2008]

Protein product

  • ENST00000403994.9 Primary ENSP00000385107.4 (11 phosphosites)
  • ENST00000560959.5
  • ENST00000558910.3
  • ENST00000404484.9
  • ENST00000559281.6
  • ENST00000334895.10
  • ENST00000317516.12
  • ENST00000651577.1
  • ENST00000651704.1
  • ENST00000610733.1
  • ENST00000357980.9
  • ENST00000358278.7
  • ENST00000267996.11
  • ENST00000288398.10
  • ENST00000561266.6
  • ENST00000560970.6
  • ENST00000559556.5
  • ENST00000559397.6
Phosphosites on the primary protein product

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
RNA0.016-6.8e-21---0.57-0.056-0.11-0.21-
protein-4.7e-49--0.2-4.6e-26--8.2e-12-2.6e-31-1.2e-29-5.6e-94.7e-80.73

* 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
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC9.51010.51111.51212.51313.51414.51515.516log2(RSEM+1)tumornormal
Protein expression
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC26272829303132333435log2(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

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC024681012141618202224260-2-4-6-8-10-12-14-16-18-20-22-24-26Pan-cancer01020304050607080901000-10-20-30-40-50-60-70-80-90-100proteinRNASCNVclinicalpathwaycell 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 TPM1 with phenotypes and mutations

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Signed p-values
Phenotype
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
HALLMARK_MYOGENESIS3.1e-1072.2e-162.2e-161.4e-79e-72.2e-161.1e-127.1e-85.2e-92.2e-162.2e-16
PROGENy: TGFb4.1e-1032.2e-162.2e-161.5e-44.4e-62.2e-162.2e-164.2e-82.2e-163.8e-72.2e-16
ESTIMATE: StromalScore3.9e-872.2e-164.5e-94.5e-52e-72.2e-162.2e-160.0022.2e-169.8e-42.2e-16
xcell: stroma score3.8e-762.2e-165e-72.3e-100.0028.3e-52.2e-163.3e-62e-83.1e-72.2e-16
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION2.4e-722.2e-163.9e-74.2e-41.8e-43.1e-82.2e-167.3e-32.2e-165.0e-42.2e-16
HALLMARK_APICAL_JUNCTION7.6e-702.2e-162.2e-160.0161.5e-47.7e-94.1e-81.1e-32.2e-166.0e-62.1e-9
HALLMARK_UV_RESPONSE_DN7.1e-642.2e-165.2e-62.5e-32.3e-31.9e-62.2e-161.4e-63.7e-98.8e-32.2e-16
xcell: Cancer associated fibroblast3.8e-553.5e-63e-115.6e-11-0.791.9e-44.9e-131.4e-68e-71.3e-51e-11
HALLMARK_TGF_BETA_SIGNALING1.8e-492.2e-161.6e-40.038.1e-30.0132.2e-168.6e-62.9e-113.3e-56.2e-5
xcell: Hematopoietic stem cell2.1e-457.8e-125.5e-83.8e-60.078.7e-49.0e-62.6e-75.0e-57.2e-32.1e-10
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 TPM1

BRCA0.590.010.05proteinmRNASCNVmethylationCCRCC0.33-0.140.09-0.090.16-0.16proteinmRNASCNVmethylationCOAD0.32-0.000.26proteinmRNASCNVmethylationGBM0.590.150.160.190.320.02proteinmRNASCNVmethylationHNSCC0.590.160.010.050.11-0.04proteinmRNASCNVmethylationLSCC0.780.010.130.000.17-0.03proteinmRNASCNVmethylationLUAD0.58-0.230.09-0.310.28-0.10proteinmRNASCNVmethylationOV0.66-0.010.26proteinmRNASCNVmethylationPDAC0.53-0.030.29-0.080.410.00proteinmRNASCNVmethylationUCEC0.77-0.130.02-0.040.03-0.18proteinmRNASCNVmethylation

* 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 TPM1 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.