{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,5]],"date-time":"2026-05-05T11:41:34Z","timestamp":1777981294410,"version":"3.51.4"},"reference-count":38,"publisher":"Springer Science and Business Media LLC","issue":"1","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2014,12]]},"DOI":"10.1186\/1471-2105-15-246","type":"journal-article","created":{"date-parts":[[2014,7,19]],"date-time":"2014-07-19T13:00:56Z","timestamp":1405774856000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":63,"title":["Rapid screening for phenotype-genotype associations by linear transformations of genomic evaluations"],"prefix":"10.1186","volume":"15","author":[{"given":"Jose L","family":"Gualdr\u00f3n Duarte","sequence":"first","affiliation":[]},{"given":"Rodolfo JC","family":"Cantet","sequence":"additional","affiliation":[]},{"given":"Ronald O","family":"Bates","sequence":"additional","affiliation":[]},{"given":"Catherine W","family":"Ernst","sequence":"additional","affiliation":[]},{"given":"Nancy E","family":"Raney","sequence":"additional","affiliation":[]},{"given":"Juan P","family":"Steibel","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2014,7,19]]},"reference":[{"key":"6514_CR1","doi-asserted-by":"publisher","first-page":"239","DOI":"10.1080\/15427528.2011.558767","volume":"25","author":"J Crossa","year":"2011","unstructured":"Crossa J, P\u00e9rez P, de los Campos G, Mahuku G, Dreisigacker S, Magorokosho C: Genomic selection and prediction in plant breeding. J Crop Improv. 2011, 25: 239-261.","journal-title":"J Crop Improv"},{"key":"6514_CR2","doi-asserted-by":"publisher","first-page":"381","DOI":"10.1038\/nrg2575","volume":"10","author":"ME Goddard","year":"2009","unstructured":"Goddard ME, Hayes BJ: Mapping genes for complex traits in domestic animals and their use in breeding programmes. Nat Rev Genet. 2009, 10: 381-391.","journal-title":"Nat Rev Genet"},{"key":"6514_CR3","doi-asserted-by":"publisher","first-page":"433","DOI":"10.3168\/jds.2008-1646","volume":"92","author":"BJ Hayes","year":"2009","unstructured":"Hayes BJ, Bowman PJ, Chamberlain AJ, Goddard ME: Invited review: genomic selection in dairy cattle: progress and challenges. J Dairy Sci. 2009, 92: 433-443.","journal-title":"J Dairy Sci"},{"key":"6514_CR4","doi-asserted-by":"publisher","first-page":"e1001139","DOI":"10.1371\/journal.pgen.1001139","volume":"6","author":"BJ Hayes","year":"2010","unstructured":"Hayes BJ, Pryce J, Chamberlain AJ, Bowman PJ, Goddard ME: Genetic architecture of complex traits and accuracy of genomic prediction: coat colour, milk-fat percentage, and type in Holstein cattle as contrasting model traits. PLoS Genet. 2010, 6: e1001139-","journal-title":"PLoS Genet"},{"key":"6514_CR5","doi-asserted-by":"publisher","first-page":"393","DOI":"10.1186\/1471-2164-14-393","volume":"14","author":"S Kumar","year":"2013","unstructured":"Kumar S, Garrick DJ, Bink MC, Whitworth C, Chagn\u00e9 D, Volz RK: Novel genomic approaches unravel genetic architecture of complex traits in apple. BMC Genomics. 2013, 14: 393-","journal-title":"BMC Genomics"},{"key":"6514_CR6","doi-asserted-by":"publisher","first-page":"821","DOI":"10.1038\/ng.2310","volume":"44","author":"X Zhou","year":"2012","unstructured":"Zhou X, Stephens M: Genome-wide efficient mixed-model analysis for association studies. Nat Genet. 2012, 44: 821-824.","journal-title":"Nat Genet"},{"key":"6514_CR7","doi-asserted-by":"crossref","first-page":"1819","DOI":"10.1093\/genetics\/157.4.1819","volume":"157","author":"TH Meuwissen","year":"2001","unstructured":"Meuwissen TH, Hayes BJ, Goddard ME: Prediction of total genetic value using genome-wide dense marker maps. Genetics. 2001, 157: 1819-1829.","journal-title":"Genetics"},{"issue":"Suppl","key":"6514_CR8","first-page":"376","volume":"90","author":"DJ Garrick","year":"2007","unstructured":"Garrick DJ: Equivalent mixed model equations for genomic selection. J Bone Miner Res. 2007, 90 (Suppl): 376-(Abstr.)","journal-title":"J Bone Miner Res"},{"key":"6514_CR9","doi-asserted-by":"publisher","first-page":"2971","DOI":"10.3168\/jds.2008-1929","volume":"92","author":"I Strand\u00e9n","year":"2009","unstructured":"Strand\u00e9n I, Garrick DJ: Technical note: derivation of equivalent computing algorithms for genomic predictions and reliabilities of animal merit. J Dairy Sci. 2009, 92: 2971-2975.","journal-title":"J Dairy Sci"},{"key":"6514_CR10","doi-asserted-by":"publisher","first-page":"241","DOI":"10.2527\/jas.2006-625","volume":"86","author":"DB Edwards","year":"2008","unstructured":"Edwards DB, Ernst CW, Tempelman RJ, Rosa GJM, Raney NE, Hoge MD, Bates RO: Quantitative trait loci mapping in an F2 Duroc x Pietrain resource population: I. Growth traits. J Anim Sci. 2008, 86: 241-253.","journal-title":"J Anim Sci"},{"key":"6514_CR11","doi-asserted-by":"publisher","first-page":"254","DOI":"10.2527\/jas.2006-626","volume":"86","author":"DB Edwards","year":"2008","unstructured":"Edwards DB, Ernst CW, Raney NE, Doumit ME, Hoge MD, Bates RO: Quantitative trait locus mapping in an F2 Duroc x Pietrain resource population: II. Carcass and meat quality traits. J Anim Sci. 2008, 86: 254-266.","journal-title":"J Anim Sci"},{"key":"6514_CR12","doi-asserted-by":"publisher","first-page":"e6524","DOI":"10.1371\/journal.pone.0006524","volume":"4","author":"AM Ramos","year":"2009","unstructured":"Ramos AM, Crooijmans RP, Affara NA, Amaral AJ, Archibald AL, Beever JE, Bendixen C, Churcher C, Clark R, Dehais P, Hansen MS, Hedegaard J, Hu Z-L, Kerstens HH, Law AS, Megens H-J, Milan D, Nonneman DJ, Rohrer GA, Rothschild MF, Smith TPL, Schnabel RD, Van Tassell CP, Taylor JF, Wiedmann RT, Schook LB, Groenen MA: Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology. PLoS One. 2009, 4: e6524-","journal-title":"PLoS One"},{"key":"6514_CR13","doi-asserted-by":"publisher","first-page":"8","DOI":"10.1186\/1471-2156-14-8","volume":"14","author":"YM Badke","year":"2013","unstructured":"Badke YM, Bates RO, Ernst CW, Schwab C, Fix J, Van Tassell CP, Steibel JP: Methods of tagSNP selection and other variables affecting imputation accuracy in swine. BMC Genet. 2013, 14: 8-","journal-title":"BMC Genet"},{"key":"6514_CR14","doi-asserted-by":"publisher","first-page":"24","DOI":"10.1186\/1471-2164-13-24","volume":"13","author":"YM Badke","year":"2012","unstructured":"Badke YM, Bates RO, Ernst CW, Schwab C, Steibel JP: Estimation of linkage disequilibrium in four US pig breeds. BMC Genomics. 2012, 13: 24-","journal-title":"BMC Genomics"},{"key":"6514_CR15","doi-asserted-by":"publisher","first-page":"38","DOI":"10.1186\/1471-2156-14-38","volume":"14","author":"JL Gualdr\u00f3n Duarte","year":"2013","unstructured":"Gualdr\u00f3n Duarte JL, Bates RO, Ernst CW, Raney NE, Cantet RJC, Steibel JP: Genotype imputation accuracy in a F2 pig population using high density and low density SNP panels. BMC Genet. 2013, 14: 38-","journal-title":"BMC Genet"},{"key":"6514_CR16","doi-asserted-by":"publisher","first-page":"559","DOI":"10.1086\/519795","volume":"81","author":"S Purcell","year":"2007","unstructured":"Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MA, Bender D, Maller J, Sklar P, de Bakker PI, Daly MJ, Sham PC: PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet. 2007, 81: 559-575.","journal-title":"Am J Hum Genet"},{"key":"6514_CR17","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1186\/1297-9686-44-9","volume":"44","author":"JM Hickey","year":"2012","unstructured":"Hickey JM, Kinghorn BP, Tier B, van der Werf JH, Cleveland MA: A phasing and imputation method for pedigreed populations that results in a single-stage genomic evaluation. Genet Sel Evol. 2012, 44: 9-","journal-title":"Genet Sel Evol"},{"key":"6514_CR18","doi-asserted-by":"publisher","first-page":"4414","DOI":"10.3168\/jds.2007-0980","volume":"91","author":"PM VanRaden","year":"2008","unstructured":"VanRaden PM: Efficient methods to compute genomic predictions. J Dairy Sci. 2008, 91: 4414-4423.","journal-title":"J Dairy Sci"},{"key":"6514_CR19","first-page":"6","volume":"6","author":"D Clifford","year":"2006","unstructured":"Clifford D, McCullagh P: The regress function. R News. 2006, 6: 6-10.","journal-title":"R News"},{"key":"6514_CR20","doi-asserted-by":"publisher","first-page":"662","DOI":"10.1111\/j.1365-2052.2012.02323.x","volume":"43","author":"MC McClure","year":"2012","unstructured":"McClure MC, Ramey HR, Rolf MM, McKay SD, Decker JE, Chapple RH, Kim JW, Taxis TM, Weaber RL, Schnabel RD, Taylor JF: Genome-wide association analysis for quantitative trait loci influencing Warner-Bratzler shear force in five taurine cattle breeds. Anim Genet. 2012, 43: 662-673.","journal-title":"Anim Genet"},{"key":"6514_CR21","doi-asserted-by":"publisher","first-page":"73","DOI":"10.1017\/S0016672312000274","volume":"94","author":"H Wang","year":"2012","unstructured":"Wang H, Misztal I, Aguilar I, Legarra A, Muir WM: Genome-wide association mapping including phenotypes from relatives without genotypes. Genet Res (Camb). 2012, 94: 73-83.","journal-title":"Genet Res (Camb)"},{"key":"6514_CR22","volume-title":"Applications of Linear Models in Animal Breeding","author":"C Henderson","year":"1984","unstructured":"Henderson C: Applications of Linear Models in Animal Breeding. 1984, Guelph: University of Guelph"},{"key":"6514_CR23","doi-asserted-by":"publisher","first-page":"203","DOI":"10.1038\/ng1702","volume":"38","author":"J Yu","year":"2006","unstructured":"Yu J, Pressoir G, Briggs WH, Vroh Bi I, Yamasaki M, Doebley JF, McMullen MD, Gaut BS, Nielsen DM, Holland JB, Kresovich S, Buckler ES: A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nat Genet. 2006, 38: 203-208.","journal-title":"Nat Genet"},{"key":"6514_CR24","doi-asserted-by":"publisher","first-page":"1709","DOI":"10.1534\/genetics.107.080101","volume":"178","author":"HM Kang","year":"2008","unstructured":"Kang HM, Zaitlen NA, Wade CM, Kirby A, Heckerman D, Daly MJ, Eskin E: Efficient control of population structure in model organism association mapping. Genetics. 2008, 178: 1709-1723.","journal-title":"Genetics"},{"key":"6514_CR25","doi-asserted-by":"publisher","first-page":"250","DOI":"10.3835\/plantgenome2011.08.0024","volume":"4","author":"JB Endelman","year":"2011","unstructured":"Endelman JB: Ridge regression and other Kernels for genomic selection with R package rrBLUP. Plant Genome J. 2011, 4: 250-","journal-title":"Plant Genome J"},{"key":"6514_CR26","doi-asserted-by":"publisher","first-page":"78","DOI":"10.3389\/fgene.2013.00078","volume":"4","author":"N Rangkasenee","year":"2013","unstructured":"Rangkasenee N, Murani E, Brunner RM, Schellander K, Cinar MU, Luther H, Hofer A, Stoll M, Witten A, Ponsuksili S, Wimmers K: Genome-wide association identifies TBX5 as candidate gene for Osteochondrosis providing a functional link to cartilage perfusion as initial factor. Front Genet. 2013, 4: 78-","journal-title":"Front Genet"},{"key":"6514_CR27","doi-asserted-by":"publisher","first-page":"27","DOI":"10.1186\/1471-2156-15-27","volume":"15","author":"DN Do","year":"2014","unstructured":"Do DN, Ostersen T, Strathe AB, Mark T, Jensen J, Kadarmideen HN: Genome-wide association and systems genetic analyses of residual feed intake, daily feed consumption, backfat and weight gain in pigs. BMC Genet. 2014, 15: 27-","journal-title":"BMC Genet"},{"key":"6514_CR28","doi-asserted-by":"publisher","first-page":"e62534","DOI":"10.1371\/journal.pone.0062534","volume":"8","author":"Y Fan","year":"2013","unstructured":"Fan Y, Xing Y, Zhang Z, Ai H, Ouyang Z, Ouyang J, Yang M, Li P, Chen Y, Gao J, Li L, Huang L, Ren J: A further look at porcine chromosome 7 reveals VRTN variants associated with vertebral number in Chinese and Western pigs. PLoS One. 2013, 8: e62534-","journal-title":"PLoS One"},{"key":"6514_CR29","doi-asserted-by":"crossref","first-page":"785","DOI":"10.1111\/j.2517-6161.1996.tb02116.x","volume":"58","author":"K-Y Liang","year":"1996","unstructured":"Liang K-Y, Self SG: On the asymptotic behaviour of the Pseudolikelihood Ratio Test Statistic. J R Stat Soc Ser B. 1996, 58: 785-796.","journal-title":"J R Stat Soc Ser B"},{"key":"6514_CR30","doi-asserted-by":"publisher","first-page":"605","DOI":"10.1080\/01621459.1987.10478472","volume":"82","author":"SG Self","year":"1987","unstructured":"Self SG, Liang K-Y: Asymptotic properties of maximum likelihood estimators and likelihood ratio tests under nonstandard conditions. J Am Stat Assoc. 1987, 82: 605-610.","journal-title":"J Am Stat Assoc"},{"key":"6514_CR31","doi-asserted-by":"publisher","first-page":"1755","DOI":"10.1016\/j.csda.2008.02.032","volume":"53","author":"LK Vaughan","year":"2009","unstructured":"Vaughan LK, Divers J, Padilla M, Redden DT, Hemant K, Pomp D, Allison DB: The use of plasmodes as a supplement to simulations: a simple example evaluating individual admixture estimation methodologies. Comput Stat Data Anal. 2009, 53: 1755-1766.","journal-title":"Comput Stat Data Anal"},{"key":"6514_CR32","doi-asserted-by":"publisher","first-page":"385","DOI":"10.1126\/science.1109557","volume":"308","author":"RJ Klein","year":"2006","unstructured":"Klein RJ, Zeiss C, Chew EY, Tsai J, Sackler RS, Haynes C, Henning AK, Sangiovanni JP, Mane SM, Susan T, Bracken MB, Ferris FL, Ott J, Barnstable C, Hoh J: Complement factor H Polymorphism in age-related macular degeneration. Science (80-). 2006, 308: 385-389.","journal-title":"Science (80-)"},{"key":"6514_CR33","doi-asserted-by":"publisher","first-page":"4656","DOI":"10.3168\/jds.2009-2061","volume":"92","author":"A Legarra","year":"2009","unstructured":"Legarra A, Aguilar I, Misztal I: A relationship matrix including full pedigree and genomic information. J Dairy Sci. 2009, 92: 4656-4663.","journal-title":"J Dairy Sci"},{"issue":"E\u2013Suppl 2","key":"6514_CR34","first-page":"e11","volume":"89","author":"X Sun","year":"2011","unstructured":"Sun X, Fernando RL, Garrick DJ, Dekkers JCM: An iterative approach for efficient calculation of breed- ing values and genome-wide association analysis using weighted genomic BLUP. J Anim Sci. 2011, 89 (E\u2013Suppl 2): e11-","journal-title":"J Anim Sci"},{"key":"6514_CR35","volume-title":"Introduction to quantitative genetics","author":"D Falconer","year":"1996","unstructured":"Falconer D, Mackay T: Introduction to quantitative genetics. 1996, New York: Longman"},{"key":"6514_CR36","doi-asserted-by":"publisher","first-page":"97","DOI":"10.1186\/1471-2156-11-97","volume":"11","author":"I Choi","year":"2010","unstructured":"Choi I, Steibel JP, Bates RO, Raney NE, Rumph JM, Ernst CW: Application of alternative models to identify QTL for growth traits in an F2 Duroc x Pietrain pig resource population. BMC Genet. 2010, 11: 97-","journal-title":"BMC Genet"},{"key":"6514_CR37","doi-asserted-by":"publisher","first-page":"e14726","DOI":"10.1371\/journal.pone.0014726","volume":"6","author":"B Fan","year":"2011","unstructured":"Fan B, Onteru SK, Du Z-Q, Garrick DJ, Stalder KJ, Rothschild MF: Genome-wide association study identifies Loci for body composition and structural soundness traits in pigs. PLoS One. 2011, 6: e14726-","journal-title":"PLoS One"},{"key":"6514_CR38","doi-asserted-by":"publisher","first-page":"153","DOI":"10.1007\/BF03195724","volume":"51","author":"M Switonski","year":"2010","unstructured":"Switonski M, Stachowiak M, Cieslak J, Bartz M, Grzes M: Genetics of fat tissue accumulation in pigs: a comparative approach. J Appl Genet. 2010, 51: 153-168.","journal-title":"J Appl Genet"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-15-246.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,5,30]],"date-time":"2024-05-30T22:22:14Z","timestamp":1717107734000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-15-246"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,7,19]]},"references-count":38,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2014,12]]}},"alternative-id":["6514"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-15-246","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2014,7,19]]},"assertion":[{"value":"3 February 2014","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"7 July 2014","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"19 July 2014","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"246"}}