Bioinformatics Vol. 19 no. 7 2003
Pages 889-890
© 2003 Oxford University Press
Applications Note |
R/qtl: QTL mapping in experimental crosses
aunak Sen 2,
1 Department of Biostatistics, Johns
Hopkins University, 615 N. Wolfe St, Baltimore, MD 21205, USA
2 The Jackson Laboratory, 600 Main St, Bar
Harbor, ME 04609, USA
Received on October 11, 2002
; revised on December 13, 2002
; accepted on December 20, 2002
Summary: R/qtl is an extensible, interactive environment for mapping quantitative trait loci (QTLs) in experimental populations derived from inbred lines. It is implemented as an add-on package for the freely-available statistical software, R, and includes functions for estimating genetic maps, identifying genotyping errors, and performing single-QTL and two-dimensional, two-QTL genome scans by multiple methods, with the possible inclusion of covariates.
Availability: The package is freely available at http://www.biostat.jhsph.edu/~kbroman/qtl.
Contact: kbroman{at}jhsph.edu
* To whom correspondence should be addressed.
Present address:
Department of Epidemiology and Biostatistics,
University of California, San Francisco, CA 94143, USA.
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L. M. Hines, P. L. Hoffman, S. Bhave, L. Saba, A. Kaiser, L. Snell, I. Goncharov, L. LeGault, M. Dongier, B. Grant, et al. A Sex-Specific Role of Type VII Adenylyl Cyclase in Depression J. Neurosci., November 29, 2006; 26(48): 12609 - 12619. [Abstract] [Full Text] [PDF] |
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L. C. Solberg, A. E. Baum, N. Ahmadiyeh, K. Shimomura, R. Li, F. W. Turek, J. S. Takahashi, G. A. Churchill, and E. E. Redei Genetic analysis of the stress-responsive adrenocortical axis Physiol Genomics, November 21, 2006; 27(3): 362 - 369. [Abstract] [Full Text] [PDF] |
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B. M. Nathan, C. A. Hodges, P. J. Supelak, L. C. Burrage, J. H. Nadeau, and M. R. Palmert A Quantitative Trait Locus on Chromosome 6 Regulates the Onset of Puberty in Mice Endocrinology, November 1, 2006; 147(11): 5132 - 5138. [Abstract] [Full Text] [PDF] |
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C. Granhall, H.-B. Park, H. Fakhrai-Rad, and H. Luthman High-Resolution Quantitative Trait Locus Analysis Reveals Multiple Diabetes Susceptibility Loci Mapped to Intervals <800 kb in the Species-Conserved Niddm1i of the GK Rat Genetics, November 1, 2006; 174(3): 1565 - 1572. [Abstract] [Full Text] [PDF] |
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Z. Liu, K. Adamczyk, M. Manzanares-Dauleux, F. Eber, M.-O. Lucas, R. Delourme, A. M. Chevre, and E. Jenczewski Mapping PrBn and Other Quantitative Trait Loci Responsible for the Control of Homeologous Chromosome Pairing in Oilseed Rape (Brassica napus L.) Haploids Genetics, November 1, 2006; 174(3): 1583 - 1596. [Abstract] [Full Text] [PDF] |
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B. Llamas, C. Lau, W. A. Cupples, M.-L. Rainville, E. Souzeau, and C. F. Deschepper Genetic Determinants of Systolic and Pulse Pressure in an Intercross Between Normotensive Inbred Rats Hypertension, November 1, 2006; 48(5): 921 - 926. [Abstract] [Full Text] [PDF] |
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D. Kess, A.-K. B. Lindqvist, T. Peters, H. Wang, J. Zamek, R. Nischt, K. W. Broman, R. Blakytny, T. Krieg, R. Holmdahl, et al. Identification of Susceptibility Loci for Skin Disease in a Murine Psoriasis Model J. Immunol., October 1, 2006; 177(7): 4612 - 4619. [Abstract] [Full Text] [PDF] |
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J. Rodo, L. A. Goncalves, J. Demengeot, A. Coutinho, and C. Penha-Goncalves MHC Class II Molecules Control Murine B Cell Responsiveness to Lipopolysaccharide Stimulation J. Immunol., October 1, 2006; 177(7): 4620 - 4626. [Abstract] [Full Text] [PDF] |
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A.-K. B. Lindqvist, M. Johannesson, A. C. M. Johansson, K. S. Nandakumar, A. M. Blom, and R. Holmdahl Backcross and Partial Advanced Intercross Analysis of Nonobese Diabetic Gene-Mediated Effects on Collagen-Induced Arthritis Reveals an Interactive Effect by Two Major Loci J. Immunol., September 15, 2006; 177(6): 3952 - 3959. [Abstract] [Full Text] [PDF] |
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E. Sehayek, L. R. Hagey, Y.-Y. Fung, E. M. Duncan, H. J. Yu, G. Eggertsen, I. Bjorkhem, A. F. Hofmann, and J. L. Breslow Two loci on chromosome 9 control bile acid composition: evidence that a strong candidate gene, Cyp8b1, is not the culprit J. Lipid Res., September 1, 2006; 47(9): 2020 - 2027. [Abstract] [Full Text] [PDF] |
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A. Manichaikul, J. Dupuis, S. Sen, and K. W. Broman Poor Performance of Bootstrap Confidence Intervals for the Location of a Quantitative Trait Locus Genetics, September 1, 2006; 174(1): 481 - 489. [Abstract] [Full Text] [PDF] |
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L. H. Chadwick, L. M. Pertz, K. W. Broman, M. S. Bartolomei, and H. F. Willard Genetic Control of X Chromosome Inactivation in Mice: Definition of the Xce Candidate Interval Genetics, August 1, 2006; 173(4): 2103 - 2110. [Abstract] [Full Text] [PDF] |
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B. Feenstra, I. M. Skovgaard, and K. W. Broman Mapping Quantitative Trait Loci by an Extension of the Haley-Knott Regression Method Using Estimating Equations Genetics, August 1, 2006; 173(4): 2269 - 2282. [Abstract] [Full Text] [PDF] |
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L. Chen and J. D. Storey Relaxed Significance Criteria for Linkage Analysis Genetics, August 1, 2006; 173(4): 2371 - 2381. [Abstract] [Full Text] [PDF] |
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N. J. Armstrong, M. S. McPeek, and T. P. Speed Incorporating interference into linkage analysis for experimental crosses Biostat., July 1, 2006; 7(3): 374 - 386. [Abstract] [Full Text] [PDF] |
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J. Ockinger, P. Serrano-Fernandez, S. Moller, S. M. Ibrahim, T. Olsson, and M. Jagodic Definition of a 1.06-Mb Region Linked to Neuroinflammation in Humans, Rats and Mice Genetics, July 1, 2006; 173(3): 1539 - 1545. [Abstract] [Full Text] [PDF] |
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M. Liljander, M.-A. Sallstrom, S. Andersson, P. Wernhoff, A. Andersson, R. Holmdahl, and R. Mattsson Identification of Genetic Regions of Importance for Reproductive Performance in Female Mice Genetics, June 1, 2006; 173(2): 901 - 909. [Abstract] [Full Text] [PDF] |
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R. W. Burgess, T. J. Jucius, and S. L. Ackerman Motor Axon Guidance of the Mammalian Trochlear and Phrenic Nerves: Dependence on the Netrin Receptor Unc5c and Modifier Loci J. Neurosci., May 24, 2006; 26(21): 5756 - 5766. [Abstract] [Full Text] [PDF] |
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