{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,22]],"date-time":"2025-02-22T00:45:36Z","timestamp":1740185136437,"version":"3.37.3"},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"9","license":[{"start":{"date-parts":[[2020,9,22]],"date-time":"2020-09-22T00:00:00Z","timestamp":1600732800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000001","name":"the National Science Foundation","doi-asserted-by":"publisher","award":["DBI 1661348"],"award-info":[{"award-number":["DBI 1661348"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"name":"the USDA NIFA","award":["2016-68004-24770","2018-70005-28792","2019-67013-29171","2020-67021-32460"],"award-info":[{"award-number":["2016-68004-24770","2018-70005-28792","2019-67013-29171","2020-67021-32460"]}]},{"name":"the Washington Grain Commission","award":["126593","134574"],"award-info":[{"award-number":["126593","134574"]}]},{"name":"the PhD start-up Foundation Project of Jilin Agricultural Science and Technology University","award":["20180337"],"award-info":[{"award-number":["20180337"]}]},{"name":"the Digital Agriculture key discipline Foundation of Jilin Province"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,6,9]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>\u2002<\/jats:title>\n                  <jats:p>Accurately predicting phenotypes from genotypes holds great promise to improve health management in humans and animals, and breeding efficiency in animals and plants. Although many prediction methods have been developed, the optimal method differs across datasets due to multiple factors, including species, environments, populations and traits of interest. Studies have demonstrated that the number of genes underlying a trait and its heritability are the two key factors that determine which method fits the trait the best. In many cases, however, these two factors are unknown for the traits of interest. We developed a cloud computing platform for Mining the Maximum Accuracy of Predicting phenotypes from genotypes (MMAP) using unsupervised learning on publicly available real data and simulated data. MMAP provides a user interface to upload input data, manage projects and analyses and download the output results. The platform is free for the public to conduct computations for predicting phenotypes and genetic merit using the best prediction method optimized from many available ones, including Ridge Regression, gBLUP, compressed BLUP, Bayesian LASSO, Bayes A, B, Cpi and many more. Users can also use the platform to conduct data analyses with any methods of their choice. It is expected that extensive usage of MMAP would enrich the training data, which in turn results in continual improvement of the identification of the best method for use with particular traits.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The MMAP user manual, tutorials and example datasets are available at http:\/\/zzlab.net\/MMAP.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa824","type":"journal-article","created":{"date-parts":[[2020,9,8]],"date-time":"2020-09-08T11:11:23Z","timestamp":1599563483000},"page":"1324-1326","source":"Crossref","is-referenced-by-count":2,"title":["MMAP: a cloud computing platform for mining the maximum accuracy of predicting phenotypes from genotypes"],"prefix":"10.1093","volume":"37","author":[{"given":"Wei","family":"Huang","sequence":"first","affiliation":[{"name":"Economic and Management School, Jilin Agricultural Science and Technology University , Jilin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ping","family":"Zheng","sequence":"additional","affiliation":[{"name":"Institute of Electrical and Information, Northeast Agricultural University , Harbin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhenhai","family":"Cui","sequence":"additional","affiliation":[{"name":"College of Life Sciences and Technology, Shenyang Agricultural University , Liaoning, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhuo","family":"Li","sequence":"additional","affiliation":[{"name":"Electrical and Information Engineering College, JiLin Agricultural Science and Technology University , Jilin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yifeng","family":"Gao","sequence":"additional","affiliation":[{"name":"Electrical and Information Engineering College, JiLin Agricultural Science and Technology University , Jilin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Helong","family":"Yu","sequence":"additional","affiliation":[{"name":"Information Technology Academy, Jilin Agricultural University , Changchun, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"You","family":"Tang","sequence":"additional","affiliation":[{"name":"Electrical and Information Engineering College, JiLin Agricultural Science and Technology University , Jilin, China"},{"name":"Information Technology Academy, Jilin Agricultural University , Changchun, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiaohui","family":"Yuan","sequence":"additional","affiliation":[{"name":"Department of Computer Sciences, Wuhan University of Technology , Wuhan, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5784-9684","authenticated-orcid":false,"given":"Zhiwu","family":"Zhang","sequence":"additional","affiliation":[{"name":"Department of Crop and Soil Sciences, Washington State University , Pullman, WA, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,11,25]]},"reference":[{"key":"2023051705212417200_btaa824-B1","doi-asserted-by":"crossref","first-page":"250","DOI":"10.3835\/plantgenome2011.08.0024","article-title":"Ridge regression and other kernels for genomic selection in the R package rrBLUP","volume":"4","author":"Endelman","year":"2011","journal-title":"Plant Genome"},{"key":"2023051705212417200_btaa824-B2","doi-asserted-by":"crossref","first-page":"2512","DOI":"10.1093\/bioinformatics\/bty989","article-title":"GWASpro: a high-performance genome-wide association analysis 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(Edinb)"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btaa824\/34542399\/btaa824.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/37\/9\/1324\/50359641\/btaa824.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/37\/9\/1324\/50359641\/btaa824.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,5,17]],"date-time":"2023-05-17T05:22:34Z","timestamp":1684300954000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/37\/9\/1324\/5909989"}},"subtitle":[],"editor":[{"given":"Russell","family":"Schwartz","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2020,11,25]]},"references-count":6,"journal-issue":{"issue":"9","published-print":{"date-parts":[[2021,6,9]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btaa824","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"type":"print","value":"1367-4803"},{"type":"electronic","value":"1367-4811"}],"subject":[],"published-other":{"date-parts":[[2021,5,1]]},"published":{"date-parts":[[2020,11,25]]}}}