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Record W2991342816 · doi:10.1101/844092

A resource of targeted mutant mouse lines for 5,061 genes

2019· preprint· en· W2991342816 on OpenAlexafffund
Marie‐Christine Birling, Atsushi Yoshiki, David J. Adams, Shinya Ayabe, Arthur L. Beaudet, Joanna Bottomley, Allan Bradley, Steve D. M. Brown, Antje Bürger, Wendy Bushell, Francesco Chiani, Hsian‐Jean Chin, Skevoulla Christou, Gemma Codner, Francesco J. DeMayo, Mary E. Dickinson, Brendan Doe, Leah Rae Donahue, Martin Fray, Alessia Gambadoro, Xiang Gao, Marina Gertsenstein, Alba Gomez-Segura, Leslie O. Goodwin, Jason D. Heaney, Yann Hérault, Martin Hrabě de Angelis, Si‐Tse Jiang, Monica J. Justice, Petr Kašpárek, Ruairidh King, Ralf Kühn, Ho Lee, Young Jae Lee, Zhiwei Liu, K. C. Kent Lloyd, Isabel Lorenzo, Ann‐Marie Mallon, Colin McKerlie, Terrence F. Meehan, Stuart Newman, Lauryl Mj Nutter, Goo Taeg Oh, Guillaume Pavlovic, Ramiro Ramírez‐Solis, Barry P. Rosen, Edward J. Ryder, Luís Santos, Joel Schick, John R. Seavitt, Radislav Sedláček, Claudia Seisenberger, Je Kyung Seong, William C. Skarnes, Tania Sorg, Karen P. Steel, Masaru Tamura, Glauco P. Tocchini‐Valentini, Chi‐Kuang Leo Wang, Hannah Wardle‐Jones, Marie Wattenhofer‐Donzé, Sara Wells, Brandon Willis, Joshua A. Wood, Wolfgang Wurst, Ying Xu, Lydia Teboul, Stephen A. Murray

Bibliographic record

VenuebioRxiv (Cold Spring Harbor Laboratory) · 2019
Typepreprint
Languageen
FieldBiochemistry, Genetics and Molecular Biology
TopicAnimal Genetics and Reproduction
Canadian institutionsHospital for Sick ChildrenToronto Centre for Phenogenomics
FundersNIH Office of the DirectorRIKENMedical Research CouncilPHENOMINAkademie Věd České RepublikyCommon FundUniversité de StrasbourgInstitut National de la Santé et de la Recherche MédicaleCentre National de la Recherche ScientifiqueMinisterstvo Školství, Mládeže a TělovýchovyMinistry of Education, Culture, Sports, Science and TechnologyWellcome TrustAgence Nationale de la RechercheEuropean Regional Development FundEuropean CommissionGenome CanadaNational Institutes of HealthOntario GenomicsNational Research FoundationINFRAFRONTIER
KeywordsAlleleMutantGeneGeneticsBiologyNull alleleGenomeReporter geneComputational biology

Abstract

fetched live from OpenAlex

Abstract The International Mouse Phenotyping Consortium reports the generation of new mouse mutant strains for over 5,000 genes from targeted embryonic stem cells on the C57BL/6N genetic background. This includes 2,850 null alleles for which no equivalent mutant mouse line exists, 2,987 novel conditional-ready alleles, and 4,433 novel reporter alleles. This nearly triples the number of genes with reporter alleles and almost doubles the number of conditional alleles available to the scientific community. When combined with more than 30 years of community effort, the total mutant allele mouse resource covers more than half of the genome. The extensively validated collection is archived and distributed through public repositories, facilitating availability to the worldwide biomedical research community, and expanding our understanding of gene function and human disease.

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)0.002
metaresearch head score (Gemma)0.001
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Bench or experimental · Consensus signal: Bench or experimental
GenreCandidate signal: Dataset · Consensus signal: Dataset
Teacher disagreement score0.037
Threshold uncertainty score0.123

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0020.001
Meta-epidemiology (narrow)0.0020.001
Meta-epidemiology (broad)0.0020.001
Bibliometrics0.0070.004
Science and technology studies0.0010.001
Scholarly communication0.0010.001
Open science0.0030.002
Research integrity0.0010.002
Insufficient payload (model declined to judge)0.0370.051

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 head0.012
GPT teacher head0.221
Teacher spread0.209 · 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 designBench or experimental
Domainnot available
GenreDataset

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

Citations10
Published2019
Admission routes2
Has abstractyes

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Same venuebioRxiv (Cold Spring Harbor Laboratory)Same topicAnimal Genetics and ReproductionFrench-language works237,207