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Abstract 09: Contribution of known and novel BRCA-mediated DNA repair pathway genes to pancreatic cancer susceptibility

2014· article· en· W2093944165 on OpenAlexaffabout
Alyssa Smith, Robert C. Grant, Anita Hall, Najmeh Alirezaie, Spring Holter, Thomas A. Whelan, Iris Selander, Treasa A. McPherson, John Peter McPherson, Atilla Ömeroğlu, Jacek Majewski, William D. Foulkes, Steven Gallinger, George Zogopoulos

Bibliographic record

VenueCancer Research · 2014
Typearticle
Languageen
FieldBiochemistry, Genetics and Molecular Biology
TopicCancer Genomics and Diagnostics
Canadian institutionsMcGill University Health CentreOntario Institute for Cancer ResearchMcGill University and Génome Québec Innovation CentreLunenfeld-Tanenbaum Research InstituteMount Sinai HospitalMcGill University
Fundersnot available
KeywordsPALB2GeneticsMutationFounder effectCancerBRCA2 ProteinPancreatic cancerBiologyPopulationGeneDNA repairGermline mutationCancer researchAlleleMedicineHaplotype

Abstract

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Abstract Although 10% of pancreatic adenocarcinoma (PC) cases cluster in families, the genetic basis underlying most familial PC cases is unknown. Mutations in the BRCA-pathway genes (BRCA1/2, PALB2) are rare causes of PC, but may have a more significant role in French-Canadians (FC), a population enriched with founder mutations in these genes. We have hypothesized that 1) mutations in the BRCA-pathway genes represent 5% of the genetic susceptibility to PC in French-Canadians and, 2) that familial PC cases without mutations in known PC susceptibility genes have causative mutations in other tumor suppressor genes. In a prospective clinic-based study, we screened unselected incident PC cases with FC ancestry (n=52) for the common FC founder mutations (n=20) and uncovered the PALB2:c.2323C>T and BRCA2:c.3170_3174delAGAAA founder mutations in 2 kindreds. Additionally, we identified a novel loss-of-function BRCA2 mutation in a 3rd FC family. Since the role of PALB2 as a PC susceptibility gene is not well established, we provide supporting evidence by confirming mutation segregation with disease, as well as loss of the wild-type allele in the corresponding tumours. Of note, both BRCA2 mutation carriers were treated with platinum-based chemotherapy, targeting DNA repair defects in their tumors, and demonstrated marked tumor responses. To search for novel genetic causes of PC, we identified 99 high-risk families, including cases with 2 or more PC-affected relatives or early onset PC presentations, collected prospectively through the Quebec and Ontario Pancreas Cancer Studies. We employed exome sequencing to interrogate all of the protein-coding regions of the human genome in these 99 high-risk cases, as well as in 13 PC-affected relatives. Although these investigations did not reveal a single gene to explain the unaccounted fraction of familial PC, we identified 9 putative familial PC genes with rare, loss-of-function variants among multiple high-risk families. Two of these candidate familial PC genes are involved in the BRCA-mediated DNA repair pathway. Our data suggest that BRCA-pathway mutations may contribute significantly to PC susceptibility in French-Canadians and that mutation carriers have improved clinical outcomes if treated with agents that target BRCA-deficient cells. As well, we have identified 9 novel familial PC candidate genes, including 2 genes that are involved in the BRCA-pathway. Citation Format: Alyssa Smith, Robert Grant, Anita Hall, Najmeh Alirezaie, Spring Holter, Thomas Whelan, Iris Selander, Treasa McPherson, John McPherson, Atilla Omeroglu, Jacek Majewski, William Foulkes, Steven Gallinger, George Zogopoulos. Contribution of known and novel BRCA-mediated DNA repair pathway genes to pancreatic cancer susceptibility. [abstract]. In: Proceedings of the AACR Special Conference: Cancer Susceptibility and Cancer Susceptibility Syndromes; Jan 29-Feb 1, 2014; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(23 Suppl):Abstract nr 09. doi:10.1158/1538-7445.CANSUSC14-09

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)0.000
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 score0.034
Threshold uncertainty score0.067

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0000.000
Meta-epidemiology (narrow)0.0000.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0010.000
Science and technology studies0.0000.000
Scholarly communication0.0000.000
Open science0.0000.000
Research integrity0.0000.000
Insufficient payload (model declined to judge)0.0050.000

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 head0.029
GPT teacher head0.339
Teacher spread0.310 · 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

Citations0
Published2014
Admission routes2
Has abstractyes

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