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Record W2888034354 · doi:10.1093/annonc/mdy263

A framework to rank genomic alterations as targets for cancer precision medicine: the ESMO Scale for Clinical Actionability of molecular Targets (ESCAT)

2018· article· en· W2888034354 on OpenAlexaff
Joaquı́n Mateo, Debyani Chakravarty, Rodrigo Dienstmann, S. Jezdic, Abel González-Pérez, Núria López-Bigas, Charlotte K.Y. Ng, Philippe L. Bédard, Giampaolo Tortora, J.-Y. Douillard, Eliezer M. Van Allen, Nikolaus Schultz, Charles Swanton, Lajos Pusztai

Bibliographic record

VenueAnnals of Oncology · 2018
Typearticle
Languageen
FieldBiochemistry, Genetics and Molecular Biology
TopicCancer Genomics and Diagnostics
Canadian institutionsPrincess Margaret Cancer Centre
FundersMedical Research CouncilStand Up To CancerNational Cancer InstituteServierEuropean Society for Medical OncologyCRUK Lung Cancer Centre of ExcellenceRosetrees TrustNational Institute for Health and Care ResearchUniversity College LondonWellcome TrustCancer Research UKAstraZenecaInvitaeSyndax PharmaceuticalsBiomedical Research CouncilFrancis Crick InstituteGenentechSeattle GeneticsNational Institute on Handicapped ResearchPTC TherapeuticsNovartisCelgeneSanofiWellcomeRocheMerckGlaxoSmithKlineUniversity College London Hospitals NHS Foundation TrustProstate Cancer FoundationAssociazione Italiana per la Ricerca sul CancroEli Lilly and CompanyBristol-Myers SquibbPfizerBreast Cancer Research FoundationBoehringer Ingelheim
KeywordsMedicinePrecision medicineScale (ratio)CancerComputational biologyRank (graph theory)OncologyBioinformaticsMedical physicsInternal medicinePathologyCartographyBiology

Abstract

fetched live from OpenAlex

Background: In order to facilitate implementation of precision medicine in clinical management of cancer, there is a need to harmonise and standardise the reporting and interpretation of clinically relevant genomics data. Methods: The European Society for Medical Oncology (ESMO) Translational Research and Precision Medicine Working Group (TR and PM WG) launched a collaborative project to propose a classification system for molecular aberrations based on the evidence available supporting their value as clinical targets. A group of experts from several institutions was assembled to review available evidence, reach a consensus on grading criteria and present a classification system. This was then reviewed, amended and finally approved by the ESMO TR and PM WG and the ESMO leadership. Results: This first version of the ESMO Scale of Clinical Actionability for molecular Targets (ESCAT) defines six levels of clinical evidence for molecular targets according to the implications for patient management: tier I, targets ready for implementation in routine clinical decisions; tier II, investigational targets that likely define a patient population that benefits from a targeted drug but additional data are needed; tier III, clinical benefit previously demonstrated in other tumour types or for similar molecular targets; tier IV, preclinical evidence of actionability; tier V, evidence supporting co-targeting approaches; and tier X, lack of evidence for actionability. Conclusions: The ESCAT defines clinical evidence-based criteria to prioritise genomic alterations as markers to select patients for targeted therapies. This classification system aims to offer a common language for all the relevant stakeholders in cancer medicine and drug development.

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)0.114
metaresearch head score (Gemma)0.139
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Theoretical or conceptual · Consensus signal: none
GenreCandidate signal: Methods · Consensus signal: Methods
Teacher disagreement score0.114
Threshold uncertainty score0.601

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.1140.139
Meta-epidemiology (narrow)0.0030.001
Meta-epidemiology (broad)0.0050.009
Bibliometrics0.0280.011
Science and technology studies0.0040.009
Scholarly communication0.0160.008
Open science0.0070.011
Research integrity0.0060.010
Insufficient payload (model declined to judge)0.0060.002

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 head0.070
GPT teacher head0.464
Teacher spread0.394 · 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 designTheoretical or conceptual
Domainnot available
GenreMethods

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

Citations787
Published2018
Admission routes1
Has abstractyes

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