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Record W4304695497 · doi:10.1016/j.xgen.2022.100192

Global Biobank Meta-analysis Initiative: Powering genetic discovery across human disease

2022· article· en· W4304695497 on OpenAlexaff
Wei Zhou, Masahiro Kanai, Kuan-Han Wu, Humaira Rasheed, Kristin Tsuo, Jibril Hirbo, Ying Wang, Arjun Bhattacharya, Huiling Zhao, Shinichi Namba, Ida Surakka, Brooke N. Wolford, Valeria Lo Faro, Esteban A. Lopera-Maya, Kristi Läll, Marie-Julie Favé, Juulia Partanen, Sinéad B. Chapman, Juha Karjalainen, Mitja Kurki, Mutaamba Maasha, Ben Brumpton, Sameer Chavan, Tzu‐Ting Chen, Michelle Daya, Yi Ding, Yen‐Chen Anne Feng, Lindsay Guare, Christopher R. Gignoux, Sarah E. Graham, Whitney Hornsby, Nathan Ingold, Said I. Ismail, Ruth Johnson, Triin Laisk, Kuang Lin, Jun Lv, Iona Y. Millwood, Sonia Moreno–Grau, Kisung Nam, Priit Palta, Anita Pandit, Michael Preuß, Chadi Saad, Shefali Setia-Verma, Unnur Þorsteinsdóttir, Jasmina Uzunović, Anurag Verma, Matthew Zawistowski, Xue Zhong, Nahla Afifi, Kawthar Al-Dabhani, Asma Al Thani, Yuki Bradford, Archie Campbell, Kristy Crooks, Geertruida H. de Bock, Scott M. Damrauer, Nicholas J. Douville, Sarah Finer, Lars G. Fritsche, Eleni Fthenou, Gilberto Gonzalez-Arroyo, Chris Griffiths, Yu Guo, Karen A. Hunt, Alexander Ioannidis, Nomdo M. Jansonius, Takahiro Konuma, Ming Ta Michael Lee, Arturo Lopez-Pineda, Yuta Matsuda, Riccardo E. Marioni, Babak Moatamed, Marco A. Nava-Aguilar, Kensuke Numakura, Snehal Patil, Nicholas Rafaels, Anne Richmond, Agustin Rojas‐Muñoz, Jonathan Shortt, Péter Straub, Ran Tao, Brett Vanderwerff, Manvi Vernekar, Yogasudha Veturi, Kathleen C. Barnes, Marike Boezen, Zhengming Chen, Chia‐Yen Chen, Judy H. Cho, George Davey Smith, Hilary K. Finucane, Lude Franke, Eric R. Gamazon, Andrea Ganna, Tom R. Gaunt, Tian Ge, Hailiang Huang, Jennifer E. Huffman, Nicholas Katsanis, Jukka Koskela, Clara Lajonchere, Matthew H. Law, Liming Li, Cecilia M. Lindgren, Ruth J. F. Loos, Stuart MacGregor, Koichi Matsuda, Catherine M. Olsen, David J. Porteous, Jordan A. Shavit, Harold Snieder, Tomohiro Takano, Richard C. Trembath, Judith M. Vonk, David C. Whiteman, Stephen J. Wicks, Cisca Wijmenga, John Wright, Jie Zheng, Xiang Zhou, Philip Awadalla, Michael Boehnke, Carlos D. Bustamante, Nancy J. Cox, Segun Fatumo, Daniel H. Geschwind, Caroline Hayward, Kristian Hveem, Eimear E. Kenny, Seunggeun Lee, Hamdi Mbarek, Reedik Mägi, Hilary C. Martin, Sarah E. Medland, Yukinori Okada, Aarno Palotie, Bogdan Paşaniuc, Daniel J. Rader, Marylyn D. Ritchie, Serena Sanna, Jordan W. Smoller, Kāri Stefánsson, David A. van Heel, Robin Walters, Sebastian Zöllner, Alicia R. Martin, Cristen J. Willer, Mark J. Daly, Benjamin M. Neale

Bibliographic record

VenueCell Genomics · 2022
Typearticle
Languageen
FieldBiochemistry, Genetics and Molecular Biology
TopicGenetic Associations and Epidemiology
Canadian institutionsUniversity of TorontoOntario Institute for Cancer Research
FundersNational Institute of Diabetes and Digestive and Kidney DiseasesNational Heart, Lung, and Blood InstituteMedical Research CouncilNovo Nordisk FondenWellcome TrustCooley's Anemia FoundationNational Human Genome Research InstituteBiogenU.S. Department of Veterans Affairs
KeywordsBiobankGenome-wide association studyGenetic associationDiseaseMeta-analysisData scienceBiologyComputational biologyGeneticsComputer scienceMedicineGeneGenotypeSingle-nucleotide polymorphism

Abstract

fetched live from OpenAlex

Biobanks facilitate genome-wide association studies (GWASs), which have mapped genomic loci across a range of human diseases and traits. However, most biobanks are primarily composed of individuals of European ancestry. We introduce the Global Biobank Meta-analysis Initiative (GBMI)-a collaborative network of 23 biobanks from 4 continents representing more than 2.2 million consented individuals with genetic data linked to electronic health records. GBMI meta-analyzes summary statistics from GWASs generated using harmonized genotypes and phenotypes from member biobanks for 14 exemplar diseases and endpoints. This strategy validates that GWASs conducted in diverse biobanks can be integrated despite heterogeneity in case definitions, recruitment strategies, and baseline characteristics. This collaborative effort improves GWAS power for diseases, benefits understudied diseases, and improves risk prediction while also enabling the nomination of disease genes and drug candidates by incorporating gene and protein expression data and providing insight into the underlying biology of human diseases and traits.

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)0.176
metaresearch head score (Gemma)0.269
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Meta-analysis · Consensus signal: Meta-analysis
GenreCandidate signal: Empirical · Consensus signal: none
Teacher disagreement score0.176
Threshold uncertainty score0.930

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.1760.269
Meta-epidemiology (narrow)0.0030.002
Meta-epidemiology (broad)0.0060.013
Bibliometrics0.0160.017
Science and technology studies0.0020.001
Scholarly communication0.0070.004
Open science0.0050.012
Research integrity0.0020.003
Insufficient payload (model declined to judge)0.0060.001

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 head0.038
GPT teacher head0.308
Teacher spread0.270 · 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 designMeta-analysis
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

Citations407
Published2022
Admission routes1
Has abstractyes

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