From crittend@itis.com Fri Jun 22 09:28:55 2001 Date: Mon, 18 Jun 2001 10:46:25 -0500 From: Lyman/Margaret Crittenden To: Multiple Recipients of Subject: June, 2001 Mapping References Resent-Date: 18 Jun 2001 15:49:32 -0000 Resent-From: angenmap@genome.ansci.iastate.edu Resent-cc: recipient list not shown: ; [ AnGenMap Discussion Mailing List - Mail distributed to 847 members ] [ INFO: http://www.genome.iastate.edu/community/discuss.html ] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ JOURNAL REFS. (MAPPING METHODS AND REVIEWS) NLM 6/01 1. Akey, J. M.; Sosnoski, D.; Parra, E.; Dios, S.; Hiester, K.; Su, B.; Bonilla, C.; Jin, L.Shriver, M. D. Melting curve analysis of SNPs (McSNP): a gel-free and inexpensive approach for SNP genotyping. Biotechniques. 30:358-62, 364, 366-7, 2001. ADDRESS: Human Genetics Center, Graduate School of Public Health, University of Texas Houston Health Science Center, 6901 Bertner Avenue, Houston, TX 77030, USA. jakey@gsbs3.gs.uth.tmc.edu. Medline UID: 21129377 2. Betensky, R. A. and Rabinowitz, D. Simple approximations for the maximal transmission/disequilibrium test with a multi-allelic marker. Ann Hum Genet. 64:567-74, 2000. ADDRESS: Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115, USA. betensky@hsph.harvard.edu. Medline UID: 21176799 3. Beuzen, N. D.; Stear, M. J.Chang, K. C. Molecular markers and their use in animal breeding. Vet J. 160:42-52, 2000. ADDRESS: Department of Veterinary Pathology, Univesity of Galsgow, UK. Medline UID: 20405067 4. Cho, R. J. Deriving meaning from genomic information. Biotechnol Genet Eng Rev. 17:91-107, 2000. ADDRESS: Department of Genetics and Biochemistry, Stanford University School of Medicine, Stanford, CA 94035, USA. rcho@ingenuity.com. Medline UID: 21151494 5. Cornforth, M. N. Analyzing radiation-induced complex chromosome rearrangements by combinatorial painting. Radiat Res. 155:643-59, 2001. ADDRESS: Department of Radiation Oncology, 344 Gail Borden Bldg. Route F-56, University of Texas Medical Branch, Galveston, TX 77555-0656, USA. Medline UID: 21199668 6. Davis, S. and Nimgaonkar, V. L. Impact of overlapping recruitment on linkage analysis of complex disorders: simulation studies. Am J Med Genet. 105:141-4, 2001. ADDRESS: Department of Human Genetics, Graduate School of Pittsburgh, University of Pittsburgh, Pittsburgh, Pennsylvania, USA. Medline UID: 21200924 7. de Koning, D. J.; Schulmant, N. F.; Elo, K.; Moisio, S.; Kinos, R.; Vilkki, J.Maki-Tanila, A. Mapping of multiple quantitative trait loci by simple regression in half-sib designs. J Anim Sci. 79:616-22, 2001. ADDRESS: Animal Breeding and Genetics Group, WIAS, Wageningen University, The Netherlands. Medline UID: 21161238 8. Deng, H. W.; Chen, W. M.Recker, R. R. Population admixture: detection by Hardy-Weinberg test and its quantitative effects on linkage-disequilibrium methods for localizing genes underlying complex traits. Genetics. 157:885-97, 2001. ADDRESS: Osteoporosis Research Center, Creighton University, 601 N. 30th St., Omaha, NE 68131, USA. deng@creighton.edu. Medline UID: 21100361 9. Erdogan, F.; Kirchner, R.; Mann, W.; Ropers, H. H.Nuber, U. A. Detection of mitochondrial single nucleotide polymorphisms using a primer elongation reaction on oligonucleotide microarrays. Nucleic Acids Res. 29:E36, 2001. ADDRESS: Max-Planck Institute for Molecular Genetics, Ihnestrasse 73, 14195 Berlin, Germany. Medline UID: 21169372 10. Gemund, C.; Ramu, C.; Altenberg-Greulich, B.Gibson, T. J. Gene2EST: a BLAST2 server for searching expressed sequence tag (EST) databases with eukaryotic gene-sized queries. Nucleic Acids Res. 29:1272-7, 2001. ADDRESS: European Molecular Biology Laboratory, Postfach 10.2209, 69012 Heidelberg, Germany. Medline UID: 21138429 11. George, A. W.; Mengersen, K. L.Davis, G. P. A Bayesian approach to ordering gene markers. Biometrics. 55:419-29, 1999. ADDRESS: School of Mathematics, Queensland University of Technology, Brisbane, Australia. a.george@fsc.qut.edu.au. Medline UID: 21215199 12. Giordano, M.; Mellai, M.; Hoogendoorn, B.Momigliano-Richiardi, P. Determination of SNP allele frequencies in pooled DNAs by primer extension genotyping and denaturing high-performance liquid chromatography. J Biochem Biophys Methods. 47:101-10, 2001. ADDRESS: Dipartimento di Scienze Mediche, Universita del Piemonte Orientale 'Amedeo Avogadro', Via Solaroli 17, 28100, Novara, Italy. giordano@med.unipmn.it. Medline UID: 21101603 13. Hansen, K. M.; Ji, H. F.; Wu, G.; Datar, R.; Cote, R.; Majumdar, A.Thundat, T. Cantilever-based optical deflection assay for discrimination of DNA single-nucleotide mismatches. Anal Chem. 73:1567-71, 2001. ADDRESS: Life Sciences Division, Oak Ridge National Laboratory, Tennessee 37831, USA. Medline UID: 21217620 14. Hansen, T. F. and Wagner, G. P. Modeling genetic architecture: a multilinear theory of gene interaction. Theor Popul Biol. 59:61-86, 2001. ADDRESS: Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut 06520-8106, USA. Thomas.Hansen@bio.fsu.edu. Medline UID: 21140377 15. Hitzemann, R.; Demarest, K.; Koyner, J.; Cipp, L.; Patel, N.; Rasmussen, E.McCaughran, J. Jr. Effect of genetic cross on the detection of quantitative trait loci and a novel approach to mapping QTLs. Pharmacol Biochem Behav. 67:767-72, 2000. ADDRESS: Departments of Psychiatry, Psychology, and Neuroscience, SUNY at Stony Brook, Stony Brook, NY 11794-8101, USA. Medline UID: 21107187 16. Hourihan, R. N.; O'Sullivan, G. C.Morgan, J. G. High-resolution detection of loss of heterozygosity of dinucleotide microsatellite markers. Biotechniques. 30:342-6, 2001. ADDRESS: Lab 439, Department of Microbiology, University College Cork, Cork, Ireland. rebeccahourihan@hotmail.com. Medline UID: 21129375 17. Jaccoud, D.; Peng, K.; Feinstein, D.Kilian, A. Diversity arrays: a solid state technology for sequence information independent genotyping. Nucleic Acids Res. 29:E25, 2001. ADDRESS: Center for the Application of the Molecular Biology to International Agriculture (CAMBIA) Canberra, ACT, Australia. Medline UID: 21113209 18. Kneidinger, B.; Graninger, M.Messner, P. Chromosome walking by cloning of distinct PCR fragments. Biotechniques. 30:248-9, 2001. ADDRESS: Universitat fur Bodenkultur Wien Vienna, Austria. Medline UID: 21129361 19. Krahmer, M. T.; Walters, J. J.; Fox, K. F.; Fox, A.; Creek, K. E.; Pirisi, L.; Wunschel, D. S.; Smith, R. D.; Tabb, D. L.Yates, J. R. MS for identification of single nucleotide polymorphisms and MS/MS for discrimination of isomeric PCR products. Anal Chem. 72:4033-40, 2000. ADDRESS: Department of Microbiology & Immunobiology, University of South Carolina, School of Medicine, Columbia 29208, USA. Medline UID: 20448428 20. Lander, E. S.; Linton, L. M.; Birren, B.; Nusbaum, C.; Zody, M. C.; Baldwin, J.; Devon, K.; Dewar, K.; Doyle, M.; FitzHugh, W.; Funke, R.; Gage, D.; Harris, K.; Heaford, A.; Howland, J.; Kann, L.; Lehoczky, J.; LeVine, R.; McEwan, P.; McKernan, K.; Meldrim, J.; Mesirov, J. P.; Miranda, C.; Morris, W.; Naylor, J.; Raymond, C.; Rosetti, M.; Santos, R.; Sheridan, A.; Sougnez, C.; Stange-Thomann, N.; Stojanovic, N.; Subramanian, A.; Wyman, D.; Rogers, J.; Sulston, J.; Ainscough, R.; Beck, S.; Bentley, D.; Burton, J.; Clee, C.; Carter, N.; Coulson, A.; Deadman, R.; Deloukas, P.; Dunham, A.; Dunham, I.; Durbin, R.; French, L.; Grafham, D.; Gregory, S.; Hubbard, T.; Humphray, S.; Hunt, A.; Jones, M.; Lloyd, C.; McMurray, A.; Matthews, L.; Mercer, S.; Milne, S.; Mullikin, J. C.; Mungall, A.; Plumb, R.; Ross, M.; Shownkeen, R.; Sims, S.; Waterston, R. H.; Wilson, R. K.; Hillier, L. W.; McPherson, J. D.; Marra, M. A.; Mardis, E. R.; Fulton, L. A.; Chinwalla, A. T.; Pepin, K. H.; Gish, W. R.; Chissoe, S. L.; Wendl, M. C.; Delehaunty, K. D.; Miner, T. L.; Delehaunty, A.; Kramer, J. B.; Cook, L. L.; Fulton, R. S.; Johnson, D. L.; Minx, P. J.; Clifton, S. W.; Hawkins, T.; Branscomb, E.; Predki, P.; Richardson, P.; Wenning, S.; Slezak, T.; Doggett, N.; Cheng, J. F.; Olsen, A.; Lucas, S.; Elkin, C.; Uberbacher, E.; Frazier, M.; Gibbs, R. A.; Muzny, D. M.; Scherer, S. E.; Bouck, J. B.; Sodergren, E. J.; Worley, K. C.; Rives, C. M.; Gorrell, J. H.; Metzker, M. L.; Naylor, S. L.; Kucherlapati, R. S.; Nelson, D. L.; Weinstock, G. M.; Sakaki, Y.; Fujiyama, A.; Hattori, M.; Yada, T.; Toyoda, A.; Itoh, T.; Kawagoe, C.; Watanabe, H.; Totoki, Y.; Taylor, T.; Weissenbach, J.; Heilig, R.; Saurin, W.; Artiguenave, F.; Brottier, P.; Bruls, T.; Pelletier, E.; Robert, C.; Wincker, P.; Smith, D. R.; Doucette-Stamm, L.; Rubenfield, M.; Weinstock, K.; Lee, H. M.; Dubois, J.; Rosenthal, A.; Platzer, M.; Nyakatura, G.; Taudien, S.; Rump, A.; Yang, H.; Yu, J.; Wang, J.; Huang, G.; Gu, J.; Hood, L.; Rowen, L.; Madan, A.; Qin, S.; Davis, R. W.; Federspiel, N. A.; Abola, A. P.; Proctor, M. J.; Myers, R. M.; Schmutz, J.; Dickson, M.; Grimwood, J.; Cox, D. R.; Olson, M. V.; Kaul, R.; Raymond, C.; Shimizu, N.; Kawasaki, K.; Minoshima, S.; Evans, G. A.; Athanasiou, M.; Schultz, R.; Roe, B. A.; Chen, F.; Pan, H.; Ramser, J.; Lehrach, H.; Reinhardt, R.; McCombie, W. R.; de la Bastide, M.; Dedhia, N.; Blocker, H.; Hornischer, K.; Nordsiek, G.; Agarwala, R.; Aravind, L.; Bailey, J. A.; Bateman, A.; Batzoglou, S.; Birney, E.; Bork, P.; Brown, D. G.; Burge, C. B.; Cerutti, L.; Chen, H. C.; Church, D.; Clamp, M.; Copley, R. R.; Doerks, T.; Eddy, S. R.; Eichler, E. E.; Furey, T. S.; Galagan, J.; Gilbert, J. G.; Harmon, C.; Hayashizaki, Y.; Haussler, D.; Hermjakob, H.; Hokamp, K.; Jang, W.; Johnson, L. S.; Jones, T. A.; Kasif, S.; Kaspryzk, A.; Kennedy, S.; Kent, W. J.; Kitts, P.; Koonin, E. V.; Korf, I.; Kulp, D.; Lancet, D.; Lowe, T. M.; McLysaght, A.; Mikkelsen, T.; Moran, J. V.; Mulder, N.; Pollara, V. J.; Ponting, C. P.; Schuler, G.; Schultz, J.; Slater, G.; Smit, A. F.; Stupka, E.; Szustakowki, J.; Thierry-Mieg, D.; Thierry-Mieg, J.; Wagner, L.; Wallis, J.; Wheeler, R.; Williams, A.; Wolf, Y. I.; Wolfe, K. H.; Yang, S. P.; Yeh, R. F.; Collins, F.; Guyer, M. S.; Peterson, J.; Felsenfeld, A.; Wetterstrand, K. A.; Patrinos, A.Morgan, M. J. Initial sequencing and analysis of the human genome. Nature. 409:860-921, 2001. ADDRESS: Whitehead Institute for Biomedical Research, Center for Genome Research, Cambridge, Massachusetts 02142, USA. lander@genome.wi.mit.edu CORPORATE NAME: International Human Genome Sequencing Consortium. Medline UID: 21131739 21. Leung, Y. F.; Tam, P. O.; Tong, W. C.; Baum, L.; Choy, K. W.; Lam, D. S.Pang, C. P. High-throughput conformation-sensitive gel electrophoresis for discovery of SNPs. Biotechniques. 30:334-5, 338-40, 2001. ADDRESS: Chinese University of Hong Kong, Hong Kong. Medline UID: 21129374 22. Liang, K. Y. and Rathouz, P. J. Hypothesis testing under mixture models: application to genetic linkage analysis. Biometrics. 55:65-74, 1999. ADDRESS: Department of Biostatistics, School of Hygiene and Public Health, Johns Hopkins University, Baltimore, Maryland 21205, USA. kyliang@jhsph.edu. Medline UID: 21215153 23. Lin, S. Monte Carlo methods for linkage analysis of two-locus disease models. Ann Hum Genet. 64:519-32, 2000. ADDRESS: Department of Statistics, Ohio State University, Columbus 43210, USA. shili@stat.ohio-state.edu. Medline UID: 21176796 24. Lin, S.; Rogers, J. A.Hsu, J. C. A confidence-set approach for finding tightly linked genomic regions. Am J Hum Genet. 68:1219-28, 2001. ADDRESS: Department of Statistics, The Ohio State University, Columbus, OH 43210, USA. shili@stat.ohio-state.edu. Medline UID: 21205600 25. Livingstone, K. D.; Churchill, G.Jahn, M. K. Linkage mapping in populations with karyotypic rearrangements. J Hered. 91:423-8, 2000. ADDRESS: Department of Plant Breeding and Biometry, Cornell University, Ithaca, NY 14853, USA. klivings@bio.indiana.edu. Medline UID: 21085950 26. Micallef, K. P.; Cooper, M.Podlich, D. W. Using clusters of computers for large QU-GENE simulation experiments. Bioinformatics. 17:194-5, 2001. ADDRESS: School of Land and Food Sciences, The University of Queensland, Brisbane, Queensland 4072, Australia. k.micallef@mailbox.uq.edu.au. Medline UID: 21138240 27. Monier, K.; Heliot, L.; Rougeulle, C.; Heard, E.; Robert-Nicoud, M.; Vourc'h, C.; Bensimon, A.Usson, Y. Improvement of FISH mapping resolution on combed DNA molecules by iterative constrained deconvolution: a quantitative study. Cytogenet Cell Genet. 92:59-62, 2001. ADDRESS: Laboratoire DyOGen, Unite INSERM U309, Institut Albert Bonniot, La Tronche, France. kmonier@scripps.edu. Medline UID: 21203544 28. Morton, N. E.; Zhang, W.; Taillon-Miller, P.; Ennis, S.; Kwok, P. Y.Collins, A. The optimal measure of allelic association. Proc Natl Acad Sci U S A. 98:5217-21, 2001. ADDRESS: Human Genetics Research Division, Duthie Building (Mailpoint 808), Southampton General Hospital, Tremona Road, Southampton SO16 6YD, United Kingdom. nem@soton.ac.uk. Medline UID: 21221105 29. Myburg, A. A.; Remington, D. L.; O'Malley, D. M.; Sederoff, R. R.Whetten, R. W. High-throughput AFLP analysis using infrared dye-labeled primers and an automated DNA sequencer. Biotechniques. 30:348-52, 354, 356-7, 2001. ADDRESS: Forest Biotechnology Group, Box 7247, Centennial Campus, North Carolina State University, Raleigh, NC 27695, USA. aamyburg@unity.ncsu.edu. Medline UID: 21129376 30. Nietzel, A.; Rocchi, M.; Starke, H.; Heller, A.; Fiedler, W.; Wlodarska, I.; Loncarevic, I. F.; Beensen, V.; Claussen, U.Liehr, T. A new multicolor-FISH approach for the characterization of marker chromosomes: centromere-specific multicolor-FISH (cenM-FISH). Hum Genet. 108:199-204, 2001. ADDRESS: Institute of Human Genetics and Anthropology, Jena, Germany. Medline UID: 21253821 31. Pesole, G. and Saccone, C. A novel method for estimating substitution rate variation among sites in a large dataset of homologous DNA sequences. Genetics. 157:859-65, 2001. ADDRESS: Dipartimento di Fisiologia e Biochimica Generali, Universita di Milano, via Celoria 26, 20133 Milano, Italy. graziano.pesole@unimi.it. Medline UID: 21100358 32. Petes, T. D. Meiotic recombination hot spots and cold spots. Nat Rev Genet. 2:360-9, 2001. ADDRESS: Department of biology, University of North Carolina, Chapel Hill 27599-3280, USA. tompetes@email.unc.edu. Medline UID: 21231400 33. Powledge, T. M. Genomics annotation. Beyond the first draft. Sci Am. 283:16,18, 2000. Medline UID: 20486731 34. Seltman, H.; Roeder, K.Devlin, B. Transmission/disequilibrium test meets measured haplotype analysis: family-based association analysis guided by evolution of haplotypes. Am J Hum Genet. 68:1250-63, 2001. ADDRESS: Department of Statistics, Carnegie Mellon University, Pittsburgh, PA, USA. Medline UID: 21205603 35. Sun, F. Z.; Flanders, W. D.; Yang, Q. H.Zhao, H. Y. Transmission/disequilibrium tests for quantitative traits. Ann Hum Genet. 64:555-65, 2000. ADDRESS: Department of Mathematics, University of Southern California, Los Angeles 90089, USA. fsun@hto.usc.edu. Medline UID: 21176798 36. Wang, J. Optimal marker-assisted selection to increase the effective size of small populations. Genetics. 157:867-74, 2001. 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Medline UID: 21100362 **************************************************************************** ****************** Lyman/Margaret Crittenden Phone: 608-798-0791 8550 Highway 19 e-mail: crittend@itis.com Cross Plains, WI 53528-9300 USA **************************************************************************** ****************** ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -o U.S. PIG GENOME COORDINATION PROJECT - sponsored by USDA/CSREES -o WEB: http://www.genome.iastate.edu/