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Record W2968107447

A prospective study of BRAF and K-ras mutations in colorectal polyps: location, histologic subtype and clinical relevance

2006· article· en· W2968107447 on OpenAlexaff
Kevin J. Spring, Rozemary Karamatic, Michael D. Walsh, Kazutomo Togashi, Mark Appleyard, Tanya Pike, Lisa A. Simms, Joanne Young, Vicki Whitehall, Jeremy R. Jass, Barbara Leggett

Bibliographic record

VenueCancer Research · 2006
Typearticle
Languageen
FieldMedicine
TopicGenetic factors in colorectal cancer
Canadian institutionsMcGill University
Fundersnot available
KeywordsHyperplastic PolypMicrosatellite instabilityColorectal cancerMedicineCancer researchCancerV600EMutationInternal medicinePathologyOncologyBiologyColonoscopyGeneticsGeneAlleleMicrosatellite
DOInot available

Abstract

fetched live from OpenAlex

388 Colorectal cancer (CRC) is a leading cause of cancer mortality and is considered a heterogenous disease. The majority of CRCs arise sporadically through the accumulation of genetic alterations and clonal expansion. Approximately 15% of sporadic CRC exhibit high-level microsatellite instability (MSI-H) and are frequently associated with the CpG island methylation phenotype (CIMP). The initiation and progression of sporadic MSI-H cancers is less well understood and may evolve from hyperplastic polyps (HPs). Previously, hyperplastic polyps as opposed to adenomas were considered to have little or no malignant potential, but this view is being increasingly challenged. It has been proposed that a subset of HPs predispose to sporadic MSI-H cancers and progress through an alternate serrated neoplastic pathway involving oncogenic BRAF (V600E) mutation. Recently oncogenic BRAF mutations have been identified in hyperplastic polyps, serrated adenomas (SA) and carcinomas of the colorectum. Both BRAF and K-ras are involved in the MAP kinase signalling pathway, which influences cell differentiation, proliferation, survival and apoptosis. Activation of this pathway may be an early event in the development of sporadic MSI-H cancers from a specific subset of HPs. In this study we investigated prevalence, location, size, and mutation of BRAF and K-ras in all colorectal polyps obtained from an unselected series of colonoscopies. Two hundred patients were recruited for this study and of these 151 had polyps. All polyps were removed and 99% were retrieved for histology and further analysis. 449 polyps from 146 patients were classified by a single pathologist and further analysed for BRAF and K-ras mutations. Polyps were classified as HPs either of goblet cell (GC) or microvesicular (MV) sub-type, serrated adenomas (SAs), sessile serrated adenomas (SSAs), mixed polyps (MPs), tubular adenomas (TAs) and tubulovillous adenomas (TVAs). Polyps were screened for A1796 activating BRAF mutations (V600E) and K-ras codon 12 and 13 mutations using both an allele-specific real-time PCR assay and Sequenom MassARRAY assay. Of these 32% were HPs (consisting of 19% GC and 13% MV sub-type), 1% SAs, 1.5% MPs, 12% SSAs, 50 % TAs and 4% TVAs. The majority of GC- and MV- HPs were distal in location compared with SSAs, SAs and MPs which were mainly proximally located. In SSAs, SAs and MPs BRAF mutations were more highly represented (79%), whereas K-ras mutations were uncommoon (8%). Conversely, BRAF mutation was extremely rare in TAs and TVAs (0.6%). In conclusion the high prevalence of BRAF mutation in proximal serrated polyps (SSAs, SAs and MPs) provides further support for the serrated neoplastic pathway in the development of sporadic MSI-H colorectal cancer.

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame machine prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.

metaresearch head score (Codex)0.000
metaresearch head score (Gemma)0.002
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Observational · Consensus signal: Observational
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.002
Threshold uncertainty score0.007

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0000.002
Meta-epidemiology (narrow)0.0000.001
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0010.001
Science and technology studies0.0000.000
Scholarly communication0.0000.001
Open science0.0000.000
Research integrity0.0010.001
Insufficient payload (model declined to judge)0.0020.001

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.076
GPT teacher head0.446
Teacher spread0.370 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designObservational
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations6
Published2006
Admission routes1
Has abstractyes

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