{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,30]],"date-time":"2025-07-30T11:44:01Z","timestamp":1753875841811,"version":"3.41.2"},"reference-count":226,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2022,9,24]],"date-time":"2022-09-24T00:00:00Z","timestamp":1663977600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"Key Research and Development Program of the Ministry of Science and Technology","award":["2018YFD0901103"],"award-info":[{"award-number":["2018YFD0901103"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,11,19]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Biomedical data preprocessing and efficient computing can be as important as the statistical methods used to fit the data; data processing needs to consider application scenarios, data acquisition and individual rights and interests. We review common principles, knowledge and methods of integrated research according to the whole-pipeline processing mechanism diverse, coherent, sharing, auditable and ecological. First, neuromorphic and native algorithms integrate diverse datasets, providing linear scalability and high visualization. Second, the choice mechanism of different preprocessing, analysis and transaction methods from raw to neuromorphic was summarized on the node and coordinator platforms. Third, combination of node, network, cloud, edge, swarm and graph builds an ecosystem of cohort integrated research and clinical diagnosis and treatment. Looking forward, it is vital to simultaneously combine deep computing, mass data storage and massively parallel communication.<\/jats:p>","DOI":"10.1093\/bib\/bbac373","type":"journal-article","created":{"date-parts":[[2022,9,24]],"date-time":"2022-09-24T06:58:31Z","timestamp":1664002711000},"source":"Crossref","is-referenced-by-count":0,"title":["Linking research of biomedical datasets"],"prefix":"10.1093","volume":"23","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4962-6285","authenticated-orcid":false,"given":"Xiu-Ju George","family":"Zhao","sequence":"first","affiliation":[{"name":"Wuhan Institute of Physics and Mathematics (WIPM) , China"},{"name":"Wuhan Polytechnic University , China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hui","family":"Cao","sequence":"additional","affiliation":[{"name":"Wuhan Polytechnic University , China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2022,9,24]]},"reference":[{"key":"2022112111110073700_ref1","doi-asserted-by":"crossref","DOI":"10.1080\/01621459.2021.1938081","article-title":"What are the most important statistical ideas of the past 50 years?","volume-title":"J Am Stat Assoc","author":"Gelman"},{"article-title":"The Origins of 'Big Data': An Etymological Detective Story","year":"2013","author":"Lohr","key":"2022112111110073700_ref2"},{"volume-title":"Big Data: A Revolution That Will Transform How We Live, Work, and Think","year":"2013","author":"Mayer-Schnberger","key":"2022112111110073700_ref3"},{"key":"2022112111110073700_ref4","doi-asserted-by":"crossref","first-page":"1221","DOI":"10.1038\/nphys4219","article-title":"Active tension network model suggests an exotic mechanical state realized in epithelial tissues","volume":"13","author":"Noll","year":"2017","journal-title":"Nat Phys"},{"key":"2022112111110073700_ref5","doi-asserted-by":"crossref","first-page":"406","DOI":"10.1038\/s41586-019-1833-8","article-title":"A statistical solution to the chaotic, non-hierarchical three-body problem","volume":"576","author":"Stone","year":"2019","journal-title":"Nature"},{"key":"2022112111110073700_ref6","doi-asserted-by":"crossref","first-page":"179","DOI":"10.1038\/s43588-022-00218-z","article-title":"Stochastic modeling of antibody binding predicts programmable migration on antigen patterns","volume":"2","author":"Hoffecker","year":"2022","journal-title":"Nat Comput Sci"},{"key":"2022112111110073700_ref7","doi-asserted-by":"crossref","first-page":"744","DOI":"10.1126\/science.282.5389.744","article-title":"A physical map of 30,000 human genes","volume":"282","author":"Deloukas","year":"1998","journal-title":"Science"},{"key":"2022112111110073700_ref8","doi-asserted-by":"crossref","first-page":"699","DOI":"10.1038\/s41586-020-2493-4","article-title":"Expanded encyclopaedias of DNA elements in the human and mouse genomes","volume":"583","author":"The ENCODE Project Consortium","year":"2020","journal-title":"Nature"},{"key":"2022112111110073700_ref9","doi-asserted-by":"crossref","first-page":"1161","DOI":"10.1038\/s41592-021-01254-9","article-title":"Reproducible, scalable, and shareable analysis pipelines with bioinformatics workflow managers","volume":"18","author":"Wratten","year":"2021","journal-title":"Nat Methods"},{"key":"2022112111110073700_ref10","doi-asserted-by":"crossref","first-page":"162","DOI":"10.2307\/1907540","article-title":"Causality and econometrics","volume":"22","author":"Wold HOA","year":"1954","journal-title":"Econometrica"},{"issue":"2","key":"2022112111110073700_ref11","doi-asserted-by":"crossref","first-page":"467","DOI":"10.2307\/2951620","article-title":"Identification and estimation of local average treatment effects","volume":"62","author":"Imbens","year":"1994","journal-title":"Econometrica"},{"issue":"10","key":"2022112111110073700_ref12","doi-asserted-by":"crossref","first-page":"1237","DOI":"10.1287\/mnsc.31.10.1237","article-title":"Forecasting trends in time-series","volume":"31","author":"Gardner","year":"1985","journal-title":"Manage Sci"},{"key":"2022112111110073700_ref13","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1093\/biomet\/1.1.7","article-title":"Biometry","volume":"1","author":"Galton","year":"1901","journal-title":"Biometrika"},{"issue":"1","key":"2022112111110073700_ref14","doi-asserted-by":"crossref","first-page":"41","DOI":"10.1093\/biomet\/70.1.41","article-title":"The central role of the propensity score in observational studies for causal effects","volume":"70","author":"Rosenbaum","year":"1983","journal-title":"Biometrika"},{"key":"2022112111110073700_ref15","doi-asserted-by":"crossref","first-page":"13","DOI":"10.1093\/biomet\/73.1.13","article-title":"Longitudinal data analysis using generalized linear models","volume":"73","author":"Liang","year":"1986","journal-title":"Biometrika"},{"key":"2022112111110073700_ref16","doi-asserted-by":"crossref","first-page":"591","DOI":"10.1093\/biomet\/52.3-4.591","article-title":"An analysis of variance test for normality (complete samples)","volume":"52","author":"Shaphiro","year":"1965","journal-title":"Biometrika"},{"key":"2022112111110073700_ref17","doi-asserted-by":"crossref","first-page":"65","DOI":"10.1093\/biomet\/29.1-2.65","article-title":"The distribution of the ratio of covariance estimates in two samples drawn from normal bivariate populations","volume":"29","author":"Hirschfeld","year":"1937","journal-title":"Biometrika"},{"key":"2022112111110073700_ref18","doi-asserted-by":"crossref","first-page":"363","DOI":"10.2307\/2332011","article-title":"Comparison between balanced and random arrangements of field plots","volume":"29","author":"Student","year":"1938","journal-title":"Biometrika"},{"key":"2022112111110073700_ref19","first-page":"405","article-title":"Tests of hypotheses in the linear autoregressive model: I. Null hypothesis distributions in the yule scheme","volume":"41","author":"Jenkins","year":"1954","journal-title":"Biometrika"},{"key":"2022112111110073700_ref20","first-page":"75","article-title":"Group sequential methods for clinical trials allowing early acceptance of Ho and incorporating costs","volume":"69","author":"Lawrence","year":"1982","journal-title":"Biometrika"},{"key":"2022112111110073700_ref21","doi-asserted-by":"crossref","first-page":"641","DOI":"10.1093\/biomet\/asw021","article-title":"Distribution of likelihood-based p-values under a local alternative hypothesis","volume":"103","author":"Lee","year":"2016","journal-title":"Biometrika"},{"key":"2022112111110073700_ref22","doi-asserted-by":"crossref","first-page":"729","DOI":"10.1093\/biomet\/78.4.729","article-title":"Multiplicative effects in mixed model analysis of variance","volume":"78","author":"Oman","year":"1991","journal-title":"Biometrika"},{"key":"2022112111110073700_ref23","doi-asserted-by":"crossref","first-page":"1003","DOI":"10.1093\/biomet\/93.4.1003","article-title":"A diagnostic test for the mixing distribution in a generalised linear mixed model","volume":"93","author":"Tchetgen","year":"2006","journal-title":"Biometrika"},{"key":"2022112111110073700_ref24","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1093\/biomet\/asm006","article-title":"A generalized threshold mixed model for analyzing nonnormal nonlinear time series, with application to plague in Kazakhstan","volume":"94","author":"Samia","year":"2007","journal-title":"Biometrika"},{"key":"2022112111110073700_ref25","volume-title":"Lindon: Encyclopedia of Spectroscopy and Spectrometry","author":"Cruz","year":"1999","edition":"2nd"},{"key":"2022112111110073700_ref26","doi-asserted-by":"crossref","first-page":"1517","DOI":"10.1016\/S0140-6736(11)60282-1","article-title":"Physics and medicine: a historical perspective","volume":"379","author":"Keevil","year":"2012","journal-title":"Lancet"},{"key":"2022112111110073700_ref27","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/0079-6565(95)01023-8","article-title":"Milestones in the first fifty years of NMR","volume":"28","author":"Emsley","year":"1995","journal-title":"Prog Nucl Magn Reson Spectrosc"},{"key":"2022112111110073700_ref28","doi-asserted-by":"crossref","first-page":"1603","DOI":"10.1016\/S0969-2126(02)00915-2","article-title":"Kurt W\u00fcthrich and NMR of biological macromolecules","volume":"10","author":"Palmer","year":"2002","journal-title":"Structure"},{"key":"2022112111110073700_ref29","doi-asserted-by":"crossref","first-page":"17","DOI":"10.1016\/j.jmr.2019.07.033","article-title":"JEOL, NMR and ESR: a 65 year evolution","volume":"306","author":"Keiji","year":"2019","journal-title":"J Magn Reson"},{"key":"2022112111110073700_ref30","doi-asserted-by":"crossref","first-page":"1071","DOI":"10.1038\/1901071a0","article-title":"Gas\u2013liquid chromatography of sterol methyl ethers","volume":"190","author":"Clayton","year":"1961","journal-title":"Nature"},{"key":"2022112111110073700_ref31","doi-asserted-by":"crossref","first-page":"763","DOI":"10.1295\/polymj.26.763","article-title":"Chromatographic resolution of enantiomers by high performance liquid chromatography chiral stationary phase composed of optically active polyurethanes","volume":"26","author":"Kobayashi","year":"1994","journal-title":"Polym J"},{"key":"2022112111110073700_ref32","doi-asserted-by":"crossref","first-page":"313","DOI":"10.1038\/s44160-022-00051-2","article-title":"The synthesis of diverse terpene architectures from phenols","volume":"1","author":"Salahi","year":"2022","journal-title":"Nat Synth"},{"key":"2022112111110073700_ref33","doi-asserted-by":"crossref","first-page":"735","DOI":"10.1038\/174735a0","article-title":"Qualitative analysis of organic compounds by mass spectrometry","volume":"174","author":"Beynon","year":"1954","journal-title":"Nature"},{"key":"2022112111110073700_ref34","doi-asserted-by":"crossref","first-page":"329","DOI":"10.1038\/200329a0","article-title":"Fast-scan mass spectrometry with capillary gas\u2013liquid chromatography in investigation of fruit volatiles","volume":"200","author":"Mcfadden","year":"1963","journal-title":"Nature"},{"key":"2022112111110073700_ref35","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1038\/s41557-021-00803-1","article-title":"Native mass spectrometry-based metabolomics identifies metal-binding compounds","volume":"14","author":"Aron","year":"2022","journal-title":"Nat Chem"},{"key":"2022112111110073700_ref36","doi-asserted-by":"crossref","first-page":"633","DOI":"10.1038\/111633a0","article-title":"Martini's equations for the epidemiology of immunising diseases","volume":"111","author":"Lotka","year":"1923","journal-title":"Nature"},{"key":"2022112111110073700_ref37","doi-asserted-by":"crossref","first-page":"1147","DOI":"10.1053\/j.gastro.2021.12.282","article-title":"Twenty-first century trends in the global epidemiology of pediatric-onset inflammatory bowel disease: systematic review","volume":"162","author":"Kuenzig","year":"2022","journal-title":"Gastroenterology"},{"key":"2022112111110073700_ref38","doi-asserted-by":"crossref","first-page":"437","DOI":"10.1038\/s41588-022-01016-z","article-title":"Polygenic prediction of educational attainment within and between families from genome-wide association analyses in 3 million individuals","volume":"54","author":"Okbay","year":"2022","journal-title":"Nat Genet"},{"key":"2022112111110073700_ref39","doi-asserted-by":"crossref","first-page":"60","DOI":"10.1109\/5254.920601","article-title":"Creating semantic web contents with protege-2000","volume":"16","author":"Noy","year":"2005","journal-title":"IEEE Intell Syst"},{"key":"2022112111110073700_ref40","doi-asserted-by":"crossref","first-page":"171","DOI":"10.1038\/nature18933","article-title":"A multi-modal parcellation of human cerebral cortex","volume":"536","author":"Glasser","year":"2016","journal-title":"Nature"},{"key":"2022112111110073700_ref41","doi-asserted-by":"crossref","first-page":"160","DOI":"10.1038\/s43588-022-00217-0","article-title":"Autonomous inference of complex network dynamics from incomplete and noisy data","volume":"2","author":"Gao","year":"2022","journal-title":"Nat Comput Sci"},{"key":"2022112111110073700_ref42","doi-asserted-by":"crossref","first-page":"51","DOI":"10.1038\/s41592-021-01335-9","article-title":"Fast and flexible analysis of linked microbiome data with mako","volume":"19","author":"R\u00f6ttjers","year":"2022","journal-title":"Nat Methods"},{"key":"2022112111110073700_ref43","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1038\/s41559-021-01593-y","article-title":"Natural selection for imprecise vertical transmission in host\u2013microbiota systems","volume":"6","author":"Bruijning","year":"2022","journal-title":"Nat Ecol Evol"},{"key":"2022112111110073700_ref44","first-page":"561","article-title":"Classes for fast maximum entropy training","author":"Goodman","year":"2001","journal-title":"IEEE Trans Cybern"},{"key":"2022112111110073700_ref45","doi-asserted-by":"crossref","first-page":"61","DOI":"10.1016\/j.patrec.2020.07.042","article-title":"Comparative analysis of image classification algorithms based on traditional machine learning and deep learning","volume":"141","author":"Wang","year":"2021","journal-title":"Pattern Recognit Lett"},{"volume-title":"k-means++: The Advantages of Careful Seeding","year":"2006","author":"Arthur","key":"2022112111110073700_ref46"},{"journal-title":"Variational graph auto-encoders","year":"2016","author":"Kipf","key":"2022112111110073700_ref47"},{"key":"2022112111110073700_ref48","doi-asserted-by":"crossref","first-page":"207","DOI":"10.1038\/s41586-021-03544-w","article-title":"A graph placement methodology for fast chip design","volume":"594","author":"Mirhoseini","year":"2021","journal-title":"Nature"},{"key":"2022112111110073700_ref49","doi-asserted-by":"crossref","first-page":"265","DOI":"10.1007\/s13347-019-00382-7","article-title":"Solving the Black Box problem: a normative framework for explainable artificial intelligence","volume":"34","author":"Zednik","year":"2021","journal-title":"Philos Technol"},{"key":"2022112111110073700_ref50","doi-asserted-by":"crossref","first-page":"347","DOI":"10.1126\/science.1258832","article-title":"Systems integration for global sustainability","volume":"347","author":"Liu","year":"2015","journal-title":"Science"},{"key":"2022112111110073700_ref51","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1109\/MCC.2018.011791712","article-title":"Blockchain: a panacea for healthcare cloud-based data security and privacy?","volume":"5","author":"Esposito","year":"2018","journal-title":"IEEE Cloud Comput"},{"key":"2022112111110073700_ref52","doi-asserted-by":"crossref","first-page":"122","DOI":"10.1109\/MCOM.2017.1700547","article-title":"Real-time secure health surveillance for smarter health communities","volume":"57","author":"Alabdulatif","year":"2019","journal-title":"IEEE Commun Mag"},{"key":"2022112111110073700_ref53","doi-asserted-by":"crossref","first-page":"964","DOI":"10.1016\/j.future.2016.11.031","article-title":"Secure integration of IoT and cloud computing","volume":"78","author":"Stergiou","year":"2018","journal-title":"Future Gener Comput Syst"},{"key":"2022112111110073700_ref54","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1038\/nature02025","article-title":"Governance and the loss of biodiversity","volume":"426","author":"Smith","year":"2003","journal-title":"Nature"},{"key":"2022112111110073700_ref55","doi-asserted-by":"crossref","first-page":"898","DOI":"10.1038\/s41562-020-0885-y","article-title":"Sustainable natural resource governance under interest group competition in policy-making","volume":"4","author":"Orach","year":"2020","journal-title":"Nat Hum Behav"},{"key":"2022112111110073700_ref56","doi-asserted-by":"crossref","first-page":"596","DOI":"10.1038\/s41586-020-2499-y","article-title":"Ageing hallmarks exhibit organ-specific temporal signatures","volume":"583","author":"Schaum","year":"2020","journal-title":"Nature"},{"key":"2022112111110073700_ref57","doi-asserted-by":"crossref","first-page":"42","DOI":"10.2307\/1411","article-title":"The relation between the number of species and number of individuals in random sample of an animal population","volume":"12","author":"Fisher","year":"1943","journal-title":"J Anim Ecol"},{"key":"2022112111110073700_ref58","doi-asserted-by":"crossref","first-page":"246","DOI":"10.1038\/s41586-020-2871-y","article-title":"Progressive Cactus is a multiple-genome aligner for the thousand-genome era","volume":"587","author":"Armstrong","year":"2020","journal-title":"Nature"},{"key":"2022112111110073700_ref59","doi-asserted-by":"crossref","first-page":"18","DOI":"10.1016\/j.annepidem.2021.01.003","article-title":"Life-long body mass index trajectories and mortality in two generations","volume":"56","author":"Zheng","year":"2021","journal-title":"Ann Epidemiol"},{"issue":"11","key":"2022112111110073700_ref60","doi-asserted-by":"crossref","first-page":"e1644110","DOI":"10.1080\/2162402X.2019.1644110","article-title":"T cell receptor next-generation sequencing reveals cancer-associated repertoire metrics and reconstitution after chemotherapy in patients with hematological and solid tumors","volume":"8","author":"Simnica","year":"2019","journal-title":"OncoImmunology"},{"key":"2022112111110073700_ref61","doi-asserted-by":"crossref","first-page":"157","DOI":"10.7551\/mitpress\/5704.003.0011","volume-title":"Pulsed Neural Networks","author":"Deiss","year":"1998"},{"key":"2022112111110073700_ref62","doi-asserted-by":"crossref","first-page":"106857","DOI":"10.1016\/j.knosys.2021.106857","article-title":"Unsupervised cross-modal similarity via latent structure discrete hashing factorization","volume":"218","author":"Fang","year":"2021","journal-title":"Knowl-Based Syst"},{"key":"2022112111110073700_ref63","doi-asserted-by":"crossref","first-page":"398","DOI":"10.1016\/j.neucom.2021.09.077","article-title":"Robust supervised discrete hashing","volume":"483","author":"Xiao","year":"2022","journal-title":"Neurocomputing"},{"key":"2022112111110073700_ref64","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.jss.2017.01.001","article-title":"Understanding cloud-native applications after 10 years of cloud computing \u2013 a systematic mapping study","volume":"126","author":"Kratzke","year":"2017","journal-title":"J Syst Software"},{"key":"2022112111110073700_ref65","doi-asserted-by":"crossref","first-page":"102736","DOI":"10.1016\/j.parco.2020.102736","article-title":"A new scalable distributed k-means algorithm based on Cloud micro-services for high-performance computing","volume":"101","author":"Benchara","year":"2021","journal-title":"Parallel Comput"},{"key":"2022112111110073700_ref66","doi-asserted-by":"crossref","first-page":"2580","DOI":"10.1093\/bioinformatics\/btx192","article-title":"BioContainers: an open-source and community-driven framework for software standardization","volume":"33","author":"Veiga","year":"2017","journal-title":"Bioinformatics"},{"key":"2022112111110073700_ref67","article-title":"Migrating to cloud-native application architectures","author":"Stine","year":"2015","journal-title":"O'Reilly Media"},{"key":"2022112111110073700_ref68","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1016\/B978-0-12-804018-8.00010-3","volume-title":"Application Performance Management (APM) in the Digital Enterprise","author":"Sturm","year":"2017"},{"key":"2022112111110073700_ref69","doi-asserted-by":"crossref","first-page":"102136","DOI":"10.1016\/j.simpat.2020.102136","article-title":"From the edge to the cloud: a continuous delivery and preparation model for processing big IoT data","volume":"105","author":"S\u00e1nchez-Gallegos","year":"2020","journal-title":"Simul Model Pract Theory"},{"key":"2022112111110073700_ref70","doi-asserted-by":"crossref","first-page":"421","DOI":"10.1016\/j.future.2015.09.024","article-title":"Workload-aware incremental repartitioning of shared-nothing distributed databases for scalable OLTP applications","volume":"56","author":"Kamal","year":"2016","journal-title":"Future Generation Computer Systems"},{"key":"2022112111110073700_ref71","doi-asserted-by":"crossref","first-page":"136","DOI":"10.1016\/j.future.2022.02.015","article-title":"Beyond TPC-DS, a benchmark for Big Data OLAP systems (BDOLAP-Bench)","volume":"132","author":"Tard\u00edo","year":"2022","journal-title":"Future Gener Comp Sy"},{"key":"2022112111110073700_ref72","doi-asserted-by":"crossref","first-page":"692","DOI":"10.1038\/s41587-021-01145-6","article-title":"A knowledge graph to interpret clinical proteomics data","volume":"40","author":"Santos","year":"2022","journal-title":"Nat Biotechnol"},{"volume-title":"User guide to SIMCA-P+12","year":"2008","author":"Umetrics","key":"2022112111110073700_ref73"},{"key":"2022112111110073700_ref74","first-page":"267","volume-title":"Information Theory","author":"Akaike","year":"1973"},{"key":"2022112111110073700_ref75","first-page":"3571","article-title":"Asymptotic equivalence of Bayes cross validation and widely applicable information criterion in singular learning theory","volume":"11","author":"Watanabe","year":"2010","journal-title":"J Mach Learn Res"},{"key":"2022112111110073700_ref76","doi-asserted-by":"crossref","first-page":"649","DOI":"10.1007\/s100380200100","article-title":"Akaike's information criterion for a measure of linkage disequilibrium","volume":"47","author":"Shimo-onoda","year":"2002","journal-title":"J Hum Genet"},{"key":"2022112111110073700_ref77","doi-asserted-by":"crossref","first-page":"304","DOI":"10.1016\/j.jmva.2013.09.015","article-title":"Semiparametric Bayesian information criterion for model selection in ultra-high dimensional additive models","volume":"123","author":"Lian","year":"2014","journal-title":"J Multivar Anal"},{"key":"2022112111110073700_ref78","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1016\/j.swevo.2016.05.002","article-title":"Maintaining regularity and generalization in data using the minimum description length principle and genetic algorithm: case of grammatical inference","volume":"31","author":"Pandey","year":"2016","journal-title":"Swarm Evol Comput"},{"key":"2022112111110073700_ref79","doi-asserted-by":"crossref","first-page":"50","DOI":"10.1016\/j.patrec.2018.09.011","article-title":"Heterogeneous multi-output classification by structured conditional risk minimization","volume":"116","author":"Ma","year":"2018","journal-title":"Pattern Recognit Lett"},{"key":"2022112111110073700_ref80","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","article-title":"Controlling the false discovery rate: a practical and powerful approach to multiple testing","volume":"57","author":"Benjamini","year":"1995","journal-title":"J R Stat Soc B"},{"key":"2022112111110073700_ref81","doi-asserted-by":"crossref","DOI":"10.1002\/9780470316870","volume-title":"Bayesian Theory","author":"Bernardo","year":"1994"},{"issue":"2","key":"2022112111110073700_ref82","doi-asserted-by":"crossref","first-page":"267","DOI":"10.1111\/j.1467-985X.2004.00349.x","article-title":"Multiple-bias modelling for analysis of observational data","volume":"168","author":"Greenland","year":"2005","journal-title":"J R Stat Soc Ser A Stat Soc"},{"key":"2022112111110073700_ref83","doi-asserted-by":"crossref","first-page":"28","DOI":"10.1007\/s42113-018-0019-z","article-title":"Between the devil and the deep blue sea: tensions between scientific judgement and statistical model selection","volume":"2","author":"Navarro","year":"2019","journal-title":"Comput Brain Behav"},{"issue":"4","key":"2022112111110073700_ref84","doi-asserted-by":"crossref","first-page":"383","DOI":"10.2307\/2982063","article-title":"Sampling and Bayes inference in scientific modelling and robustness","volume":"143","author":"Box","year":"1980","journal-title":"J R Stat Soc Ser A Stat Soc"},{"issue":"2","key":"2022112111110073700_ref85","doi-asserted-by":"crossref","first-page":"237","DOI":"10.1093\/biomet\/75.2.237","article-title":"Empirical likelihood ratio confidence intervals for a single functional","volume":"75","author":"Owen","year":"1988","journal-title":"Biometrika"},{"volume-title":"Robust Estimates of Location: Survey and Advances","year":"1972","author":"Andrews","key":"2022112111110073700_ref86"},{"key":"2022112111110073700_ref87","doi-asserted-by":"crossref","first-page":"22071","DOI":"10.1073\/pnas.1900654116","article-title":"Defifinitions, methods, and applications in interpretable machine learning","volume":"116","author":"Murdoch","year":"2019","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2022112111110073700_ref88","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1002\/nbm.935","article-title":"NMR-based metabonomic approaches for evaluating physiological influences on biofluid composition","volume":"18","author":"Bollard","year":"2005","journal-title":"NMR Biomed"},{"key":"2022112111110073700_ref89","first-page":"3166","volume-title":"Codes for the representation of names of countries and their subdivisions \u2014 Part 1: Country code","author":"Standards","year":"2020"},{"author":"ICD-11 for Mortality and Morbidity Statistics","key":"2022112111110073700_ref90"},{"author":"Global Burden of Disease (GBD)","key":"2022112111110073700_ref91"},{"key":"2022112111110073700_ref92","doi-asserted-by":"crossref","first-page":"75","DOI":"10.1016\/S0140-6736(96)04100-1","article-title":"UK collaborative randomized trial of neonatal extracorporeal membrane oxygenation","volume":"348","author":"UK collaborative ECMO Trail Group","year":"1996","journal-title":"Lancet"},{"key":"2022112111110073700_ref93"},{"key":"2022112111110073700_ref94"},{"key":"2022112111110073700_ref95","doi-asserted-by":"crossref","first-page":"e1002056","DOI":"10.1371\/journal.pmed.1002056","article-title":"Guidelines for accurate and transparent health estimates reporting: the GATHER statement","volume":"13","author":"Stevens","year":"2016","journal-title":"PLoS Med"},{"key":"2022112111110073700_ref96","doi-asserted-by":"crossref","first-page":"70","DOI":"10.1016\/j.jclinepi.2016.04.014","article-title":"Specifying a target trial prevents immortal time bias and other self-inflicted injuries in observational analyses","volume":"79","author":"Hern\u00e1n","year":"2016","journal-title":"J Clin Epidemiol"},{"key":"2022112111110073700_ref97","doi-asserted-by":"crossref","first-page":"758","DOI":"10.1093\/aje\/kwv254","article-title":"Using big data to emulate a target trial when a randomized trial is not available","volume":"183","author":"Hern\u00e1n","year":"2016","journal-title":"Am J Epidemiol"},{"key":"2022112111110073700_ref98","doi-asserted-by":"crossref","first-page":"381","DOI":"10.7326\/M18-1199","article-title":"Continuation of annual screening mammography and breast cancer mortality in women older than 70 years","volume":"172","author":"Garc\u00eda-Alb\u00e9niz","year":"2020","journal-title":"Ann Intern Med"},{"key":"2022112111110073700_ref99","article-title":"Incorporating Symmetry into Deep Dynamics Models for Improved Generalization","volume-title":"International Conference on Learning Representations (ICLR)","author":"Wang","year":"2021"},{"key":"2022112111110073700_ref100","article-title":"Automatic symmetry discovery with lie algebra convolutional network","volume":"arXiv","author":"Dehmamy","year":"2021","journal-title":"Advances in Neural Information Processing Systems (NeurIPS)"},{"key":"2022112111110073700_ref101","doi-asserted-by":"crossref","first-page":"1752","DOI":"10.1093\/infdis\/jiaa152","article-title":"Human challenge studies to accelerate coronavirus vaccine licensure","volume":"221","author":"Nir","year":"2020","journal-title":"J Infect Dis"},{"issue":"5","key":"2022112111110073700_ref102","doi-asserted-by":"crossref","first-page":"1031","DOI":"10.1038\/s41591-022-01780-9","article-title":"Safety, tolerability and viral kinetics during SARS-CoV-2 human challenge in young adults","volume":"28","author":"Killingley","year":"2022","journal-title":"Nat Med"},{"issue":"7","key":"2022112111110073700_ref103","doi-asserted-by":"crossref","first-page":"748","DOI":"10.1001\/jama.2016.20029","article-title":"Adjusted analyses in studies addressing therapy and harm users\u2019 guides to the medical literature","volume":"317","author":"Agoritsas","year":"2017","journal-title":"JAMA"},{"issue":"3","key":"2022112111110073700_ref104","doi-asserted-by":"crossref","first-page":"278","DOI":"10.1001\/jama.297.3.278","article-title":"Analysis of observational studies in the presence of treatment selection bias effects of invasive cardiac management on AMI survival using propensity score and instrumental variable methods","volume":"297","author":"Stukel","year":"2007","journal-title":"JAMA"},{"key":"2022112111110073700_ref105","doi-asserted-by":"crossref","first-page":"2908","DOI":"10.1001\/jama.293.23.2908","article-title":"routine vs selective invasive strategies in patients with acute coronary syndromes: a collaborative meta-analysis of randomized trials","volume":"293","author":"Mehta","year":"2005","journal-title":"JAMA"},{"key":"2022112111110073700_ref106","doi-asserted-by":"crossref","first-page":"687","DOI":"10.1016\/j.jclinepi.2010.09.006","article-title":"Use of instrumental variable in prescription drug research with observational data: a systematic review","volume":"64","author":"Chen","year":"2011","journal-title":"J Clin Epidemiol"},{"issue":"2","key":"2022112111110073700_ref107","doi-asserted-by":"crossref","first-page":"176","DOI":"10.1016\/j.cmet.2020.06.015","article-title":"In-hospital use of statins is associated with a reduced risk of mortality among individuals with COVID-19","volume":"32","author":"Zhang","year":"2020","journal-title":"Cell Metab"},{"key":"2022112111110073700_ref108","doi-asserted-by":"crossref","first-page":"17349","DOI":"10.1021\/ja107745g","article-title":"A selective NMR method for detecting choline containing compounds in liver tissue: the 1H-14N HSQC experiment","volume":"132","author":"Mao","year":"2010","journal-title":"J Am Chem Soc"},{"issue":"11","key":"2022112111110073700_ref109","doi-asserted-by":"crossref","first-page":"5183","DOI":"10.1021\/pr2006457","article-title":"Dynamic metabolic response of mice to acute mequindox exposure","volume":"10","author":"Zhao","year":"2011","journal-title":"J Proteome Res"},{"key":"2022112111110073700_ref110","doi-asserted-by":"crossref","first-page":"5682","DOI":"10.1021\/ac0703754","article-title":"Statistical correlation and projection methods for improved information recovery from diffusion-edited NMR spectra of biological samples","volume":"79","author":"Smith","year":"2007","journal-title":"Anal Chem"},{"key":"2022112111110073700_ref111","doi-asserted-by":"crossref","first-page":"910","DOI":"10.1038\/nature07762","article-title":"Metabolomic profiles delineate potential role for sarcosine in prostate cancer progression","volume":"457","author":"Sreekumar","year":"2009","journal-title":"Nature"},{"key":"2022112111110073700_ref112","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1126\/science.abj6987","article-title":"The complete sequence of a human genome","volume":"376","author":"Nurk","year":"2022","journal-title":"Science"},{"key":"2022112111110073700_ref113","doi-asserted-by":"crossref","first-page":"54","DOI":"10.1038\/nature10354","article-title":"Human metabolic individuality in biomedical and pharmaceutical research","volume":"477","author":"Suhre","year":"2011","journal-title":"Nature"},{"issue":"3","key":"2022112111110073700_ref114","doi-asserted-by":"crossref","first-page":"113","DOI":"10.1145\/360018.360022","article-title":"Computer science as empirical inquiry: symbols and search","volume":"19","author":"Newell","year":"1976","journal-title":"Commun ACM"},{"key":"2022112111110073700_ref115","doi-asserted-by":"crossref","first-page":"386","DOI":"10.1037\/h0042519","article-title":"The perceptron: a probabilistic model for information storage and organization in the brain","volume":"65","author":"Rosenblatt","year":"1958","journal-title":"Psychol Rev"},{"key":"2022112111110073700_ref116","doi-asserted-by":"crossref","first-page":"1281","DOI":"10.1360\/SSI-2020-0204","article-title":"Toward the third generation of artificial intelligence","volume":"50","author":"Zhang","year":"2020","journal-title":"Sci Sin Inform"},{"key":"2022112111110073700_ref117","doi-asserted-by":"crossref","first-page":"56","DOI":"10.1145\/3512715","article-title":"Toward a broad AI","volume":"65","author":"Hochreiter","year":"2022","journal-title":"Commun ACM"},{"issue":"3","key":"2022112111110073700_ref118","first-page":"341","article-title":"Control procedures for residuals associated with principal component analysis","volume":"21","author":"Jackson","year":"1979","journal-title":"Dent Tech"},{"issue":"3","key":"2022112111110073700_ref119","first-page":"735","article-title":"The collinearity problem in linear regression. The partial least squares approach to generalized inverses. SIAM","volume":"5","author":"Wold","year":"1984","journal-title":"J Sci Comput"},{"key":"2022112111110073700_ref120","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1002\/cem.695","article-title":"Orthogonal projections to latent structures (O-PLS)","volume":"16","author":"Trygg","year":"2002","journal-title":"J Chemometr"},{"key":"2022112111110073700_ref121","doi-asserted-by":"crossref","first-page":"1","DOI":"10.18637\/jss.v033.i01","article-title":"Regularization paths for generalized linear models via coordinate descent","volume":"33","author":"Friedman","year":"2010","journal-title":"J Stat Softw"},{"issue":"7","key":"2022112111110073700_ref122","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pmed.1000097","article-title":"Preferred reporting items for systematic reviews and meta-analyses: the PRISMA statement","volume":"6","author":"Moher","year":"2009","journal-title":"PLoS Med"},{"key":"2022112111110073700_ref123","doi-asserted-by":"crossref","first-page":"175","DOI":"10.1038\/nature25753","article-title":"Meta-analysis and the science of research synthesis","volume":"555","author":"Gurevitch","year":"2018","journal-title":"Nature"},{"issue":"9","key":"2022112111110073700_ref124","doi-asserted-by":"crossref","first-page":"2302","DOI":"10.1016\/j.cell.2021.03.024","article-title":"The long-term genetic stability and individual specificity of the human gut microbiome","volume":"184","author":"Chen","year":"2021","journal-title":"Cell"},{"key":"2022112111110073700_ref125","doi-asserted-by":"crossref","first-page":"1565","DOI":"10.1038\/nbt1206-1565","article-title":"What is a support vector machine?","volume":"24","author":"Noble","year":"2006","journal-title":"Nat Biotechnol"},{"key":"2022112111110073700_ref126","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1000173","article-title":"Support vector machines and kernels for computational biology","volume":"4","author":"Ben-Hur","year":"2008","journal-title":"PLoS Comput Biol"},{"key":"2022112111110073700_ref127","doi-asserted-by":"crossref","first-page":"169","DOI":"10.1002\/jcc.24667","article-title":"Improving scoring-docking screening powers of protein-ligand scoring functions using random forest","volume":"38","author":"Wang","year":"2017","journal-title":"J Comput Chem"},{"key":"2022112111110073700_ref128","first-page":"2579\u20132605 ()","article-title":"Visualizing data using t-SNE","volume":"9","author":"Maaten","year":"2008","journal-title":"J Mach Learn Res"},{"article-title":"UMAP","year":"2020","author":"McInnes","key":"2022112111110073700_ref129"},{"issue":"1","key":"2022112111110073700_ref130","doi-asserted-by":"crossref","first-page":"38","DOI":"10.1038\/nbt.4314","article-title":"Dimensionality reduction for visualizing single-cell data using UMAP","volume":"37","author":"Becht","year":"2019","journal-title":"Nat Biotechnol"},{"key":"2022112111110073700_ref131","doi-asserted-by":"crossref","first-page":"1527","DOI":"10.1162\/neco.2006.18.7.1527","article-title":"A fast learning algorithm for deep belief nets","volume":"18","author":"Hinton","year":"2006","journal-title":"Neural Comput"},{"issue":"1","key":"2022112111110073700_ref132","doi-asserted-by":"crossref","first-page":"74","DOI":"10.1093\/nsr\/nwy108","article-title":"Deep forest","volume":"6","author":"Zhou","year":"2019","journal-title":"Natl Sci Rev"},{"key":"2022112111110073700_ref133","doi-asserted-by":"crossref","first-page":"1159","DOI":"10.1038\/s41587-020-0531-2","article-title":"A lipidome atlas in MS-DIAL 4","volume":"38","author":"Tsugawa","year":"2020","journal-title":"Nat Biotechnol"},{"key":"2022112111110073700_ref134","doi-asserted-by":"crossref","first-page":"651","DOI":"10.1016\/j.patrec.2009.09.011","article-title":"Data clustering: 50 years beyond K-means","volume":"31","author":"Jain","year":"2010","journal-title":"Pattern Recognition Letters"},{"key":"2022112111110073700_ref135","doi-asserted-by":"crossref","first-page":"1044","DOI":"10.1093\/nar\/gky1226","article-title":"Multi-omic and multi-view clustering algorithms: review and cancer benchmark","volume":"47","author":"Rappoport","year":"2019","journal-title":"Nucleic Acids Res"},{"key":"2022112111110073700_ref136","doi-asserted-by":"crossref","first-page":"146","DOI":"10.1038\/s41589-020-00677-3","article-title":"Chemically informed analyses of metabolomics mass spectrometry data with Qemistree","volume":"17","author":"Tripathi","year":"2021","journal-title":"Nat Chem Biol"},{"issue":"2","key":"2022112111110073700_ref137","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1016\/0370-2693(87)91197-X","article-title":"Hybrid Monte Carlo","volume":"195","author":"Duane","year":"1987","journal-title":"Phys Lett B"},{"key":"2022112111110073700_ref138","doi-asserted-by":"crossref","DOI":"10.7554\/eLife.03430","article-title":"Sequence co-evolution gives 3D contacts and structures of protein complexes","volume":"3","author":"Hopf","year":"2014","journal-title":"Elife"},{"key":"2022112111110073700_ref139","doi-asserted-by":"crossref","first-page":"590","DOI":"10.1038\/s41559-022-01688-0","article-title":"Co-evolution of interacting proteins through non-contacting and non-specific mutations","volume":"6","author":"Ding","year":"2022","journal-title":"Nat Ecol Evol"},{"key":"2022112111110073700_ref140","doi-asserted-by":"crossref","first-page":"831","DOI":"10.1093\/bib\/bbv082","article-title":"Correct machine learning on protein sequences: a peer reviewing perspective","volume":"17","author":"Walsh","year":"2016","journal-title":"Brief Bioinform"},{"key":"2022112111110073700_ref141","doi-asserted-by":"crossref","first-page":"706","DOI":"10.1038\/s41586-019-1923-7","article-title":"Improved protein structure prediction using potentials from deep learning","volume":"577","author":"Senior","year":"2020","journal-title":"Nature"},{"key":"2022112111110073700_ref142","doi-asserted-by":"crossref","first-page":"865","DOI":"10.1016\/0022-2836(88)90564-5","article-title":"Predicting the secondary structure of globular proteins using neural network models","volume":"202","author":"Qian","year":"1988","journal-title":"J Mol Biol"},{"key":"2022112111110073700_ref143","first-page":"770","volume-title":"Deep residual learning for image recognition","author":"He","year":"2016"},{"journal-title":"Attention is all you need","year":"2017","author":"Vaswani","key":"2022112111110073700_ref144"},{"key":"2022112111110073700_ref145","doi-asserted-by":"crossref","first-page":"277","DOI":"10.1186\/s12859-017-1700-2","article-title":"Sequence-based prediction of protein protein interaction using a deep-learning algorithm","volume":"18","author":"Sun","year":"2017","journal-title":"BMC Bioinformatics"},{"key":"2022112111110073700_ref146","doi-asserted-by":"crossref","first-page":"292","DOI":"10.1016\/j.cels.2019.03.006","article-title":"End-to-end differentiable learning of protein structure","volume":"8","author":"AlQuraishi","year":"2019","journal-title":"Cell Syst"},{"key":"2022112111110073700_ref147","doi-asserted-by":"crossref","first-page":"590","DOI":"10.1038\/s41586-021-03828-1","article-title":"Highly accurate protein structure prediction for the human proteome","volume":"596","author":"Tunyasuvunakool","year":"2021","journal-title":"Nature"},{"key":"2022112111110073700_ref148","doi-asserted-by":"crossref","first-page":"871","DOI":"10.1126\/science.abj8754","article-title":"Accurate prediction of protein structures and interactions using a three-track neural network","volume":"373","author":"Baek","year":"2021","journal-title":"Science"},{"key":"2022112111110073700_ref149","doi-asserted-by":"crossref","first-page":"1047","DOI":"10.1126\/science.abe5650","article-title":"Geometric deep learning of RNA structure","volume":"373","author":"Townshend","year":"2021","journal-title":"Science"},{"article-title":"From block-Toeplitz matrices to differential equations on graphs: towards a general theory for scalable masked Transformers","year":"2022","author":"Choromanski","key":"2022112111110073700_ref150"},{"key":"2022112111110073700_ref151","article-title":"Language models enable zero-shot prediction of the effects of mutations on protein function","author":"Meier","year":"2021","journal-title":"bioRxiv"},{"key":"2022112111110073700_ref152","doi-asserted-by":"crossref","first-page":"324","DOI":"10.1038\/s42256-021-00310-5","article-title":"Expanding functional protein sequence spaces using generative adversarial networks","volume":"3","author":"Repecka","year":"2021","journal-title":"Nat Mach Intell"},{"issue":"5","key":"2022112111110073700_ref153","doi-asserted-by":"crossref","first-page":"1791","DOI":"10.1109\/TPAMI.2019.2954501","article-title":"What is tabby? Interpretable model decisions by learning attribute-based classification criteria","volume":"43","author":"Liu","year":"2021","journal-title":"IEEE Trans Pattern Anal Mach Intell"},{"key":"2022112111110073700_ref154","doi-asserted-by":"crossref","first-page":"348","DOI":"10.1038\/s41586-021-03922-4","article-title":"Biologically informed deep neural network for prostate cancer discovery","volume":"598","author":"Elmarakeby","year":"2021","journal-title":"Nature"},{"key":"2022112111110073700_ref155","doi-asserted-by":"crossref","first-page":"536","DOI":"10.1038\/s41586-021-04115-9","article-title":"A multi-scale map of cell structure fusing protein images and interactions","volume":"600","author":"Qin","year":"2021","journal-title":"Nature"},{"key":"2022112111110073700_ref156","doi-asserted-by":"crossref","first-page":"476","DOI":"10.1038\/s41587-021-01075-3","article-title":"Super-resolved spatial transcriptomics by deep data fusion","volume":"40","author":"Bergenstr\u00e5hle","year":"2022","journal-title":"Nat Biotechnol"},{"author":"Zhao","key":"2022112111110073700_ref157","article-title":"Neuromorphic graph for linking biomedical datasets"},{"key":"2022112111110073700_ref158","first-page":"2825","article-title":"Scikit-learn: machine learning in python","volume":"12","author":"Pedregosa","year":"2011","journal-title":"J Mach Learn Res"},{"key":"2022112111110073700_ref159","article-title":"Tensorflow: a system for large-scale machine learning","author":"Abadi","year":"2016","journal-title":"USENIX"},{"article-title":"Layer normalization","year":"2016","author":"Ba","key":"2022112111110073700_ref160"},{"article-title":"Weight normalization: a simple reparameterization to accelerate training of deep neural networks","year":"2016","author":"Salimans","key":"2022112111110073700_ref161"},{"key":"2022112111110073700_ref162","article-title":"Cosine normalization: using cosine similarity instead of dot product in neural","author":"Luo","year":"2017","journal-title":"Network"},{"article-title":"Instance normalization: the missing ingredient for fast stylization","year":"2016","author":"Ulyanov","key":"2022112111110073700_ref163"},{"key":"2022112111110073700_ref164","doi-asserted-by":"crossref","DOI":"10.1007\/978-3-030-01261-8_1","article-title":"Group normalization","author":"Wu","year":"2018"},{"key":"2022112111110073700_ref165","doi-asserted-by":"crossref","first-page":"346ra91","DOI":"10.1126\/scitranslmed.aaf7165","article-title":"Robust classification of bacterial and viral infections via integrated host gene expression diagnostics","volume":"8","author":"Sweeney","year":"2016","journal-title":"Sci Transl Med"},{"key":"2022112111110073700_ref166","doi-asserted-by":"crossref","first-page":"753","DOI":"10.1016\/j.immuni.2021.03.002","article-title":"Multi-cohort analysis of host immune response identifies conserved protective and detrimental modules associated with severity across viruses","volume":"54","author":"Zheng","year":"2021","journal-title":"Immunity"},{"key":"2022112111110073700_ref167","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1038\/s41591-019-0722-x","article-title":"Integration of epidemiologic, pharmacologic, genetic and gut microbiome data in a drug\u2013metabolite atlas","volume":"26","author":"Liu","year":"2020","journal-title":"Nat Med"},{"key":"2022112111110073700_ref168","doi-asserted-by":"crossref","first-page":"W388","DOI":"10.1093\/nar\/gkab382","article-title":"MetaboAnalyst 5.0: narrowing the gap between raw spectra and functional insights","volume":"49","author":"Pang","year":"2021","journal-title":"Nucleic Acids Res"},{"key":"2022112111110073700_ref169","doi-asserted-by":"crossref","first-page":"129","DOI":"10.1038\/s41596-021-00636-9","article-title":"Optimization of metabolomic data processing using NOREVA","volume":"17","author":"Fu","year":"2022","journal-title":"Nat Protoc"},{"author":"Artificial Intelligence Standards Committee","key":"2022112111110073700_ref170","article-title":"Guide for Architectural Framework and Application of Federated Machine Learning"},{"key":"2022112111110073700_ref171","doi-asserted-by":"crossref","first-page":"1735","DOI":"10.1038\/s41591-021-01506-3","article-title":"Federated learning for predicting clinical outcomes in patients with COVID-19","volume":"27","author":"Dayan","year":"2021","journal-title":"Nat Med"},{"issue":"1","key":"2022112111110073700_ref172","doi-asserted-by":"crossref","first-page":"37","DOI":"10.1038\/s41591-018-0272-7","article-title":"Privacy in the age of medical big data","volume":"25","author":"Price","year":"2019","journal-title":"Nat Med"},{"key":"2022112111110073700_ref173","doi-asserted-by":"crossref","first-page":"265","DOI":"10.1038\/s41586-021-03583-3","article-title":"Swarm learning for decentralized and confidential clinical machine learning","volume":"594","author":"Warnat-Herresthal","year":"2021","journal-title":"Nature"},{"key":"2022112111110073700_ref174","doi-asserted-by":"crossref","first-page":"2052","DOI":"10.1016\/S0140-6736(18)31694-5","article-title":"Forecasting life expectancy, years of life lost, and all-cause and cause-specific mortality for 250 causes of death: reference and alternative scenarios for 2016\u201340 for 195 countries and territories","volume":"392","author":"Foreman","year":"2018","journal-title":"Lancet"},{"issue":"1","key":"2022112111110073700_ref175","doi-asserted-by":"crossref","first-page":"78","DOI":"10.1515\/jci-2021-0006","article-title":"Radical empiricism and machine learning research","volume":"9","author":"Pearl","year":"2021","journal-title":"Journal of Causal Inference"},{"key":"2022112111110073700_ref176","first-page":"962","article-title":"Fairness constraints: mechanisms for fair classification","volume":"54","author":"Zafar","year":"2017","journal-title":"Proc Mach Learn Res"},{"key":"2022112111110073700_ref177","doi-asserted-by":"crossref","DOI":"10.1073\/pnas.2118540118","article-title":"Toward inclusive global governance of human genome editing","volume":"118","author":"Yu","year":"2021","journal-title":"Proc Natl Acad Sci U S A"},{"article-title":"do we really need deep learning models for Time Series Forecasting?","year":"2021","author":"Elsayed","key":"2022112111110073700_ref178"},{"key":"2022112111110073700_ref179","doi-asserted-by":"crossref","first-page":"192","DOI":"10.1111\/j.2517-6161.1974.tb00999.x","article-title":"Spatial interaction and the statistical analysis of lattice systems (with discussion)","volume":"36","author":"Besag","year":"1974","journal-title":"J R Stat Soc B"},{"key":"2022112111110073700_ref180","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1080\/03610927508827223","article-title":"Completely automatic French curve: fitting spline functions by cross-validation","volume":"4","author":"Wahba","year":"1975","journal-title":"Commun Stat"},{"key":"2022112111110073700_ref181","doi-asserted-by":"crossref","first-page":"364","DOI":"10.1111\/j.2517-6161.1978.tb01050.x","article-title":"Improper priors, spline smoothing and the problem of guarding against model errors in regression","volume":"40","author":"Wahba","year":"1978","journal-title":"J R Stat Soc B"},{"key":"2022112111110073700_ref182","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1111\/j.2517-6161.1978.tb01643.x","article-title":"Curve fitting and optimal design for prediction (with discussion)","volume":"40","author":"O\u2019Hagan","year":"1978","journal-title":"J R Stat Soc B"},{"volume-title":"Classification and RegressionTrees","year":"1984","author":"Breiman","key":"2022112111110073700_ref183"},{"key":"2022112111110073700_ref184","first-page":"762","volume-title":"Proceedings of the 10th IFIP Conference","author":"Werbos","year":"1981"},{"key":"2022112111110073700_ref185","first-page":"318","article-title":"Learning internal representations by error propagation","volume":"1","author":"Rumelhart","year":"1986","journal-title":"Parallel Distributed Processing"},{"key":"2022112111110073700_ref186","first-page":"603","article-title":"Bayesian back-propagation","volume":"5","author":"Buntine","year":"1991","journal-title":"Complex Syst"},{"issue":"3","key":"2022112111110073700_ref187","doi-asserted-by":"crossref","first-page":"448","DOI":"10.1162\/neco.1992.4.3.448","article-title":"A practical Bayesian framework for backpropagation networks","volume":"4","author":"MacKay","year":"1992","journal-title":"Neural Comput"},{"key":"2022112111110073700_ref188","doi-asserted-by":"crossref","DOI":"10.1007\/978-1-4612-0745-0","volume-title":"Bayesian Learning for Neural Networks","author":"Neal","year":"1996"},{"key":"2022112111110073700_ref189","doi-asserted-by":"crossref","first-page":"425","DOI":"10.1093\/biomet\/81.3.425","article-title":"Ideal spatial adaptation by wavelet shrinkage","volume":"81","author":"Donoho","year":"1994","journal-title":"Biometrika"},{"issue":"1","key":"2022112111110073700_ref190","doi-asserted-by":"crossref","first-page":"267","DOI":"10.1111\/j.2517-6161.1996.tb02080.x","article-title":"Regression shrinkage and selection via the lasso","volume":"58","author":"Tibshirani","year":"1996","journal-title":"J R Stat Soc B"},{"key":"2022112111110073700_ref191","doi-asserted-by":"crossref","first-page":"465","DOI":"10.1093\/biomet\/asq017","article-title":"The horseshoe estimator for sparse signals","volume":"97","author":"Carvalho","year":"2010","journal-title":"Biometrika"},{"issue":"357","key":"2022112111110073700_ref192","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1080\/01621459.1977.10479910","article-title":"A simulation study of alternatives to ordinary least squares","volume":"72","author":"Dempster","year":"1977","journal-title":"J Am Stat Assoc"},{"key":"2022112111110073700_ref193","doi-asserted-by":"crossref","first-page":"273","DOI":"10.1007\/BF00994018","article-title":"Support-vector networks","volume":"20","author":"Cortes","year":"1995","journal-title":"Machine Learning"},{"article-title":"Statistical Learning Theory","year":"1998","author":"Vapnik","key":"2022112111110073700_ref194"},{"volume-title":"Applied Bayesian Modeling and Causal Inference from an Incomplete Data Perspective","year":"2004","author":"Wu","key":"2022112111110073700_ref195"},{"key":"2022112111110073700_ref196","doi-asserted-by":"crossref","first-page":"85","DOI":"10.1016\/j.neunet.2014.09.003","article-title":"Deep learning in neural networks: an overview","volume":"61","author":"Schmidhuber","year":"2015","journal-title":"Neural Netw"},{"key":"2022112111110073700_ref197","doi-asserted-by":"crossref","first-page":"241","DOI":"10.1016\/S0893-6080(05)80023-1","article-title":"Stacked generalization","volume":"5","author":"Wolpert","year":"1992","journal-title":"Neural Netw"},{"key":"2022112111110073700_ref198","first-page":"382","article-title":"Bayesian model averaging (with discussion)","volume":"14","author":"Hoeting","year":"1999","journal-title":"Stat Sci"},{"key":"2022112111110073700_ref199","doi-asserted-by":"crossref","first-page":"401","DOI":"10.1214\/aos\/1176345782","article-title":"Nonparametric maximum likelihood estimation by the method of sieves","volume":"10","author":"Geman","year":"1982","journal-title":"Ann Stat"},{"key":"2022112111110073700_ref200","doi-asserted-by":"crossref","first-page":"580","DOI":"10.1214\/aos\/1176325486","article-title":"Convergence rate of sieve estimates","volume":"22","author":"Shen","year":"1994","journal-title":"Ann Stat"},{"key":"2022112111110073700_ref201","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1006\/jcss.1997.1504","article-title":"A decision-theoretic generalization of on-line learning and an application to boosting","volume":"55","author":"Freund","year":"1997","journal-title":"J Comput Syst Sci"},{"key":"2022112111110073700_ref202","doi-asserted-by":"crossref","first-page":"1189","DOI":"10.1214\/aos\/1013203451","article-title":"Greedy function approximation: a gradient boosting machine","volume":"29","author":"Friedman","year":"2001","journal-title":"Ann Stat"},{"key":"2022112111110073700_ref203","doi-asserted-by":"crossref","first-page":"355","DOI":"10.1214\/aoms\/1177729989","article-title":"Problems in plane sampling","volume":"20","author":"Quenouille","year":"1949","journal-title":"Ann Math Stat"},{"key":"2022112111110073700_ref204","doi-asserted-by":"crossref","first-page":"111","DOI":"10.1111\/j.2517-6161.1974.tb00994.x","article-title":"Cross-validatory choice and assessment of statistical predictions (with discussion)","volume":"36","author":"Stone","year":"1974","journal-title":"J R Stat Soc B"},{"key":"2022112111110073700_ref205","doi-asserted-by":"crossref","first-page":"320","DOI":"10.1080\/01621459.1975.10479865","article-title":"The predictive sample reuse method with applications","volume":"70","author":"Geisser","year":"1975","journal-title":"J Am Stat Assoc"},{"key":"2022112111110073700_ref206","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1214\/aos\/1176344552","article-title":"Bootstrap methods: another look at the jackknife","volume":"7","author":"Efron","year":"1979","journal-title":"Ann Stat"},{"key":"2022112111110073700_ref207","doi-asserted-by":"crossref","first-page":"1151","DOI":"10.1214\/aos\/1176346785","article-title":"Bayesianly justifiable and relevant frequency calculations for the applied statistician","volume":"12","author":"Rubin","year":"1984","journal-title":"Ann Stat"},{"key":"2022112111110073700_ref208","doi-asserted-by":"crossref","first-page":"269","DOI":"10.1214\/13-BA811","article-title":"Bayesian nonparametric inference\u2014why and how","volume":"8","author":"Muller","year":"2013","journal-title":"Bayesian Anal"},{"key":"2022112111110073700_ref209","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1111\/j.2517-6161.1972.tb00885.x","article-title":"Bayes estimates for the linear model","volume":"34","author":"Lindley","year":"1972","journal-title":"J R Stat Soc B"},{"key":"2022112111110073700_ref210","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1214\/aos\/1176345331","article-title":"The role of exchangeability in inference","volume":"9","author":"Lindley","year":"1981","journal-title":"Ann Stat"},{"key":"2022112111110073700_ref211","first-page":"807","article-title":"Limiting the risk of Bayes and empirical Bayes estimators\u2014Part I: the Bayes case","volume":"66","author":"Efron","year":"1971","journal-title":"J Am Stat Assoc"},{"key":"2022112111110073700_ref212","first-page":"130","article-title":"Limiting the risk of Bayes and empirical Bayes estimators\u2014Part II: the empirical Bayes case","volume":"67","author":"Efron","year":"1972","journal-title":"J Am Stat Assoc"},{"key":"2022112111110073700_ref213","doi-asserted-by":"crossref","first-page":"613","DOI":"10.1109\/18.382009","article-title":"De-noising by soft-thresholding","volume":"41","author":"Donoho","year":"1995","journal-title":"IEEE Trans Inf Theory"},{"key":"2022112111110073700_ref214","doi-asserted-by":"crossref","first-page":"1167","DOI":"10.1007\/s11222-011-9288-2","article-title":"Approximate Bayesian computational methods","volume":"22","author":"Marin","year":"2012","journal-title":"Stat Comput"},{"article-title":"Computing Bayes: Bayesian computation from 1763 to the 21st century","year":"2020","author":"Martin","key":"2022112111110073700_ref215"},{"key":"2022112111110073700_ref216","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1214\/aoms\/1177703729","article-title":"The empirical Bayes approach to statistical decision problems","volume":"35","author":"Robbins","year":"1964","journal-title":"Ann Math Stat"},{"key":"2022112111110073700_ref217","doi-asserted-by":"crossref","first-page":"369","DOI":"10.1111\/j.1751-5823.2003.tb00203.x","article-title":"A Bayesian formulation of exploratory data analysis and goodness-of-fit testing","volume":"71","author":"Gelman","year":"2003","journal-title":"Int Stat Rev"},{"key":"2022112111110073700_ref218","doi-asserted-by":"crossref","first-page":"6457","DOI":"10.1126\/science.aaw1147","article-title":"Boltzmann generators: sampling equilibrium states of many-body systems with deep learning","volume":"365","author":"No\u00e9","year":"2019","journal-title":"Science"},{"key":"2022112111110073700_ref219","article-title":"Boltzmann machines as two-dimensional tensor networks","volume":"104","author":"Li","year":"2021","journal-title":"Phys Rev B"},{"key":"2022112111110073700_ref220","article-title":"A solvable high-dimensional model of GAN","author":"Wang","year":"2019","journal-title":"NeurIPS"},{"key":"2022112111110073700_ref221","doi-asserted-by":"crossref","first-page":"422","DOI":"10.1038\/s42254-021-00314-5","article-title":"Physics-informed machine learning","volume":"3","author":"Karniadakis","year":"2021","journal-title":"Nat Rev Phys"},{"issue":"3","key":"2022112111110073700_ref222","doi-asserted-by":"crossref","first-page":"218","DOI":"10.1038\/s42256-021-00302-5","article-title":"Learning nonlinear operators via DeepONet based on the universal approximation theorem of operators","volume":"3","author":"Lu","year":"2021","journal-title":"Nat Mach Intell"},{"key":"2022112111110073700_ref223","doi-asserted-by":"crossref","first-page":"208","DOI":"10.1137\/19M1274067","article-title":"DeepXDE: a deep learning library for solving differential equations","volume":"63","author":"Lu","year":"2021","journal-title":"SIAM Rev"},{"key":"2022112111110073700_ref224","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1214\/aoms\/1177704711","article-title":"The future of data analysis","volume":"33","author":"Tukey","year":"1962","journal-title":"Ann Math Stat"},{"key":"2022112111110073700_ref225","doi-asserted-by":"crossref","first-page":"E3441","DOI":"10.1073\/pnas.1412301112","article-title":"Posterior predictive checks to quantify lack-of-fit in admixture models of latent population structure","volume":"112","author":"Mimno","year":"2015","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2022112111110073700_ref226","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1038\/s41586-022-04554-y","article-title":"Brain charts for the human lifespan","volume":"604","author":"RAI","year":"2022","journal-title":"Nature"}],"container-title":["Briefings in Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bib\/article-pdf\/23\/6\/bbac373\/47143711\/bbac373.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bib\/article-pdf\/23\/6\/bbac373\/47143711\/bbac373.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,10,2]],"date-time":"2024-10-02T13:10:00Z","timestamp":1727874600000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bib\/article\/doi\/10.1093\/bib\/bbac373\/6712704"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,9,24]]},"references-count":226,"journal-issue":{"issue":"6","published-print":{"date-parts":[[2022,11,19]]}},"URL":"https:\/\/doi.org\/10.1093\/bib\/bbac373","relation":{},"ISSN":["1467-5463","1477-4054"],"issn-type":[{"type":"print","value":"1467-5463"},{"type":"electronic","value":"1477-4054"}],"subject":[],"published-other":{"date-parts":[[2022,11]]},"published":{"date-parts":[[2022,9,24]]},"article-number":"bbac373"}}