Inbred Quantitative Trait Loci (QTL) References
A
B
C
D
E
F
G
H
J
K
L
M
N
O
P
R
S
T
U
V
W
X
Y
Z
Return to Statistical Genomics References.
- Alvarez-Castro JM, Carlborg O (2007) A unified model for functional and statistical epistasis and its application in quantitative trait Loci analysis. Genetics 176: 1151-1167. [doi:10.1534/genetics.106.067348]
- Asins MJ (2002) Present and future of quantitative trait locus analysis in plant breeding. Plant Breeding 121: 281-291. [doi:10.1046/j.1439-0523.2002.730285.x]
- Baierl A, Bogdan M, Frommlet F, Futschik A (2006) On locating multiple interacting quantitative trait loci in intercross designs. Genetics 173: 1693-1703. [doi:10.1534/genetics.105.048108]
- Ball RD (2001) Bayesian methods for quantitative trait loci mapping based on model selection: approximate analysis using the Bayesian information criterion. Genetics 159: 1351-1364. [http://www.genetics.org/cgi/content/abstract/159/3/1351]
- Banerjee S, Yandell BS, Yi N (2008) Bayesian QTL Mapping for Multiple Traits. Genetics 179: 2275-2289. [doi:10.1534/genetics.108.088427]
- Basrak B, Klaassen CA, Beekman M, Martin NG, Boomsma DI (2004) Copulas in QTL mapping. Behavior genetics 34: 161-171. [doi:10.1023/B:BEGE.0000013730.63991.ba]
- Basten CJ, Weir BS, Zeng ZB (1995) QTL Cartographer: A Reference Manual and Tutorial for QTL Mapping. Center for Quantitative Genetics, NC St U. [http://statgen.ncsu.edu/qtlcart/]
- Bauman LE, Sinsheimer JS, Sobel EM, Lange K (2008) Mixed Effects Models for QTL Mapping with Inbred Strains. Genetics 180: 1743-1761. [doi:10.1534/genetics.108.091058]
- Beavis WD (1998) QTL analyses: power, precision, and accuracy. In: Paterson AH (ed.) 49th Annual Corn and Sorghum Industry Research Conference. CRC Press: Boca Raton, FL, pp. 145-162. ISBN .
- Beavis WD (1994) The power and deceit of QTL experiments: lessons from comparative QTL studies. 49th Annual Corn and Sorghum Industry Research Conference. American Seed Trade Assoc, pp. 250-266.
- Beavis WD, Keim P (1996) Identification of QTL that are affected by environment. In: Kang H (ed.) . : CRC Press, pp. 000.
- Beavis WD, Smith OS, Grant D, Fincher R (1994) Identification of quantitative trait loci using a small sample of topcrossed and F4 progeny from maize. Crop Science 34: 882-896. [http://crop.scijournals.org/cgi/content/abstract/34/4/882]
- Belknap JK (1998) Effect of within-strain sample size on QTL detection and mapping using recombinant inbred mouse strains. Behavior genetics 28: 29-38. [doi:10.1023/A:1021404714631]
- Benjamini Y, Yekutieli D (2005) Quantitative trait Loci analysis using the false discovery rate. Genetics 171: 783-790. [doi:10.1534/genetics.104.036699]
- Bennett BJ, Farber CR, Orozco L, Kang HM, Ghazalpour A, Siemers N, Neubauer M, Neuhaus I, Yordanova R, Guan B, Truong A, Yang WP, He A, Kayne P, Gargalovic P, Kirchgessner T, Pan C, Castellani LW, Kostem E, Furlotte N, Drake TA, Eskin E, Lusis AJ (2010) A high-resolution association mapping panel for the dissection of complex traits in mice. Genome research 20: 281-290. [doi:10.1101/gr.099234.109]
- Bernardo R (2004) What proportion of declared QTL in plants are false? Theoretical and Applied Genetics 109: 419-424. [doi:10.1007/s00122-004-1639-3]
- Bernardo R (2001) What If We Knew All the Genes for a Quantitative Trait in Hybrid Crops? Crop Science 41: 1-4. [http://crop.scijournals.org/cgi/content/abstract/41/1/1]
- Bernardo R (1994) Prediction of maize single-cross performance using RFLPs and information from related hybrids. Crop Science 34: 20-25. [http://crop.scijournals.org/cgi/content/abstract/34/1/20]
- Berry CC (1998) Computationally efficient Bayesian QTL mapping in experimental crosses. Joint Statistical Meetings Proceedings of the Biometrics Section. , pp. 164-169. [http://hacuna.ucsd.edu/bqtl/]
- Boake CR, Arnold SJ, Breden F, Meffert LM, Ritchie MG, Taylor BJ, Wolf JB, Moore AJ (2002) Genetic Tools for Studying Adaptation and the Evolution of Behavior. The American Naturalist 160: S143-S159. [doi:10.1086/342902]
- Boer MP, Ter Braak CJ, Jansen RC (2002) A penalized likelihood method for mapping epistatic quantitative trait Loci with one-dimensional genome searches. Genetics 162: 951-960. [http://www.genetics.org/cgi/content/abstract/162/2/951]
- Bogdan M, Doerge RW (2005) Biased estimators of quantitative trait locus heritability and location in interval mapping. Heredity 95: 476-484. [doi:10.1038/sj.hdy.6800747]
- Bogdan M, Ghosh JK, Doerge RW (2004) Modifying the Schwarz Bayesian information criterion to locate multiple interacting quantitative trait loci. Genetics 167: 989-999. [doi:10.1534/genetics.103.021683]
- Borevitz JO, Maloof JN, Lutes J, Dabi T, Redfern JL, Trainer GT, Werner JD, Asami T, Berry CC, Weigel D, Chory J (2002) Quantitative Trait Loci Controlling Light and Hormone Response in Two Accessions of Arabidopsis thaliana. Genetics 160: 683-696. [http://www.genetics.org/cgi/content/abstract/160/2/683 | http://famprevmed.ucsd.edu/faculty/cberry/bqtl | http://cran.r-project.org/web/packages/bqtl]
- Bost B, de Vienne D, Hospital F, Moreau L, Dillmann C (2001) Genetic and nongenetic bases for the L-shaped distribution of quantitative trait loci effects. Genetics 157: 1773. [http://www.genetics.org/cgi/content/abstract/157/4/1773]
- Broman KW (2003) Mapping quantitative trait loci in the case of a spike in the phenotype distribution. 163: 1169-1175. [http://www.genetics.org/cgi/content/abstract/163/3/1169]
- Broman KW (2001) Review of statistical methods for QTL mapping in experimental crosses. Lab animal 30: 44-52. [http://www.biostat.wisc.edu/~kbroman/publications/labanimal.pdf]
- Broman KW (1999) Cleaning genotype data. Genetic epidemiology 17 Suppl 1: S79-S83. [http://www.biostat.wisc.edu/~kbroman/publications/gaw11.pdf]
- Broman KW, Sen S, Owens SE, Manichaikul A, Southard-Smith EM, Churchill GA (2006) The X chromosome in quantitative trait locus mapping. Genetics 174: 2151-2158. [doi:10.1534/genetics.106.061176]
- Broman KW, Weber JL (1998) Estimation of pairwise relationships in the presence of genotyping errors. American Journal of Human Genetics 63: 1563-1564. [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1377569]
- Broman KW, Wu H, Sen S, Churchill GA (2003) R/qtl: QTL mapping in experimental crosses . Bioinformatics 19: 889-890. [doi:10.1093/bioinformatics/btg112 | http://www.rqtl.org]
- Broman KW, Speed TP (2002) A model selection approach for the identification of quantitative trait loci in experimental crosses. Journal of the Royal Statistical Society: Series B (Statistical Methodology) 64: 641-656. [doi:10.1111/1467-9868.00354]
- Carbonell EA, Gerig TM (1991) A program to detect linkage between genetic markers and nonadditive quantitative trait loci. The Journal of heredity 82: 435. [http://www.ncbi.nlm.nih.gov/pubmed/1940286]
- Carbonell EA, Gerig TM, Balansard E, Asins MJ (1992) Interval Mapping in the Analysis of Nonadditive Quantitative Trait Loci. Biometrics 48: 305. [doi:10.2307/2532757]
- Carlborg O (2002) Epsilon Dissertations and Graduate Theses Archive - New methods for mapping quantitative trait loci. Acta Universitatis agriculturae Sueciae. Veterinaria 121: 000. [http://diss-epsilon.slu.se/archive/00000087/]
- Carlborg O, Andersson L, Kinghorn B (2003) The use of a genetic algorithm for simultaneous mapping of multiple interacting quantitative trait loci. Genetics 155: 2003-2010. [http://www.genetics.org/cgi/content/abstract/155/4/2003]
- Carlborg O, Haley CS (2004) Epistasis: too often neglected in complex trait studies? Nature Reviews Genetics 5: 618-625. [doi:10.1038/nrg1407]
- Carlborg O, Kerje S, Schutz K, Jacobsson L, Jensen P, Andersson L (2003) A global search reveals epistatic interaction between QTL for early growth in the chicken. Genome research 13: 413-421. [doi:10.1101/gr.528003]
- Carlborg , Andersson L (2002; 2002) Use of randomization testing to detect multiple epistatic QTLs. Genetics Research 79: 000. [doi:10.1017/S001667230200558X]
- Carr DE, Dudash MR (2003) Recent approaches into the genetic basis of inbreeding depression in plants. Philosophical transactions of the Royal Society of London.Series B, Biological sciences 358: 1071-1084. [doi:10.1098/rstb.2003.1295 | http://www.life.umd.edu/biology/dudashlab/Dudash%20PDFs/CarrandDudash2003Proc.pdf]
- Chang MN, Wu R, Wu SS, Casella G (2009) Score Statistics for Mapping Quantitative Trait Loci. Statistical applications in genetics and molecular biology 8: Article16. [doi:10.2202/1544-6115.1386]
- Chang MN, Wu R, Wu SS, Casella G (2009) Score Statistics for Mapping Quantitative Trait Loci. Statistical applications in genetics and molecular biology 8: Article16. [doi:10.2202/1544-6115.1386 | http://www.bepress.com/sagmb/vol8/iss1/art16/]
- Charcosset A, Gallais A (1996) Estimation of the contribution of quantitative trait loci (QTL) to the variance of a quantitative trait by means of genetic markers. Theoretical and Applied Genetics 93: 1193-1201. [doi:10.1007/BF00223450]
- Chase K, Adler FR, Lark KG (1997) Epistat : a computer program for identifying and testing interactions between pairs of quantitative trait loci. Theoretical and Applied Genetics 94: 724-730. [doi:10.1007/s001220050471]
- Chase K, Carrier DR, Adler FR, Jarvik T, Ostrander EA, Lorentzen TD, Lark KG (2002) Genetic basis for systems of skeletal quantitative traits: principal component analysis of the canid skeleton. Proceedings of the National Academy of Sciences of the United States of America 99: 9930-9935. [doi:10.1073/pnas.152333099]
- Chen L, Storey JD (2006) Relaxed significance criteria for linkage analysis. Genetics 173: 2371-2381. [doi:10.1534/genetics.105.052506]
- Chen Z (2005) The full EM algorithm for the MLEs of QTL effects and positions and their estimated variances in multiple-interval mapping. Biometrics 61: 474-480. [doi:10.1111/j.1541-0420.2005.00327.x]
- Chen Z, Chen H (2005) On some statistical aspects of the interval mapping for QTL detection. Statistica Sinica 157: 909-925. [http://www3.stat.sinica.edu.tw/statistica/J15N4/J15N44/J15N44.html]
- Cheverud JM, Routman EJ (1995) Epistasis and its contribution to genetic variance components. Genetics 139: 1455-1461. [http://www.genetics.org/cgi/content/abstract/139/3/1455]
- Churchill GA, Doerge RW (2008) Naive application of permutation testing leads to inflated type I error rates. Genetics 178: 609-610. [doi:10.1534/genetics.107.074609]
- Churchill GA, Doerge RW (1994) Empirical threshold values for quantitative trait mapping. Genetics 138: 963-971. [http://www.genetics.org/cgi/content/abstract/138/3/963]
- Churchill GA (1989) Stochastic models for heterogeneous DNA sequences. Bulletin of mathematical biology 51: 79-94. [doi:10.1007/BF02458837]
- Clark RM, Wagler TN, Quijada P, Doebley J (2006) A distant upstream enhancer at the maize domestication gene tb1 has pleiotropic effects on plant and inflorescent architecture. Nature Genetics 38: 594-597. [doi:10.1038/ng1784]
- Clee SM, Yandell BS, Schueler KM, Rabaglia ME, Richards OC, Raines SM, Kabara EA, Klass DM, Mui ET, Stapleton DS, Gray-Keller MP, Young MB, Stoehr JP, Lan H, Boronenkov I, Raess PW, Flowers MT, Attie AD (2006) Positional cloning of Sorcs1, a type 2 diabetes quantitative trait locus . Nature Genetics 38: 688-693. [doi:10.1038/ng1796 | http://www.stat.wisc.edu/~yandell/qtl/software/subcon.zip]
- Cockerham CC (1954) An Extension of the Concept of Partitioning Hereditary Variance for Analysis of Covariances among Relatives When Epistasis Is Present. Genetics 39: 859-882. [http://www.genetics.org/cgi/reprint/39/6/859]
- Cockerham CC, Zeng ZB (1996) Design III with marker loci. Genetics 143: 1437-1456. [http://www.genetics.org/cgi/content/abstract/143/3/1437]
- Coffman CJ, Doerge RW, Simonsen KL, Nichols KM, Duarte CK, Wolfinger RD, McIntyre LM (2005) Model selection in binary trait locus mapping. Genetics 170: 1281-1297. [doi:10.1534/genetics.104.033910]
- Collard BCY, Jahufer MZZ, Brouwer JB, Pang ECK (2005) An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: The basic concepts. Euphytica 142: 169-196. [doi:10.1007/s10681-005-1681-5]
- Comstock RE, Robinson HF (1952) Estimation of average dominance of genes. In: Gowen JW (ed.) . Iowa Sate College Press: Ames, IA, pp. 495-516.
- Corander J, Sillanpää M (2002) A Unified Approach to Joint Modeling of Multiple Quantitative and Qualitative Traits in Gene Mapping. Journal of theoretical biology 218: 435-446. [doi:10.1006/jtbi.2002.3090]
- Cordell HJ, Todd JA, Hill NJ, Lord CJ, Lyons PA, Peterson LB, Wicker LS, Clayton DG (2001) Statistical modeling of interlocus interactions in a complex disease: rejection of the multiplicative model of epistasis in type 1 diabetes. Genetics 158: 357-367. [http://www.genetics.org/cgi/content/abstract/158/1/357]
- Cowen NM (1989) Multiple linear regression analysis of RFLP data sets used in mapping QTLs. In: Helentjaris T, Burr B (ed.) . , pp. 113-116.
- Cui Y, Wu R (2005) Mapping genome-genome epistasis: a high-dimensional model. Bioinformatics (Oxford, England) 21: 2447-2455. [doi:10.1093/bioinformatics/bti342]
- Darvasi A (2005) Dissecting complex traits: the geneticists' "Around the world in 80 days". Trends in genetics : TIG 21: 373-376. [doi:10.1016/j.tig.2005.05.003]
- Darvasi A, Soller M (1995) Advanced intercross lines, an experimental population for fine genetic mapping. Genetics 141: 1199-1207. [http://www.genetics.org/cgi/content/abstract/141/3/1199]
- Darvasi A, Weinreb A, Minke V, Weller JI, Soller M (1993) Detecting marker-QTL linkage and estimating QTL gene effect and map location using a saturated genetic map. Genetics 134: 943-951. [http://www.genetics.org/cgi/content/abstract/134/3/943]
- de la Casa-Esperóna E, Pardo-Manuel de Villenaa F, Vernera AE, Briscoea TL, Malettea JM, Rosaa M, Jina WH, Sapienza C (2000) Sex-of-Offspring-Specific Transmission Ratio Distortion on Mouse Chromosome X. Genetics 154: 343. [http://www.genetics.org/cgi/content/abstract/154/1/343]
- de S. Bueno Filho JS, Gilmour SG (2003) Planning Incomplete Block Experiments When Treatments Are Genetically Related. Biometrics 59: 375-381. [doi:10.1111/1541-0420.00044]
- Doebley J, Stec A, Gustus C (1995) Teosinte Branched1 and the Origin of Maize: Evidence for Epistasis and the Evolution of Dominance. Genetics 141: 333-346. [http://www.genetics.org/cgi/content/abstract/141/1/333]
- Doerge RW, Churchill GA (1996) Permutation tests for multiple loci affecting a quantitative character. Genetics 142: 285-294. [http://www.genetics.org/cgi/content/abstract/142/1/285]
- Doerge RW, Zeng ZB, Weir BS (1997) Statistical issues in the search for genes affecting quantitative traits in experimental populations. Statistical Science 12: 195-219. [doi:10.1214/ss/1030037909]
- Dragani TA, Zeng ZB, Canzian F, Gariboldi M, Ghilarducci MT, Manenti G, Pierotti MA (1995) Mapping of body weight loci on mouse Chromosome X. Mammalian Genome 6: 778-781. [doi:10.1007/BF00539002]
- Dupuis J, Siegmund D (1999) Statistical methods for mapping quantitative trait loci from a dense set of markers. Genetics 151: 373-386. [http://www.genetics.org/cgi/content/abstract/151/1/373]
- Eckermann PJ, Verbyla AP, Cullis BR, Thompson R (2001) . Australian Journal of Agricultural Research 52: 1195. [doi:10.1071/AR01039]
- Ehm MG, Kimmel M, Cottingham RW (1996) Error detection for genetic data, using likelihood methods. American Journal of Human Genetics 58: 225-234. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1914945]
- Epstein MP, Lin X, Boehnke M (2003) A tobit variance-component method for linkage analysis of censored trait data. American Journal of Human Genetics 72: 611-620. [doi:10.1086/367924]
- Fang M, Jiang D, Pu LJ, Gao HJ, Ji P, Wang HY, Yang RQ (2008) Multitrait Analysis of Quantitative Trait Loci Using Bayesian Composite Space Approach. BMC genetics 9: 48. [doi:10.1186/1471-2156-9-48]
- FAO (2004) Molecular marker assisted selection as a potential tool for genetic improvement of crops, forest trees, livestock and fish in developing countries. [doi:http://www.fao.org.ezproxy.library.wisc.edu/biotech/Conf10.htm]
- Feenstra B, Skovgaard IM (2004) A quantitative trait locus mixture model that avoids spurious LOD score peaks. Genetics 167: 959-965. [doi:10.1534/genetics.103.025437 | http://www.genetics.org/cgi/content/abstract/167/2/959]
- Feenstra B, Skovgaard IM, Broman KW (2006) Mapping quantitative trait loci by an extension of the Haley-Knott regression method using estimating equations. Genetics 173: 2269-2282. [doi:10.1534/genetics.106.058537]
- Fernando RL (2004) Controlling the Proportion of False Positives in Multiple Dependent Tests. Genetics 166: 611-619. [doi:10.1534/genetics.166.1.611]
- Fine JP, Zou F, Yandell BS (2004) Nonparametric estimation of the effects of quantitative trait loci. Biostatistics (Oxford, England) 5: 501-513. [doi:10.1093/biostatistics/kxh004]
- Fisher RA (1918) The correlation between relatives on the supposition of Mendelian inheritance. Proceedings of the Royal Society of Edinburgh 52: 399-433. [http://www.library.adelaide.edu.au/digitised/fisher/genetics.html]
- Flint J, Mott R (2001) Finding the molecular basis of quantitative traits: successes and pitfalls. Nature Reviews Genetics 2: 437-445. [doi:10.1038/35076585]
- Foster SD (2006) The LASSO linear mixed model for mapping quantitative trait loci. Adelaide U, Australia. [http://hdl.handle.net/2440/37868]
- Foster SD, Verbyla AP, Pitchford WS (2007) Incorporating LASSO Effects into a Mixed Model for Quantitative Trait Loci Detection. Journal of Agricultural, Biological, and Environmental Statistics 12: 300-314. [doi:10.1198/108571107X200396]
- Frankel WN, Schork NJ (1996) Who's afraid of epistasis? Nature Genetics 14: 371-373. [doi:10.1038/ng1296-371]
- Frary A (2000) fw2.2: A Quantitative Trait Locus Key to the Evolution of Tomato Fruit Size. Science 289: 85-88. [doi:10.1126/science.289.5476.85]
- Gaffney PJ (2001) An efficient reversible jump Markov chain Monte Carlo approach to detect multiple loci and their effects in inbred crosses. UW-Madison Statistics PhD. [http://proquest.umi.com/pqdweb?index=0&did=728912731&SrchMode=1&sid=3&Fmt=2&VInst=PROD&VType=PQD&RQT=309&VName=PQD&TS=1198178468&clientId=3751]
- Gao H, Yang R (2006) Composite interval mapping of QTL for dynamic traits. Chinese Science Bulletin 51: 1857-1862. [doi:10.1007/s11434-006-2050-z]
- Gieger C, Geistlinger L, Altmaier E, Hrabe de Angelis M, Kronenberg F, Meitinger T, Mewes HW, Wichmann HE, Weinberger KM, Adamski J, Illig T, Suhre K (2008) Genetics meets metabolomics: a genome-wide association study of metabolite profiles in human serum. PLoS Genetics 4: e1000282. [doi:10.1371/journal.pgen.1000282]
- Gilbert H, Le Roy P (2004) Power of three multitrait methods for QTL detection in crossbred populations. Genetics, selection, evolution : GSE 36: 347-361. [doi:10.1051/gse:2004005]
- Gilbert H, Le Roy P (2003) Comparison of three multitrait methods for QTL detection. Genetics, selection, evolution : GSE 35: 281-304. [doi:10.1051/gse:2003009]
- Glazier AM, Nadeau JH, Aitman TJ (2002) Finding genes that underlie complex traits. Science 298: 2345-2349. [doi:10.1126/science.1076641]
- Goffinet B, Loisel P, Laurent B (1992) Testing in normal mixture models when the proportions are known. Biometrika 79: 842-846. [http://www.jstor.org/stable/2337241]
- Goffinet B, Mangin B (1998) Comparing methods to detect more than one QTL on a chromosome. Theoretical and Applied Genetics 96: 628-633. [doi:10.1007/s001220050781]
- Goldstein DR, Zhao H, Speed TP (1997) The effects of genotyping errors and interference on estimation of genetic distance. Human heredity 47: 86-100. [doi:10.1159/000154396]
- Göring HHH, Terwilliger JD (2000) Linkage analysis in the presence of errors II: Marker-locus genotyping errors modeled with hypercomplex recombination fractions. American Journal of Human Genetics 66: 1107-1118. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1288145&rendertype=abstract]
- Guo SW, Lange K (2000) Genetic mapping of complex traits: promises, problems, and prospects. Theoretical population biology 57: 1-11. [doi:10.1006/tpbi.2000.1449]
- Hackett CA (1997) Model diagnostics for fitting QTL models to trait and marker data by interval mapping. Heredity 79: 319-328. [doi:10.1038/sj.hdy.6882150]
- Hackett CA (2002) Statistical methods for QTL mapping in cereals. Plant Molecular Biology 48: 585-599. [doi:10.1023/A:1014896712447]
- Hackett CA, Meyer RC, Thomas DC (2001) Multi-trait QTL mapping in barley using multivariate regression. Genet.Res. 77: 95-106. [http://journals.cambridge.org/action/displayAbstract?aid=71795&fileId=S0016672300004869]
- Hackett CA, Weller JI (1995) Genetic mapping of quantitative trait loci for traits with ordinal distributions. Biometrics 51: 1254-1263. [http://www.jstor.org/stable/2533257]
- Haldane JBS (1919) The combination of linkage values and the calculation of distance between the loci of linked factors. Journal of Genetics 8: 299-309. [http://www.ias.ac.in/j_archive/jgenet/8/vol8contents.html]
- Haldane JBS, Waddington CH (1931) Inbreeding and linkage. Genetics 16: 357. [http://www.genetics.org/cgi/reprint/16/4/357]
- Haley CS, Knott SA (1992) A simple regression method for mapping quantitative trait loci in line crosses using flanking markers. Heredity 69: 315-324. [doi:10.1038/hdy.1992.131]
- Hansen TF, Wagner GP (2001) Modeling genetic architecture: a multilinear theory of gene interaction. Theoretical population biology 59: 61-86. [doi:10.1006/tpbi.2000.1508]
- Hansen TF (2006) The Evolution of Genetic Architecture. Annual Review of Ecology, Evolution, and Systematics 37: 123-157. [doi:10.1146/annurev.ecolsys.37.091305.110224]
- Hästbacka J, de la Chapelle A, Kaitila I, Sistonen P, Weaver A, Lander E (1992) Linkage disequilibrium mapping in isolated founder populations: diastrophic dysplasia in Finland. Nature Genetics 2: 204-211. [doi:10.1038/ng1192-204]
- Henshalla JM, Goddard ME (1999) Multiple-trait mapping of quantitative trait loci after selective genotyping using logistic regression. Genetics 151: 885-894. [http://www.genetics.org/cgi/content/abstract/151/2/885]
- Hilbert P, Lindpaintner K, Beckmann JS, Serikawa T, Soubrier F, Dubay C, Cartwright P, De Gouyon B, Julier C, Takahasi S (1991) Chromosomal mapping of two genetic loci associated with blood-pressure regulation in hereditary hypertensive rats. Nature 353: 521-529. [doi:10.1038/353521a0]
- Hodges SA, Whittall JB, Fulton M, Yang JY (2002) Genetics of floral traits influencing reproductive isolation between Aquilegia formosa and Aquilegia pubescens. The American Naturalist 159 Suppl 3: S51-60. [doi:10.1086/338372]
- Hoff PD, Halberg RB, Shedlovsky A, Dove WF, Newton MA (2002) Identifying carriers of a genetic modifier using nonparametric Bayes methods. In: (ed.) . Springer-Verlag, pp. 327-342. [http://www.stat.washington.edu/hoff/research.html]
- Hollander WF (1955) Epistasis and hypostasis. Journal of Heredity 46: 222-225. [http://jhered.oxfordjournals.org/content/vol46/issue5/]
- Howad W, Yamamoto T, Dirlewanger E, Testolin R, Cosson P, Cipriani G, Monforte AJ, Georgi L, Abbott AG, Arus P (2005) Mapping with a few plants: using selective mapping for microsatellite saturation of the Prunus reference map. Genetics 171: 1305-1309. [doi:10.1534/genetics.105.043661]
- Huang BE, George AW (2009) Look before you leap: A new approach in QTL mapping. Theoretical and Applied Genetics 119: 899-911. [doi:10.1007/s00122-009-1098-y]
- Huang H, Eversley CD, Threadgill DW, Zou F (2007) Bayesian multiple quantitative trait loci mapping for complex traits using markers of the entire genome. Genetics 176: 2529-2540. [doi:10.1534/genetics.106.064980]
- Hurme P, Sillanpää MJ, Arjas E, Repo T, Savolainen O (2000) Genetic basis of climatic adaptation in Scots pine by Bayesian quantitative trait locus analysis. Genetics 156: 1309-1322. [http://www.genetics.org/cgi/content/abstract/156/3/1309]
- Hyne V, Kearsey MJ (1995) QTL analysis: further uses of 'marker regression'. Theoretical and Applied Genetics 91: 000. [doi:10.1007/BF00222975]
- Jacob J, Lindpaintner K, Lincoln S, Kusumi K, Bunker R, Mao Y, Ganten D, Dzau V, Lander E (1991) Genetic mapping of a gene causing hypertension in the stroke-prone spontaneously hypertensive rat. Cell 67: 213-224. [doi:10.1016/0092-8674(91)90584-L]
- Jannink JL (2005) Selective Phenotyping to Accurately Map Quantitative Trait Loci. Crop Science 45: 901-908. [doi:10.2135/cropsci2004.0278]
- Jansen RC, Stam P (1994) High resolution of quantitative traits into multiple loci via interval mapping. Genetics 136: 1447-1455. [http://www.genetics.org/cgi/content/abstract/136/4/1447 | http://www.plant.dlo.nl/default.asp?section=products&page=/products/mapping/]
- Jansen RC (1994) Controlling the type I and type II errors in mapping quantitative trait loci. Genetics 138: 871-881. [http://www.genetics.org/cgi/content/abstract/138/3/871]
- Jansen RC (1993) Interval mapping of multiple quantitative trait loci. Genetics 135: 205-211. [http://www.genetics.org/cgi/content/abstract/135/1/205]
- Jansen RC (1992) A general mixture model for mapping quantitative trait loci by using molecular markers. Theoretical and Applied Genetics 85-85: 000. [doi:10.1007/BF00222867]
- Jerez-Timaure NC (2005) Fine mapping of a QTL region with large effects on growth and fatness on mouse chromosome 2. Physiological Genomics 21: 411-422. [doi:10.1152/physiolgenomics.00256.2004]
- Jiang C, Zeng ZB (1997) Mapping quantitative trait loci with dominant and missing markers in various crosses from two inbred lines. Genetica 101: 47-58. [doi:10.1023/A:1018394410659]
- Jiang C, Zeng ZB (1995) Multiple trait analysis of genetic mapping for quantitative trait loci. Genetics 140: 1111-1127. [http://www.genetics.org/cgi/content/abstract/140/3/1111]
- Jin C, Fine JP, Yandell BS (2007) A Unified Semiparametric Framework for Quantitative Trait Loci Analyses, With Application to Spike Phenotypes. Journal of the American Statistical Association 102: 56-67. [doi:10.1198/016214506000000834]
- Jones HB (2000) A Review of Statistical Methods for Genome Mapping. International Statistical Review 68: 5-21. [doi:10.1111/j.1751-5823.2000.tb00384.x]
- Juriloff DM, Harris MJ, Brown CJ (2001) Unravelling the complex genetics of cleft lip in the mouse model. Mammalian Genome 12: 426-435. [doi:10.1007/s003350010284]
- Kang HM, Zaitlen NA, Wade CM, Kirby A, Heckerman D, Daly MJ, Eskin E (2008) Efficient control of population structure in model organism association mapping. Genetics 178: 1709-1723. [doi:10.1534/genetics.107.080101]
- Kao CH (2000) On the differences between maximum likelihood and regression interval mapping in the analysis of quantitative trait loci. Genetics 156: 855-865. [http://www.genetics.org/cgi/content/abstract/156/2/855]
- Kao CH, Zeng ZB (2002) Modeling epistasis of quantitative trait loci using Cockerham's model. Genetics 160: 1243-1261. [http://www.genetics.org/cgi/content/abstract/160/3/1243]
- Kao CH, Zeng ZB (Biometrics) General formulae for obtaining the MLEs and the asymptotic . variance-covariance matrix in mapping quantitative trait loci 1997: 53.
- Kao CH, Zeng ZB, Teasdale RD (1999) Multiple interval mapping for quantitative trait loci. Genetics 152: 1203-1216. [http://www.genetics.org/cgi/content/abstract/152/3/1203]
- Kearsey MJ, Farquhar AGL (1998) QTL analysis in plants; where are we now? Heredity 80: 137-142. [doi:10.1046/j.1365-2540.1998.00500.x]
- Kearsey MJ, Hyne V (1994) QTL analysis: a simple 'marker-regression' approach. Theoretical and Applied Genetics 89: 000. [doi:10.1007/BF00223708]
- Keller AE (1999) Estimation of genetic map distances, detection of genotype errors, and imputation of missing genotypes via Gibbs sampling.
- Kingman J (1982) The coalescent. Stochastic Processes and their Applications 13: 235-248. [doi:10.1016/0304-4149(82)90011-4]
- Knapp SJ (1991) Using molecular markers to map multiple quantitative trait loci: models for backcross, recombinant inbred, and doubled haploid progeny. Theoretical and Applied Genetics 81: 000. [doi:10.1007/BF00228673]
- Knott SA, Haley CS (1992) Aspects of maximum likelihood methods for the mapping of quantitative trait loci in line crosses. Genetical research 60: 139-151. [doi:10.1017/S0016672300030822]
- Korol AB, Ronin Y, Itskovich AM, Peng J, Nevo E (2001) Enhanced efficiency of quantitative trait loci mapping analysis based on multivariate complexes of quantitative traits. Genetics 157: 1789-1803. [http://www.genetics.org/cgi/content/abstract/157/4/1789]
- Korol AB, Ronin Y, Kirzhner VM (1995) Interval mapping of quantitative trait loci employing correlated trait complexes. Genetics 140: 1137-1147. [http://www.genetics.org/cgi/content/abstract/140/3/1137]
- Korstanje R, Paigen B (2002) From QTL to gene: the harvest begins. Nature Genetics 31: 235-236. [doi:10.1038/ng0702-235]
- Kruglyak L, Lander ES (1995) A nonparametric approach for mapping quantitative trait loci. Genetics 139: 1421-1428. [http://www.genetics.org/cgi/content/abstract/139/3/1421]
- Kruglyak L (1997) The use of a genetic map of biallelic markers in linkage studies. Nature Genetics 17: 21-24. [doi:10.1038/ng0997-21]
- Lan H, Kendziorski CM, Haag JD, Shepel LA, Newton MA, Gould MN (2001) Genetic loci controlling breast cancer susceptibility in the Wistar-Kyoto rat. Genetics 157: 331-339. [http://www.genetics.org/cgi/content/abstract/157/1/331]
- Lande R, Thompson R (1990) Efficiency of marker-assisted selection in the improvement of quantitative traits. Genetics 124: 743-756. [http://www.genetics.org/cgi/content/abstract/124/3/743]
- Lander E, Green P, Abrahamson J, Barlow A, Daly MJ, Lincoln SE, Newburg L (1987) MAPMAKER: An interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1: 174-181. [doi:10.1016/0888-7543(87)90010-3]
- Lander E, Schork N (1994) Genetic dissection of complex traits. Science 265: 2037-2048. [doi:10.1126/science.8091226]
- Lander ES (1987) Construction of Multilocus Genetic Linkage Maps in Humans. Proceedings of the National Academy of Sciences 84: 2363-2367. [doi:10.1073/pnas.84.8.2363]
- Lander ES, Abrahamson J, Barlow A (1987) MAPMAKER: a computer package for constructing genetic linkage maps. Cytogenetic and Cell Genetics 46: 642. [doi:10.1159/000132491]
- Lander ES, Botstein D (1989) Mapping Mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics 121: 185-199. [http://www.genetics.org/cgi/content/abstract/121/1/185]
- Lander E, Kruglyak L (1995) Genetic dissection of complex traits: guidelines for interpreting and reporting linkage results. Nature Genetics 11: 241-247. [doi:10.1038/ng1195-241]
- Lange C, Whittaker JC (2001) Mapping quantitative trait loci using generalized estimating equations. Genetics 159: 1325-1337. [http://www.genetics.org/cgi/content/abstract/159/3/1325]
- Lebowitz RJ, Soller M, Beckmann JS (1987) Trait-based analyses for the detection of linkage between marker loci and quantitative trait loci in crosses between inbred lines. Theoretical and Applied Genetics 73: 556-562. [doi:10.1007/BF00289194]
- Lee H, Dekkers JCM, Soller M, Malek M, Fernando RL, Rothschild MF (2002) Application of the false discovery rate to quantitative trait loci interval mapping with multiple traits. Genetics 161: 905-914. [http://www.genetics.org/cgi/content/abstract/161/2/905]
- Li H, Huang Z, Gai J, Wu S, Zeng Y, Li Q, Wu R (2007) A conceptual framework for mapping quantitative trait Loci regulating ontogenetic allometry. PLoS ONE 2: e1245. [doi:10.1371/journal.pone.0001245]
- Li H, Ye G, Wang J (2007) A modified algorithm for the improvement of composite interval mapping. Genetics 175: 361-374. [doi:10.1534/genetics.106.066811]
- Li J, Wang S, Zeng ZB (2006) Multiple-interval mapping for ordinal traits. Genetics 173: 1649-1663. [doi:10.1534/genetics.105.054619]
- Li M, Boehnke M, Abecasis GR, Song PX (2006) Quantitative trait linkage analysis using Gaussian copulas. Genetics 173: 2317-2327. [doi:10.1534/genetics.105.054650]
- Li R, Tsaih SW, Shockley K, Stylianou IM, Wergedal J, Paigen B, Churchill GA (2006) Structural model analysis of multiple quantitative traits. PLoS Genetics 2: e114. [doi:10.1371/journal.pgen.0020114]
- Lincoln S, Lander E (1992) Systematic detection of errors in genetic linkage data. Genomics 14: 604-610. [doi:10.1016/S0888-7543(05)80158-2]
- Litvin O, Causton HC, Chen BJ, Pe'er D (2009) Modularity and interactions in the genetics of gene expression. Proceedings of the National Academy of Sciences of the United States of America 106: 6441-6446. [doi:10.1073/pnas.0810208106 | http://www.c2b2.columbia.edu/danapeerlab/html/genatomy.html]
- Liu J, Mercer JM, Stam LF, Gibson GC, Zeng ZB, Laurie CC (1996) Genetic analysis of a morphological shape difference in the male genitalia of Drosophila simulans and D. mauritiana. Genetics 142: 1129-1145. [http://www.genetics.org/cgi/content/abstract/142/4/1129 | ftp://statgen.ncsu.edu/pub/qtlcart/data/zengetal99/]
- Ljungberg K, Holmgren S, Carlborg O (2004) Simultaneous search for multiple QTL using the global optimization algorithm DIRECT. Bioinformatics (Oxford, England) 20: 1887-1895. [doi:10.1093/bioinformatics/bth175 | http://user.it.uu.se/~kl/qtl_software.html]
- Ljungberg K, Holmgren S, Carlborg O (2002) Efficient algorithms for quantitative trait loci mapping problems. Journal of computational biology : a journal of computational molecular cell biology 9: 793-804. [doi:10.1089/10665270260518272]
- Lou XY, Casella G, Todhunter RJ, Yang MCK, Wu R (2005) A General Statistical Framework for Unifying Interval and Linkage Disequilibrium Mapping. Journal of the American Statistical Association 100: 158-171. [doi:10.1198/016214504000001295]
- Lukens LN, Doebley J (1999) Epistatic and environmental interactions for quantitative trait loci involved in maize evolution. Genetical research 74: 291-302. [doi:10.1017/S0016672399004073]
- Luo L, Xu S (2003) Mapping viability loci using molecular markers. Heredity 90: 459-467. [doi:10.1038/sj.hdy.6800264]
- Luo ZW, Kearsey MJ (1991) Maximum likelihood estimation of linkage between a marker gene and a quantitative trait locus. II. Application to backcross and doubled haploid populations. Heredity 66: 117-124. [doi:10.1038/hdy.1991.14]
- Luo ZW, Kearsey MJ (1989) Maximum likelihood estimation of linkage between a marker gene and a quantitative locus. Heredity 63: 401-408. [doi:10.1038/hdy.1989.114]
- Luo ZW, Woolliams JA (1993) Estimation of genetic parameters using linkage between a marker gene and a locus underlying a quantitative character in F2 populations. Heredity 70: 245-253. [doi:10.1038/hdy.1993.36]
- Ma CX, Casella G, Wu RL (2002) Functional mapping of quantitative trait loci underlying the character process: A theoretical framework. Genetics 161: 1751-1762. [http://www.genetics.org/cgi/content/abstract/161/4/1751]
- Mackay TF, Fry JD (1996) Polygenic mutation in Drosophila melanogaster: Genetic interactions between selection lines and candidate quantitative trait loci. Genetics 144: 671-688. [http://www.genetics.org/cgi/content/abstract/144/2/671]
- Mackay TFC (2001) The genetic architecture of quantitative traits. Annual Review of Genetics 35: 303-339. [doi:10.1146/annurev.genet.35.102401.090633]
- Mackay TF (2001) Quantitative trait loci in Drosophila. Nature Reviews Genetics 2: 11-20. [doi:10.1038/35047544]
- Mähler M, Most C, Schmidtke S, Sundberg JP, Li R, Hedrich HJ, Churchill GA (2002) Genetics of Colitis Susceptibility in IL-10-Deficient Mice: Backcross versus F2 Results Contrasted by Principal Component Analysis. Genomics 80: 274-282. [doi:10.1006/geno.2002.6840]
- Mangin B, Goffinet B (1997) Comparison of several confidence intervals for QTL location. Heredity 78: 345-353. [doi:10.1038/hdy.1997.57]
- Mangin B, Goffinet B, Rebaï A (1994) Constructing confidence interval for QTL location. Genetics 138: 1301-1308. [http://www.genetics.org/cgi/content/abstract/138/4/1301]
- Mangin B, Thoquet P, Grimsley N (1998) Pleiotropic QTL analysis. Biometrics 54: 88-99. [http://www.jstor.org/stable/2533998]
- Manichaikul A, Dupuis J, Sen S, Broman KW (2006) Poor performance of bootstrap confidence intervals for the location of a quantitative trait locus. Genetics 174: 481-489. [doi:10.1534/genetics.106.061549]
- Manichaikul A, Moon JY, Sen S, Yandell BS, Broman KW (2008) A Model Selection Approach for the Identification of Quantitative Trait Loci in Experimental Crosses, Allowing Epistasis. Genetics 181: 1077-1086. [doi:10.1534/genetics.108.094565]
- Manichaikul A, Palmer AA, Sen S, Broman KW (2007) Significance thresholds for quantitative trait locus mapping under selective genotyping. Genetics 177: 1963-1966. [doi:10.1534/genetics.107.080093]
- Manly KF, Nettleton D, Hwang JT (2004) Genomics, prior probability, and statistical tests of multiple hypotheses. Genome research 14: 997-1001. [doi:10.1101/gr.2156804]
- Mao Y, London NR, Ma L, Dvorkin D, Da Y (2006) Detection of SNP epistasis effects of quantitative traits using an extended Kempthorne model. Physiological Genomics 28: 46-52. [doi:10.1152/physiolgenomics.00096.2006]
- Martinez O, Curnow RN (1994) Missing markers when estimating quantitative trait loci using regression mapping. Heredity 73: 198-206. [doi:10.1038/hdy.1994.120]
- Martinez O, Curnow RN (1992) Estimating the locations and the sizes of the effects of quantitative trait loci using flanking markers. Theoretical and Applied Genetics 85: 000. [doi:10.1007/BF00222330]
- Martinez O (1996) Spurious linkage between markers in QTL mapping. Molecular Breeding 2: 351-358. [doi:10.1007/BF00437913]
- Mauricio R (2001) Mapping quantitative trait loci in plants: uses and caveats for evolutionary biology. Nature Reviews Genetics 2: 370-381. [doi:10.1038/35072085]
- McIntyre LM, Coffman CJ, Doerge RW (2001; 2001) Detection and localization of a single binary trait locus in experimental populations. Genetics Research 78: 000. [doi:10.1017/S0016672301005092]
- McLachlan GJ, Bean RW, Jones LBT, Zhu JX (2005) Using mixture models to detect differentially expressed genes. Australian Journal of Experimental Agriculture 45: 859. [doi:10.1071/EA05051]
- McMillan I, Robertson A (1974) The power of methods for the detection of major gene affecting quantitative characters. Heredity 32: 349-356. [doi:10.1038/hdy.1974.43]
- Meer JM, Cudmore JRH, Manly K (2004) MapManager/QTX: software for complex trait analysis. [http://www.mapmanager.org/mmQTX.html]
- Melchinger AE, Utz HF, Schon CC (1998) Quantitative trait locus (QTL) mapping using different testers and independent population samples in maize reveals low power of QTL detection and large bias in estimates of QTL effects. Genetics 149: 383-403. [http://www.genetics.org/cgi/content/abstract/149/1/383]
- Mester D, Ronin Y, Nevo E, Korol A (2004) Fast and high precision algorithms for optimization in large-scale genomic problems. Computational Biology and Chemistry 28: 281-290. [doi:10.1016/j.compbiolchem.2004.08.003 | http://www.multiqtl.com/]
- Montagutelli X, Turner R, Nadeau JH (1996) Epistatic Control of Non-Mendelian Inheritance in Mouse Interspecific Crosses. Genetics 143: 1739-1752. [http://www.genetics.org/cgi/content/abstract/143/4/1739]
- Moore JH (2005) A global view of epistasis. Nature Genetics 37: 13-14. [doi:10.1038/ng0105-13]
- Moreno-Gonzalez J (1993) Efficiency of generations for estimating marker-associated QTL effects by multiple regression. Genetics 135: 223-231. [http://www.genetics.org/cgi/content/abstract/135/1/223]
- Moreno-Gonzalez J (1992) Genetic models to estimate additive and non-additive effects of marker-associated QTL using multiple regression techniques. Theoretical and Applied Genetics 85: 000. [doi:10.1007/BF00222325]
- Muir W, Nyquist WE, Xu S (1992) Alternative partitioning of the genotype-by-environment interaction. Theoretical and Applied Genetics 84: 000. [doi:10.1007/BF00224000]
- Nadeau JH, Frankel WN (2000) . Nature Genetics 25: 381-384. [doi:10.1038/78051]
- Nakamichi R, Ukai Y, Kishino H (2001) Detection of closely linked multiple quantitative trait loci using genetic algorithm. Genetics 158: 463-475. [http://www.genetics.org/cgi/content/full/158/1/463]
- Navabi A, Mather DE, Bernier J, Spaner DM, Atlin GN (2009) QTL detection with bidirectional and unidirectional selective genotyping: marker-based and trait-based analyses. Theoretical and Applied Genetics 118: 347-358. [doi:10.1007/s00122-008-0904-2]
- Nettleton D, Doerge RW (2000) Accounting for variability in the use of permutation testing to detect quantitative trait loci. Biometrics 56: 52-58. [http://www.jstor.org/stable/2677102]
- Nettleton D, Praestgaard J (1998) Interval mapping of quantitative trait loci through order-restricted inference. Biometrics 54: 74-87. [http://www.jstor.org/stable/2533997]
- Nettleton D (2002) Testing for ordered means in a variation of the normal mixture model. Journal of Statistical Planning and Inference 107: 143-153. [doi:10.1016/S0378-3758(02)00249-5]
- Nettleton D (1999) Order restricted hypothesis testing in a variation of the normal mixture model. Canadian Journal of Statistics 27: 383-394. [http://www.jstor.org/stable/3315647]
- Ooijen JW (1992) Accuracy of mapping quantitative trait loci in autogamous species. Theoretical and Applied Genetics 84-84: 000. [doi:10.1007/BF00227388]
- Ooijen JW (1992) Accuracy of mapping quantitative trait loci in autogamous species. Theoretical and Applied Genetics 84-84: 000. [doi:10.1007/BF00227388]
- Page GP, George V, Go RC, Page PZ, Allison DB (2003) "Are we there yet?": Deciding when one has demonstrated specific genetic causation in complex diseases and quantitative traits. American Journal of Human Genetics 73: 711-719. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1180596&rendertype=abstract]
- Pardo-Manuel de Villenaa F, de la Casa-Esperóna E, Briscoea TL, Sapienza C (2000) A Genetic Test to Determine the Origin of Maternal Transmission Ratio Distortion: Meiotic Drive at the Mouse Om Locus. Genetics 154: 333-342. [http://www.genetics.org/cgi/content/abstract/154/1/333]
- Paterson AH, Damon S, Hewitt JD, Zamir D, Rabinowitch HD, Lincoln SE, Lander ES, Tanksley SD (1991) Mendelian factors underlying quantitative traits in tomato: comparison across species, generations and environments. Genetics 127: 181-197. [http://www.genetics.org/cgi/content/abstract/127/1/181]
- Paterson AH (1995) Molecular dissection of quantitative traits: progress and prospects. Genome research 5: 321-333. [doi:10.1101/gr.5.4.321]
- Paterson AH, Lander ES, Hewitt JD, Peterson S, Lincoln SE, Tanksley SD (1988) Resolution of quantitative traits into Mendelian factors by using a complete linkage map of restriction fragment length polymorphisms. Nature 335: 721-726. [doi:10.1038/335721a0]
- Phillips PC (2008) Epistasis--the essential role of gene interactions in the structure and evolution of genetic systems. Nature Reviews Genetics 9: 855-867. [doi:10.1038/nrg2452]
- Phillips TJ, Belknap JK (2002) Complex-trait genetics: emergence of multivariate strategies. Nature Reviews Neuroscience 3: 478-485. [doi:10.1038/nrn847]
- Piepho HP, Gauch HGJ (2001) Marker pair selection for mapping quantitative trait loci. Genetics 157: 433-444. [http://www.genetics.org/cgi/content/abstract/157/1/433]
- Poole TM, Drinkwater NR (1996) Two genes abrogate the inhibition of murine hepatocarcinogenesis by ovarian hormones. Proceedings of the National Academy of Sciences 93: 5848-5853. [http://www.pnas.org/cgi/content/abstract/93/12/5848]
- Rao S, Li X (2000) . Genetica 109: 183-197. [doi:10.1023/A:1017507624695]
- Rasmusson JM (1933) A contribution to the theory of character inheritance. Hereditas 18: 245-261.
- Rebaï A, Goffinet B, Mangin B (1995) Comparing power of different methods of QTL detection. Biometrics 51: 87-99. [http://www.jstor.org/stable/2533317]
- Rebaï A, Goffinet B, Mangin B (1994) Approximate thresholds of interval mapping tests for QTL detection. Ge 138: 235-240. [http://www.genetics.org/cgi/content/abstract/138/1/235]
- Rebaï A (1997) Comparison of methods for regression interval mapping in QTL analysis with non-normal traits. Genetical research 69: 69-74. [doi:10.1017/S0016672396002558]
- Rodolphe F, Lefort M (1993) A multi-marker model for detecting chromosomal segments displaying QTL activity. Genetics 134: 1277-1288. [http://www.genetics.org/cgi/content/abstract/134/4/1277]
- Rosa GJ, Yandell BS, Gianola D (2002) A Bayesian approach for constructing genetic maps when markers are miscoded. Genetics, selection, evolution : GSE 34: 353-369. [doi:10.1051/gse:2002012]
- Routman E, Cheverud JM (1994) Individual genes underlying quantitative traits: Molecular and analytical methods. In: Schierwater B, Streit B, Wagner GP, DeSalle R (ed.) . : Birkhauser Verlag, pp. 593-606.
- Routman EJ, Cheverud JM (1997) Gene effects on a quantitative trait: two-locus epistatic effects measured at microsatellite markers and at estimated QTL. Evolution 51: 1654-1662. [http://www.jstor.org/stable/2411217]
- Sabatti C, Service S, Freimer N (2003) False discovery rate in linkage and association genome screens for complex disorders. Genetics 164: 829-833. [http://www.genetics.org/cgi/content/abstract/164/2/829]
- Samuelson DJ, Hesselson SE, Aperavich BA, Zan Y, Haag JD, Trentham-Dietz A, Hampton JM, Mau B, Chen KS, Baynes C, Khaw KT, Luben R, Perkins B, Shah M, Pharoah PD, Dunning AM, Easton DF, Ponder BA, Gould MN (2007) Rat Mcs5a is a compound quantitative trait locus with orthologous human loci that associate with breast cancer risk. Proceedings of the National Academy of Sciences of the United States of America 104: 6299-6304. [doi:10.1073/pnas.0701687104]
- Satagopan JM, Yandell BS, Newton MA, Osborn TC (1996) Markov chain Monte Carlo approach to detect polygene loci for complex traits. Genetics 144: 805-816. [http://www.genetics.org/cgi/content/abstract/144/2/805]
- Satagopan JM, Yandell BS (1996) Estimating the number of quantitative trait loci via Bayesian model determination. [doi:ftp://ftp.stat.wisc.edu/pub/yandell/revjump.html]
- Sax K (1923) The association of size differences with seed-coat pattern and pigmentation in Phaseoulus vulgaris. Genetics 8: 552-560. [http://www.genetics.org/cgi/reprint/8/6/552]
- Sen S, Churchill GA (2001) A statistical framework for quantitative trait mapping. Genetics 159: 371-387. [http://www.genetics.org/cgi/content/abstract/159/1/371 | http://www.jax.org/research/churchill/research/qtl/pseudomarker.html]
- Sen S, Johannes F, Broman KW (2009) Selective genotyping and phenotyping strategies in a complex trait context. Genetics 181: 1613-1626. [doi:10.1534/genetics.108.094607]
- Sen S, Satagopan JM, Broman KW, Churchill GA (2007) R/qtlDesign: inbred line cross experimental design. Mammalian genome : official journal of the International Mammalian Genome Society 18: 87-93. [doi:10.1007/s00335-006-0090-y]
- Sen S, Satagopan JM, Churchill GA (2005) Quantitative trait locus study design from an information perspective. Genetics 170: 447-464. [doi:10.1534/genetics.104.038612]
- Shao H, Burrage LC, Sinasac DS, Hill AE, Ernest SR, O'Brien W, Courtland HW, Jepsen KJ, Kirby A, Kulbokas EJ, Daly MJ, Broman KW, Lander ES, Nadeau JH (2008) Genetic architecture of complex traits: Large phenotypic effects and pervasive epistasis. Proceedings of the National Academy of Sciences of the United States of America 105: 19910-19914. [doi:10.1073/pnas.0810388105]
- Shendure J, Melo JA, Pociask K, Derr R, Silver LM (1998) Sex-restricted non-Mendelian inheritance of mouse chromosome 11 in the offspring of crosses between C57BL/6J and (C57BL/6J x DBA/2J)F1 mice. Mammalian genome : official journal of the International Mammalian Genome Society 9: 812-815. [doi:10.1007/s003359900872]
- Shepel LA, Lan H, Haag JD, Brasic GM, Gheen ME, Simon JS, Hoff P, Newton MA, Gould MN (1998) Genetic identification of multiple loci that control breast cancer susceptibility in the rat. Genetics 149: 289-299. [http://www.genetics.org/cgi/content/abstract/149/1/289]
- Shi J (2006) Two problems in quantitative trait mapping. Statistics, Stanford U. [http://proquest.umi.com/pqdweb?index=1&did=1221693361&SrchMode=1&sid=1&Fmt=2&VInst=PROD&VType=PQD&RQT=309&VName=PQD&TS=1204824286&clientId=3751]
- Shi J, Siegmund D, Yakir B (2007) Importance Sampling for EstimatingpValues in Linkage Analysis. Journal of the American Statistical Association 102: 929-937. [doi:10.1198/016214507000000680]
- Shifman S, Bell JT, Copley RR, Taylor MS, Williams RW, Mott R, Flint J (2006) A High-Resolution Single Nucleotide Polymorphism Genetic Map of the Mouse Genome. PLoS Biology 4: e395. [doi:10.1371/journal.pbio.0040395]
- Shimomura K (2001) Genome-Wide Epistatic Interaction Analysis Reveals Complex Genetic Determinants of Circadian Behavior in Mice. Genome research 11: 959-980. [doi:10.1101/gr.171601]
- Sillanpää M, Arjas E (1998) Bayesian mapping of multiple quantitative trait loci from incomplete inbred line cross data. Genetics 148: 1373-1388. [http://www.genetics.org/cgi/content/abstract/148/3/1373 | http://www.rni.helsinki.fi/~mjs/]
- Sillanpää M, Corander J (2002) Model choice in gene mapping: what and why. Trends in Genetics 18: 301-307. [doi:10.1016/S0168-9525(02)02688-4]
- Simonsen KL, McIntyre LM (2004) Using alpha wisely: improving power to detect multiple QTL. Statistical applications in genetics and molecular biology 3: Article1. [doi:10.2202/1544-6115.1023]
- Solberg LC, Baum AE, Ahmadiyeh N, Shimomura K, Li R, Turek FW, Churchill GA, Takahashi JS, Redei EE (2004) Sex- and lineage-specific inheritance of depression-like behavior in the rat. Mammalian genome : official journal of the International Mammalian Genome Society 15: 648-662. [doi:10.1007/s00335-004-2326-z]
- Solberg LC, Baum AE, Ahmadiyeh N, Shimomura K, Li R, Turek FW, Takahashi JS, Churchill GA, Redei EE (2006) Genetic analysis of the stress-responsive adrenocortical axis. Physiological genomics 27: 362-369. [doi:10.1152/physiolgenomics.00052.2006]
- Soller M, Brody T, Genizi A (1976) On the power of experimental designs for the detection of linkage between marker loci and quantitative loci in crosses between inbred lines. Theoretical and Applied Genetics 47: 000. [doi:10.1007/BF00277402]
- Speed TP, McPeek MS, Evans SN (1992) Robustness of the no-interference model for ordering genetic markers. Proceedings of the National Academy of Sciences 89: 3103-3106. [http://www.pnas.org/cgi/content/abstract/89/7/3103]
- Stam P (1991) Some aspects of QTL analysis. [doi:http://www.cababstractsplus.org/abstracts/Abstract.aspx?AcNo=19931642044]
- Stam P (1993) Construction of integrated genetic linkage maps by means of a new computer package: JoinMap. The Plant Journal 3: 739-744. [doi:10.1046/j.1365-313X.1993.03050739.x]
- Stephens DA, Fisch RD (1998) Bayesian analysis of quantitative trait locus data using reversible jump Markov chain Monte Carlo. Biometrics 54: 1334-1347. [http://www.jstor.org/stable/2533661]
- Stephens DA, Smith AFM (1993) Bayesian inference in multipoint gene mapping. Annals of Human Genetics 57: 65-82. [doi:10.1111/j.1469-1809.1993.tb00887.x]
- Stringham HM, Boehnke M (1996) Identifying marker typing incompatibilities in linkage analysis. American Journal of Human Genetics 59: 946-950. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1914788]
- Stuber CW, Lincoln SE, Wolff DW, Helentjaris T, Lander ES (1992) Identification of genetic factors contributing to heterosis in a hybrid from two elite maize inbred lines using molecular markers. Genetics 132: 823-839. [http://www.genetics.org/cgi/content/abstract/132/3/823]
- Stylianou IM, Tsaih SW, DiPetrillo K, Ishimori N, Li R, Paigen B, Churchill G (2006) Complex genetic architecture revealed by analysis of high-density lipoprotein cholesterol in chromosome substitution strains and F2 crosses. Genetics 174: 999-1007. [doi:10.1534/genetics.106.059717]
- Sugiyama F, Churchill GA, Higgins DC, Johns C, Makaritsis KP, Gavras H, Paigen B (2001) Concordance of murine quantitative trait loci for salt-induced hypertension with rat and human loci. Genomics 71: 70-77. [doi:10.1006/geno.2000.6401]
- Sybenga J (1996) Recombination and chiasmata: few but intriguing discrepancies. Genome 39: 473-484. [doi:10.1139/g96-061]
- Symons RC, Daly MJ, Fridlyand J, Speed TP, Cook WD, Gerondakis S, Harris AW, Foote SJ (2002) Multiple genetic loci modify susceptibility to plasmacytoma-related morbidity in E(mu)-v-abl transgenic mice. Proceedings of the National Academy of Sciences of the United States of America 99: 11299-11304. [doi:10.1073/pnas.162566999]
- Tanksley SD (1993) Mapping polygenes. Annual Review of Genetics 27: 205-233. [doi:10.1146/annurev.ge.27.120193.001225]
- Tanksley SD, McCouch SR (1997) Seed Banks and Molecular Maps: Unlocking Genetic Potential from the Wild. Science 277: 1063-1066. [doi:10.1126/science.277.5329.1063]
- ter Braak CJ, Boer MP, Bink MC (2005) Extending Xu's Bayesian model for estimating polygenic effects using markers of the entire genome. Genetics 170: 1435-1438. [doi:10.1534/genetics.105.040469]
- Thliveris AT, Halberg RB, Clipson L, Dove WF, Sullivan R, Washington MK, Stanhope S, Newton MA (2005) Polyclonality of familial murine adenomas: analyses of mouse chimeras with low tumor multiplicity suggest short-range interactions. Proceedings of the National Academy of Sciences of the United States of America 102: 6960-6965. [doi:10.1073/pnas.0502662102]
- Thoday JM (1977) Effects of specific genes. Iowa State Univ.
- Thoday JM (1961) Location of Polygenes. Nature 191: 368-370. [doi:10.1038/191368a0]
- Utz HF, Melchinger AE (1996) PLABQTL: a program for composite interval mapping of QTL . J Quant Trait Loci 2: 000. [http://www.uni-hohenheim.de/ipspwww/soft.html]
- Utz HF, Melchinger AE (1994) Comparison of different approaches to interval mapping of quantitative trait loci. Section, biometrics in Plant Breeding.
- Utz HF, Melchinger AE, Schön CC (2000) Bias and sampling error of the estimated proportion of genotypic variance explained by quantitative trait loci determined from experimental data in maize using cross validation and validation with independent samples. Genetics 154: 1839-1849. [http://www.genetics.org/cgi/content/abstract/154/4/1839]
- Valdar W, Solberg LC, Gauguier D, Cookson WO, Rawlins JN, Mott R, Flint J (2006) Genetic and environmental effects on complex traits in mice. Genetics 174: 959-984. [doi:10.1534/genetics.106.060004]
- Vales MI, Schon CC, Capettini F, Chen XM, Corey AE, Mather DE, Mundt CC, Richardson KL, Sandoval-Islas JS, Utz HF, Hayes PM (2005) Effect of population size on the estimation of QTL: a test using resistance to barley stripe rust. Theoretical and Applied Genetics 111: 1260-1270. [doi:10.1007/s00122-005-0043-y]
- van de Ven R (2004) Reversible-jump Markov chain Monte Carlo for quantitative trait loci mapping. Genetics 167: 1033-1035. [doi:10.1534/genetics.103.025536]
- van Ooijen JW, Maliepaard C (2996) MapQTL version 3.0: software for the calculation of QTL positions on genetic maps. CPRO-DLO. [http://www.kyazma.nl/]
- Van Os H, Stam P, Visser RG, Van Eck HJ (2005) RECORD: a novel method for ordering loci on a genetic linkage map. Theoretical and Applied Genetics 112: 30-40. [doi:10.1007/s00122-005-0097-x]
- Verbyla AP, Cullis BR, Thompson R (2007) The analysis of QTL by simultaneous use of the full linkage map. Theoretical and Applied Genetics 116: 95-111. [doi:10.1007/s00122-007-0650-x]
- Vieira C, Pasyukova EG, Zeng ZB, Hackett JB, Lyman RFMTFC (2000) Genotype-environment interaction for quantitative trait loci affecting life span in Drosophila melanogaster. Genetics 154: 213-227. [http://www.genetics.org/cgi/content/abstract/154/1/213]
- Vision TJ, Brown DG, Shmoys DB, Durrett RT, Tanksley SD (2000) Selective mapping: a strategy for optimizing the construction of high-density linkage maps. Genetics 155: 407-420. [http://www.genetics.org/cgi/content/abstract/155/1/407]
- Visscher PM, Thompson R, Haley CS (1996) Confidence intervals in QTL mapping by bootstrapping. Genetics 143: 1013-1020. [http://www.genetics.org/cgi/content/abstract/143/2/1013]
- Visscher PM, Haley CS, Knott SA (1996) Mapping QTLs for binary traits in backcross and F2 populations. Genetical research 68: 55. [doi:10.1017/S0016672300033887]
- Vogl C, Xu S (2000) Multipoint mapping of viability and segregation distorting loci using molecular markers. Genetics 155: 1439-1447. [http://www.genetics.org/cgi/content/abstract/155/3/1439]
- Walling GA, Haley CS, Perez-Enciso M, Thompson R, Visscher PM (2002) On the mapping of quantitative trait loci at marker and non-marker locations. Genetics Research 79: 000. [doi:10.1017/S0016672301005420]
- Walling GA, Visscher PM, Haley CS (1998) A comparison of bootstrap methods to construct confidence intervals in QTL mapping. Genetical research 71: 171-180. [doi:10.1017/S0016672398003164]
- Wang H, Zhang YM, Li X, Masinde GL, Mohan S, Baylink DJ, Xu S (2005) Bayesian shrinkage estimation of quantitative trait loci parameters. Genetics 170: 465-480. [http://www.genetics.org/cgi/content/abstract/170/1/465]
- Wang DL, Zhu J, Li ZKL, Paterson AH (1999) Mapping QTLs with epistatic effects and QTL x environment interactions by mixed linear model approaches. Theoretical and Applied Genetics 99: 1255-1264. [doi:10.1007/s001220051331]
- Wang J, W.Williams R, Manly KF (2003) WebQTL: Web-Based Complex Trait Analysis . Neuroinformatics 1: 299-308. [doi:10.1385/NI:1:4:299 | http://www.genenetwork.org]
- Weber K, Eisman R, Higgins S, Kuhl L, Patty A, Sparks JZ (1999) An analysis of polygenes affecting wing shape on chromosome three in Drosophila melanogaster. Genetics 153: 773-786. [http://www.genetics.org/cgi/content/abstract/153/2/773]
- Weller JI (1986) Maximum likelihood techniques for the mapping and analysis of quantitative trait loci with the aid of genetic markers. Biometrics 42: 627-640. [http://www.jstor.org/stable/2531212]
- West MAL, van Leeuwen H, Kozik A, Kliebenstein DJ, Doerge RW, St Clair DA, Michelmore RW (2006) High-density haplotyping with microarray-based expression and single feature polymorphism markers in Arabidopsis. Genome research 16: 787-795. [doi:10.1101/gr.5011206]
- Whittaker JC, Thompson R, Visscher PM (1996) On the mapping of QTL by regression of phenotype on marker-type. Heredity 77: 23-32. [doi:10.1038/sj.hdy.6880110]
- Wiltshire T, Pletcher MT, Batalov S, Barnes SW, Tarantino LM, Cooke MP, Wu H, Smylie K, Santrosyan A, Copeland NG, Jenkins NA, Kalush F, Mural RJ, Glynne RJ, Kay SA, Adams MD, Fletcher CF (2003) Genome-wide single-nucleotide polymorphism analysis defines haplotype patterns in mouse. Proceedings of the National Academy of Sciences of the United States of America 100: 3380-3385. [doi:10.1073/pnas.0130101100]
- Wright AJ, Mowers RP (1994) Multiple regression for molecular-marker, quantitative trait data from large F2 populations. Theor Appl Genet 89: 305-312. [doi:10.1007/BF00226714]
- Wright FA, Kong A (1997) Linkage mapping in experimental crosses: the robustness of single-gene models. 146: 417-425. [http://www.genetics.org/cgi/content/abstract/146/1/417]
- Wright S (1934) An analysis of variability in number of digits in an inbred strain of guinea pigs. 19: 506-536. [http://www.genetics.org/cgi/reprint/19/6/506]
- Wright S, Provine WB (1986) Evolution: selected papers. University of Chicago Press: Chicago 649 pp. ISBN .
- Wu WR, Li WM, Tang DZ, Lu HR, Worland AJ (1999) Time-related mapping of quantitative trait loci underlying tiller number in rice. Genetics 151: 297-303. [http://www.genetics.org/cgi/content/abstract/151/1/297]
- Wu R (2004) A General Framework for Analyzing the Genetic Architecture of Developmental Characteristics. Genetics 166: 1541-1551. [doi:10.1534/genetics.166.3.1541]
- Wu R, Lin M (2006) Functional mapping - how to map and study the genetic architecture of dynamic complex traits. Nature Reviews Genetics 7: 229-237. [doi:10.1038/nrg1804]
- Wu R, Ma CX, Lin M, Wang Z, Casella G (2004) Functional mapping of quantitative trait loci underlying growth trajectories using a transform-both-sides logistic model. Biometrics 60: 729-738. [doi:10.1111/j.0006-341X.2004.00223.x]
- Wu R, Ma CX, Zhao W, Casella G (2003) Functional mapping for quantitative trait loci governing growth rates: a parametric model. Physiological genomics 14: 241-249. [doi:10.1152/physiolgenomics.00013.2003]
- Wu R, Wang Z, Zhao W, Cheverud JM (2004) A mechanistic model for genetic machinery of ontogenetic growth. Genetics 168: 2383-2394. [doi:10.1534/genetics.104.034447]
- Wu WR, Li WM (1994) A new approach for mapping quantitative trait loci using complete genetic marker linkage maps. Theoretical and Applied Genetics 89: 000. [doi:10.1007/BF00222444]
- Wu WR, Li WM (1996) Model fitting and model testing in the method of joint mapping of quantitative trait loci. Theoretical and Applied Genetics 92: 477-482. [doi:10.1007/s001220050152]
- Xiao J, Li J, Yuan L, Tanksley SD (1995) Dominance is the major genetic basis of heterosis in rice as revealed by QTL analysis using molecular markers. Genetics 140: 745-754. [http://www.genetics.org/cgi/content/abstract/140/2/745]
- Xu S (2003) Theoretical basis of the Beavis effect. Genetics 165: 2259-2268. [http://www.genetics.org/cgi/content/abstract/165/4/2259]
- Xu S (1995) A comment on the simple regression method for interval mapping. Genetics 141: 1657-1659. [http://www.genetics.org/cgi/reprint/141/4/1657]
- Xu S (2008) Quantitative trait locus mapping can benefit from segregation distortion. Genetics 180: 2201-2208. [doi:10.1534/genetics.108.090688]
- Xu S (2007) An empirical bayes method for estimating epistatic effects of quantitative trait Loci. Biometrics 63: 513-521. [doi:10.1111/j.1541-0420.2006.00711.x]
- Xu S (2007) Derivation of the shrinkage estimates of quantitative trait locus effects. Genetics 177: 1255-1258. [doi:10.1534/genetics.107.077487]
- Xu S, Yonash N, Vallejo RL, Cheng HH (1998) . Genetica 104: 171-178. [doi:10.1023/A:1003522902078]
- Xu Y, Crouch JH (2008) Marker-Assisted Selection in Plant Breeding: From Publications to Practice. Crop Science 48: 391-407. [doi:10.2135/cropsci2007.04.0191]
- Xu Z, Zou F, Vision TJ (2005) Improving quantitative trait loci mapping resolution in experimental crosses by the use of genotypically selected samples. Genetics 170: 401-408. [doi:10.1534/genetics.104.033746 | http://www.bio.unc.edu/faculty/vision/lab/mappop/]
- Yandell BS, Bradbury P (2007) Computing strategies and software for gene mapping . In: Kole C (ed.) . Science Publishers, Inc.: Enfield, New Hampshire, pp. 329-377. [http://www.stat.wisc.edu/~yandell/doc/2007/E11.PlantMap.pdf]
- Yandell BS, Mehta T, Banerjee S, Shriner D, Venkataraman R, Moon JY, Neely WW, Wu H, von Smith R, Yi N (2007) R/qtlbim: QTL with Bayesian Interval Mapping in experimental crosses . Bioinformatics (Oxford, England) 23: 641-643. [doi:10.1093/bioinformatics/btm011 | http://www.qtlbim.org]
- Yang J, Hu C, Ye X, Zhu J (2006) QTLNetwork 2.0 Software for Mapping QTL with Epistatic and QE interaction effects in Experimental Populations . [http://ibi.zju.edu.cn/software/qtlnetwork]
- Yang RC, Baker RJ (1991) Genotype-environment interactions in 2 wheat crosses. Crop Science 31: 83-87. [http://crop.scijournals.org/cgi/content/abstract/31/1/83]
- Yang R, Gao H, Wang X, Zhang J, Zeng ZB, Wu R (2007) A semiparametric approach for composite functional mapping of dynamic quantitative traits. Genetics 177: 1859-1870. [doi:10.1534/genetics.107.077321]
- Yang R, Tian Q, Xu S (2006) Mapping quantitative trait loci for longitudinal traits in line crosses. Genetics 173: 2339-2356. [doi:10.1534/genetics.105.054775]
- Yang R, Xu S (2007) Bayesian shrinkage analysis of quantitative trait Loci for dynamic traits. Genetics 176: 1169-1185. [doi:10.1534/genetics.106.064279]
- Yang R, Yi N, Xu S (2006) Box-Cox transformation for QTL mapping. Genetica 128: 133-143. [doi:10.1007/s10709-005-5577-z]
- Yang RC (2004) Epistasis of quantitative trait loci under different gene action models. Genetics 167: 1493-1505. [doi:10.1534/genetics.103.020016]
- Yang RC, Baker RJ (1990) Effects of epistasis on tests for linkage in self-pollinated species. Theoretical and Applied Genetics 79: 000. [doi:10.1007/BF00225955]
- Yi N (2004) A unified Markov chain Monte Carlo framework for mapping multiple quantitative trait loci. Genetics 167: 967-975. [doi:10.1534/genetics.104.026286]
- Yi N, Banerjee S (2009) Hierarchical generalized linear models for multiple QTL mapping. Genetics 181: 1101-1113. [doi:10.1534/genetics.108.099556]
- Yi N, Banerjee S, Pomp D, Yandell BS (2007) Bayesian mapping of genomewide interacting quantitative trait loci for ordinal traits. Genetics 176: 1855-1864. [doi:10.1534/genetics.107.071142]
- Yi N, George V, Allison DB (2003) Stochastic search variable selection for identifying multiple quantitative trait loci. Genetics 164: 1129-1138. [http://www.genetics.org/cgi/content/abstract/164/3/1129]
- Yi N, Shriner D, Banerjee S, Mehta T, Pomp D, Yandell BS (2007) An efficient Bayesian model selection approach for interacting quantitative trait loci models with many effects. Genetics 176: 1865-1877. [doi:10.1534/genetics.107.071365]
- Yi N, Xu S (2008) Bayesian LASSO for QTL mapping. Genetics 179: 1045-1055. [doi:10.1534/genetics.107.085589]
- Yi N, Yandell BS, Churchill GA, Allison DB, Eisen EJ, Pomp D (2005) Bayesian model selection for genome-wide epistatic quantitative trait loci analysis. Genetics 170: 1333-1344. [doi:10.1534/genetics.104.040386]
- Yi N, Zinniel DK, Kim K, Eisen EJ, Bartolucci A, Allison DB, Pomp D (2006) Bayesian analyses of multiple epistatic QTL models for body weight and body composition in mice. Genetical research 87: 45-60. [doi:10.1017/S0016672306007944]
- Yi N, Xu S (2002) Mapping quantitative trait loci with epistatic effects. Genetics Research 79: 000. [doi:10.1017/S0016672301005511]
- Zak M, Baierl A, Bogdan M, Futschik A (2007) Locating multiple interacting quantitative trait Loci using rank-based model selection. Genetics 176: 1845-1854. [doi:10.1534/genetics.106.068031]
- Zaykin DV, Young SS, Westfall PH (2000) Using false discovery rate approach in the genetic dissection of complex traits: a response to Weller et al. Genetics 154: 1917-1918. [http://www.genetics.org/cgi/content/full/154/4/1917]
- Zehr BE, Dudley JW, Chojecki J, Saghai Maroof MA, Mowers RP (1992) Use of RFLP markers to search for alleles in a maize population for improvement of an elite hybrid. Theoretical and Applied Genetics 83-83: 000. [doi:10.1007/BF00226714]
- Zeng ZB (1993) Theoretical basis of separation of multiple linked gene effects on mapping quantitative trait loci. Proc.Natl.Acad.Sci.U.S.A. 90: 10972-10976. [http://www.pnas.org/cgi/content/abstract/90/23/10972]
- Zeng ZB, Liu J, Stam LF, Kao CH, Mercer JM, Laurie CC (2000) Genetic architecture of a morphological shape difference between two Drosophila species. Genetics 154: 299-310. [http://www.genetics.org/cgi/content/abstract/154/1/299 | ftp://statgen.ncsu.edu/pub/qtlcart/data/zengetal99/]
- Zeng ZB, Wang T, Zou W (2005) Modeling quantitative trait Loci and interpretation of models. Genetics 169: 1711-1725. [doi:10.1534/genetics.104.035857]
- Zeng ZB (2005) QTL mapping and the genetic basis of adaptation: recent developments. Genetica 123: 25-37. [doi:10.1007/s10709-004-2705-0]
- Zeng ZB, Kao CH, Basten CJ (1999) Estimating the genetic architecture of quantitative traits. Genetical research 74: 279-289. [doi:10.1017/S0016672399004255]
- Zhang M, Montooth KL, Wells MT, Clark AG, Zhang D (2005) Mapping multiple quantitative trait loci by Bayesian classification. Genetics 169: 2305-2318. [http://www.genetics.org/cgi/content/abstract/169/4/2305]
- Zhang D, Zhang M (2007) Bayesian profiling of molecular signatures to predict event times. Theoretical biology & medical modelling 4: 3. [doi:10.1186/1742-4682-4-3]
- Zhao HH, Fernando RL, Dekkers JC (2007) Power and precision of alternate methods for linkage disequilibrium mapping of quantitative trait loci. Genetics 175: 1975-1986. [doi:10.1534/genetics.106.066480]
- Zhao W, Chen YQ, Casella G, Cheverud JM, Wu R (2005) A non-stationary model for functional mapping of complex traits. Bioinformatics (Oxford, England) 21: 2469-2477. [doi:10.1093/bioinformatics/bti382]
- Zhao W, Ma C, Cheverud JM, Wu R (2004) A unifying statistical model for QTL mapping of genotype x sex interaction for developmental trajectories. Physiological genomics 19: 218-227. [doi:10.1152/physiolgenomics.00129.2004]
- Zhao W, Zhu J, Gallo-Meagher M, Wu R (2004) A unified statistical model for functional mapping of environment-dependent genetic expression and genotype x environment interactions for ontogenetic development. Genetics 168: 1751-1762. [doi:10.1534/genetics.104.031484]
- Zickler D, Kleckner N (1999) Meiotic chromosomes: Integrating structure and function. Annual Review of Genetics 33: 603-754. [http://genet.annualreviews.org/cgi/content/abstract/33/1/603]
- Zou F, Fine JP, Hu J, Lin D (2004) An efficient resampling method for assessing genome-wide statistical significance in mapping quantitative trait loci. Genetics 168: 2307-2316. [http://www.genetics.org/cgi/content/abstract/168/4/2307]
- Zou F, Yandell BS, Fine JP (2007) Semiparametric and nonparametric gene mappin. In: Nair V (ed.) . : World Scientific, pp. 387-404. [doi:http://www.stat.wisc.edu/~yandell/doc/2007/E10.Doksum.pdf]
- Zou F, Yandell BS, Fine JP (2003) Rank based statistical methodologies for QTL mapping. Genetics 165: 1599-1605. [http://www.genetics.org/cgi/content/abstract/165/3/1599]
Return to Statistical Genomics References.
Last modified: Tue Mar 30 15:40:48 2010 by Brian S. Yandell