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Record W2969305581 · doi:10.1002/prot.25805

Target highlights in CASP13: Experimental target structures through the eyes of their authors

2019· article· en· W2969305581 on OpenAlex
Rosalba Lepore, Andriy Kryshtafovych, Markus Alahuhta, Harshul Arora Verasztó, Yannick J. Bomble, Joshua C. Bufton, Alex N. Bullock, Cody Caba, Hongnan Cao, Owen R. Davies, Ambroise Desfosses, Matthew Dunne, Krzysztof Fidelis, Celia W. Goulding, Manickam Gurusaran, Irina Gutsche, Christopher J. Harding, Marcus D. Hartmann, Christopher S. Hayes, A. Joachimiak, P.G. Leiman, P. Loppnau, Andrew L. Lovering, V.V. Lunin, K. Michalska, Ignacio Mir‐Sanchis, AK Mitra, John Moult, Daniel M. Pinkas, Phoebe A. Rice, Yufeng Tong, Maya Topf, Jonathan D. Walton, Torsten Schwede

Why this work is in the frame

A frame that forgets how it found something cannot be audited. These are the routes that admitted this work.

affAt least one author lists a Canadian institution in the pinned OpenAlex snapshot.
fundA Canadian funder is recorded on the work.

Bibliographic record

VenueProteins Structure Function and Bioinformatics · 2019
Typearticle
Languageen
FieldMedicine
TopicAutophagy in Disease and Therapy
Canadian institutionsStructural Genomics ConsortiumUniversity of TorontoUniversity of Windsor
FundersEshelman Institute for Innovation, University of North Carolina at Chapel HillNational Institute of General Medical SciencesNational Institutes of HealthETH Zürich FoundationInnovative Medicines InitiativeCanada Foundation for InnovationWellcome TrustAbbVieEuropean Federation of Pharmaceutical Industries and AssociationsEidgenössische Technische Hochschule ZürichGenome CanadaBiotechnology and Biological Sciences Research CouncilBoehringer IngelheimU.S. Department of Energy
KeywordsComputational biologyComputer scienceChemistryBiology

Abstract

fetched live from OpenAlex

The functional and biological significance of selected CASP13 targets are described by the authors of the structures. The structural biologists discuss the most interesting structural features of the target proteins and assess whether these features were correctly reproduced in the predictions submitted to the CASP13 experiment.

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.

Full frame distilled prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.

metaresearch head score (Codex)0.000
metaresearch head score (Gemma)0.000
Version: codex-gemma-dda1882f352aValidation status: machine_predicted_unvalidated
Candidate categoriesInsufficient payload (model declined to judge)
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Bench or experimental · Consensus signal: Bench or experimental
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.370
Threshold uncertainty score1.000

Codex and Gemma teacher scores by category

CategoryCodexGemma
Metaresearch0.0000.000
Meta-epidemiology (narrow)0.0000.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0000.000
Science and technology studies0.0000.000
Scholarly communication0.0000.000
Open science0.0000.000
Research integrity0.0000.000
Insufficient payload (model declined to judge)0.0010.000

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 head0.009
GPT teacher head0.243
Teacher spread0.234 · 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