ArticleGenes, chromosomes & cancer2015
Gene expression in colon cancer: A focus on tumor site and molecular phenotype.
Article in Genes, chromosomes & cancer, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed, 48 citations in OpenAlex.
- DNA methylation signatures of sporadic colorectal cancer with microsatellite instability.Epigenetics · 2026Article
- Exome analysis links kidney malformations to developmental disorders and reveals causal genes.Nature communications · 2025Article
- An Integrative Genomics Approach for the Discovery of Potential Clinically Actionable Diagnostic and Prognostic Biomarkers in Colorectal Cancer.Biomedicines · 2025Article
- Diet Impacts on Gene Expression in Healthy Colon Tissue: Insights from the BarcUVa-Seq Study.Nutrients · 2024Article
- The CK1δ/ϵ-Tip60 Axis Enhances Wnt/β-Catenin SignalingFrontiers in oncology · 2022Article
- Molecular heterogeneity of guanine nucleotide binding-protein γ subunit 4 in left- and right-sided colon cancer.Oncology letters · 2020Article
- Utility ofGlobal medical genetics · 2020Review
- Article
- Weighted gene coexpression analysis indicates that PLAGL2 and POFUT1 are related to the differential features of proximal and distal colorectal cancer.Oncology reports · 2019Article
- The p53-signaling pathway and colorectal cancer: Interactions between downstream p53 target genes and miRNAs.Genomics · 2019Article
- Wnt-11 as a Potential Prognostic Biomarker and Therapeutic Target in Colorectal Cancer.Cancers · 2019Article
- Power in pairs: assessing the statistical value of paired samples in tests for differential expression.BMC genomics · 2018Article
- The TGFβ-signaling pathway and colorectal cancer: associations between dysregulated genes and miRNAs.Journal of translational medicine · 2018Article
- MicroRNA-messenger RNA interactions involving JAK-STAT signaling genes in colorectal cancer.Genes & cancer · 2018Article
- MicroRNA-transcription factor interactions and their combined effect on target gene expression in colon cancer cases.Genes, chromosomes & cancer · 2018Article
- Dysregulated genes and miRNAs in the apoptosis pathway in colorectal cancer patients.Apoptosis : an international journal on programmed cell death · 2018Article
- The PI3K/AKT signaling pathway: Associations of miRNAs with dysregulated gene expression in colorectal cancer.Molecular carcinogenesis · 2018Article
- The NF-κB signalling pathway in colorectal cancer: associations between dysregulated gene and miRNA expression.Journal of cancer research and clinical oncology · 2018Article
- Expression of Wnt-signaling pathway genes and their associations with miRNAs in colorectal cancer.Oncotarget · 2018Article
- miRNA involvement in cell cycle regulation in colorectal cancer cases.Genes & cancer · 2018Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
Hundreds to thousands of genes are differentially expressed in tumors when compared to nontumor colonic tissue samples. We evaluated gene expression patterns to better understand differences in colon cancer by tumor site and tumor molecular phenotype. We analyzed RNA-seq data from tumor/normal paired samples from 175 colon cancer patients. We implemented a cross validation strategy with nonparametric tests to identify genes which displayed varying expression characteristics related to paired tumor/nontumor tissue across proximal and distal colon sites and by tumor molecular phenotypes, that is, TP53, KRAS, CpG Island Methylator Phenotype (CIMP), and microsatellite instability (MSI). We used Ingenuity Pathway Analysis (IPA) to determine networks associated with deregulated genes in our data. Genes showed significant differences in expression characteristics at the 0.01 level in both validation groups between tumor subsite (116 genes), CIMP high versus CIMP low (79 genes), MSI versus microsatellite stable (MSS) (49 genes), TP53-mutated versus not mutated (17genes), and KRAS-mutated versus not mutated (1 gene). Deregulated genes for CIMP high and MSI tumors were often down-regulated. In contrast to CIMP high and MSI tumors, genes that were deregulated in TP53 were likely to be up-regulated. ERK1, WNT, growth factors and inflammation-related factors were focal points of both CIMP and MSI IPA networks. The MUC family of genes was up-regulated MSI networks. Numerous genes showed differences in expression between proximal and distal tumors, nontumor proximal and distal tissue, and tumor molecular phenotype. Deregulated mucin genes appear to play an important role in MSI tumors.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.