ArticleGenes, chromosomes & cancer2009
Oncogenetic tree model of somatic mutations and DNA methylation in colon tumors.
Article in Genes, chromosomes & cancer, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
19 citing papers in PubMed, 40 citations in OpenAlex.
- Assessing tumor mutations to gain insight into base excision repair sequence polymorphisms and smoking in colon cancer.Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology · 2009Trial
- Systematic analysis of differentially methylated expressed genes and site-specific methylation as potential prognostic markers in head and neck cancer.Journal of cellular physiology · 2019Article
- Vitamin C promotes decitabine or azacytidine induced DNA hydroxymethylation and subsequent reactivation of the epigenetically silenced tumour suppressorOncotarget · 2018Article
- KRAS, BRAF oncogene mutations and tissue specific promoter hypermethylation of tumor suppressor SFRP2, DAPK1, MGMT, HIC1 and p16 genes in colorectal cancer patients.Cancer biomarkers : section A of Disease markers · 2016Article
- Article
- USING SOMATIC MUTATION DATA TO TEST TUMORS FOR CLONAL RELATEDNESS.The annals of applied statistics · 2015Article
- Combined methylation of p16 and hMLH1 (CMETH2) discriminates a subpopulation with better prognosis in colorectal cancer patients with microsatellite instability tumors.Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine · 2015Article
- Identifying restrictions in the order of accumulation of mutations during tumor progression: effects of passengers, evolutionary models, and sampling.BMC bioinformatics · 2015Article
- Intrinsic cancer subtypes--next steps into personalized medicine.Cellular oncology (Dordrecht, Netherlands) · 2015Review
- Meta-analysis of the association between APC promoter methylation and colorectal cancer.OncoTargets and therapy · 2015Article
- Associations between colorectal cancer molecular markers and pathways with clinicopathologic features in older women.Gastroenterology · 2013Article
- Article
- Accurate reconstruction of the temporal order of mutations in neoplastic progression.Cancer prevention research (Philadelphia, Pa.) · 2011Article
- KRAS, NRAS, PIK3CA exon 20, and BRAF genotypes in synchronous and metachronous primary colorectal cancers diagnostic and therapeutic implications.The Journal of molecular diagnostics : JMD · 2011Article
- Nutrients in folate-mediated, one-carbon metabolism and the risk of rectal tumors in men and women.Nutrition and cancer · 2011Article
- Article
- The correlation pattern of acquired copy number changes in 164 ETV6/RUNX1-positive childhood acute lymphoblastic leukemias.Human molecular genetics · 2010Article
- Article
- Enhancing cellular cancer vaccines.Immunotherapy · 2009Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 2 institutions in 1 country.
Funding
Abstract
Our understanding of somatic alterations in colon cancer has evolved from a concept of a series of events taking place in a single sequence to a recognition of multiple pathways. An oncogenetic tree is a model intended to describe the pathways and sequence of somatic alterations in carcinogenesis without assuming that tumors will fall in mutually exclusive categories. We applied this model to data on colon tumor somatic alterations. An oncogenetic tree model was built using data on mutations of TP53, KRAS2, APC, and BRAF genes, methylation at CpG sites of MLH1 and TP16 genes, methylation in tumor (MINT) markers, and microsatellite instability (MSI) for 971 colon tumors from a population-based series. Oncogenetic tree analysis resulted in a reproducible tree with three branches. The model represents methylation of MINT markers as initiating a branch and predisposing to MSI, methylation of MHL1 and TP16, and BRAF mutation. APC mutation is the first alteration in an independent branch and is followed by TP53 mutation. KRAS2 mutation was placed a third independent branch, implying that it neither depends on, nor predisposes to, the other alterations. Individual tumors were observed to have alteration patterns representing every combination of one, two, or all three branches. The oncogenetic tree model assumptions are appropriate for the observed heterogeneity of colon tumors, and the model produces a useful visual schematic of the sequence of events in pathways of colon carcinogenesis.
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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.