From crittend@itis.com Tue Oct 12 08:59:22 1999 Date: Mon, 11 Oct 1999 18:56:27 -0500 (CDT) From: Lyman / Margaret Crittenden To: Multiple Recipients of Subject: October, 1999 Mapping References Resent-Date: Mon, 11 Oct 1999 18:56:27 -0500 (CDT) Resent-From: angenmap@genome.ansci.iastate.edu ************************************************************************* AnGenMap Discussion Mailing List | Mail distributed to ~600 members - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - INFO: http://www.genome.iastate.edu/community/discuss.html ************************************************************************* These are references for October, 1999 using a new search strategey for the PubMed version of Medline. I hope they have at least as good coverage as the earlier lists. Let me know if we are missing important general references. Any comments are welcome. It is reltively to change the current search strategy. JOURNAL REFS. (MAPPING METHODS AND REVIEWS) PM 10/99 1. Abreu, P. C.; Greenberg, D. A.Hodge, S. E. Direct power comparisons between simple LOD scores and NPL scores for linkage analysis in complex diseases. Am J Hum Genet. 65:847-57, 1999. ADDRESS: Division of Biostatistics, School of Public Health, Columbia University, N.Y., USA. Medline UID: 99375037 2. Adhami, F.; Muller, S.Hauser, M. T. Nonradioactive labeling of large DNA fragments for genome walking, RFLP and northern blot analysis. Biotechniques. 27:314-20, 1999. ADDRESS: University of Agricultural Sciences, Vienna, Austria. Medline UID: 99386288 3. Bhat, A.; Heath, S. C.Ott, J. Heterogeneity for multiple disease loci in linkage analysis. Hum Hered. 49:229-31, 1999. ADDRESS: The Rockefeller University, New York, NY 10021-6399, USA. Medline UID: 99367388 4. Boulay, J. L.; Reuter, J.; Ritschard, R.; Terracciano, L.; Herrmann, R.Rochlitz, C. Gene dosage by quantitative real-time PCR. Biotechniques. 27:228-30, 232, 1999. ADDRESS: Department of Research, University Hospital of Basel, Switzerland. boulay@ubaclu.unibas.ch. Medline UID: 99386270 5. Bovo, D.; Rugge, M.Shiao, Y. H. Origin of spurious multiple bands in the amplification of microsatellite sequences. Mol Pathol. 52:50-1, 1999. ADDRESS: Department of Pathology, University of Padova, Italy. Medline UID: 99368714 6. Chen, J. Z. and Hebert, P. D. Intraindividual sequence diversity and a hierarchical approach to the study of mitochondrial DNA mutations. Mutat Res. 434:205-17, 1999. ADDRESS: Department of Zoology, University of Guelph, Ontario, Canada. jjchen@coh.org. Medline UID: 99416046 7. =09 Terminal branch haplotype analysis: a novel approach to investigate newly arisen variants of mitochondrial DNA in natural populations. Mutat Res. 434:219-31, 1999. ADDRESS: Department of Zoology, University of Guelph, ON, Canada. jjchen@coh.org. Medline UID: 99416047 8. Chen, Z. Q.; Lautenberger, J. A.; Lyons, L. A.; McKenzie, L.O'Brien, S.= J. A human genome map of comparative anchor tagged sequences. J Hered. 90:477-84, 1999. ADDRESS: Intramural Research Support Program, SAIC Frederick, National Cancer Institute, Maryland, USA. Medline UID: 99414793 9. Cohen, B. B.; Anderson, V. A.Gillespie, K. Artefactual allotyping related to DNA source, concentration and the number of PCR cycles. Dis Markers. 14:165-7, 1998. ADDRESS: University of St. Andrews, St. Andrews Fife, UK. Medline UID: 99356483 10. Dubiley, S.; Kirillov, E.Mirzabekov, A. Polymorphism analysis and gene detection by minisequencing on an array of gel-immobilized primers. Nucleic Acids Res. 27:e19, 1999. ADDRESS: Joint Human Genome Program, Engelhardt Institute of Molecular Biology, 32 Vavilov Str., Moscow 117984, Russia. Medline UID: 99403373 11. Geisler, R.; Rauch, G. J.; Baier, H.; van Bebber, F.; Brobeta, L.; Dekens, M. P.; Finger, K.; Fricke, C.; Gates, M. A.; Geiger, H.; Geiger-Rudolph, S.; Gilmour, D.; Glaser, S.; Gnugge, L.; Habeck, H.; Hingst, K.; Holley, S.; Keenan, J.; Kirn, A.; Knaut, H.; Lashkari, D.; Maderspacher, F.; Martyn, U.; Neuhauss, S.; Haffter, P.^=7Fy=80=7F=062. A radiation hybrid map of the zebrafish genome. Nat Genet. 23:86-9, 1999. ADDRESS: Max-Planck-Institut fur Entwicklungsbiologie, Spemannstr. 35, 72076 Tubingen, Germany. robert.geisler@tuebingen.mpg.de. Medline UID: 99400559 12. Gilbert, F. Disease genes and chromosomes: disease maps of the human genome. Genet Test. 1:225-9, 1997-1998. ADDRESS: Cornell University Medical College, New York, NY 10021, USA. fgilbert@strang.org. Medline UID: 99393916 13. Goldin, L. R.; Chase, G. A.Wilson, A. F. Regional inference with averaged P values increases the power to detect= linkage. Genet Epidemiol. 17:157-64, 1999. ADDRESS: Genetic Epidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, Bethesda, Maryland 20892- 7236, USA. goldinl@exchange.nih.gov. Medline UID: 99376867 14. Gomez-Raya, L. and Klemetsdal, G. Two-stage selection strategies utilizing marker-quantitative trait locus information and individual performance. J Anim Sci. 77:2008-18, 1999. ADDRESS: Department of Animal Science, Agricultural University of Norway,= As. Medline UID: 99389071 15. Gotoh, O. Multiple sequence alignment: algorithms and applications. Adv Biophys. 36:159-206, 1999. ADDRESS: Saitama Cancer Center Research Institute, Japan. Medline UID: 99392371 16. Haberl, M. and Tautz, D. Comparative allele sizing can produce inaccurate allele size differences for microsatellites. Mol Ecol. 8:1347-9, 1999. ADDRESS: Zoologisches Institut, Universitat Munchen, Munchen, Germany. haberl@mailer.uni-marburg.de. Medline UID: 99376753 17. Halpern, J. and Whittemore, A. S. Multipoint linkage analysis. A cautionary note. Hum Hered. 49:194-6, 1999. ADDRESS: Department of Health Research and Policy, Stanford University School of Medicine, Stanford, CA 94305-5405, USA. Medline UID: 99367383 18. Hawken, R. J.; Murtaugh, J.; Flickinger, G. H.; Yerle, M.; Robic, A.; Milan, D.; Gellin, J.; Beattie, C. W.; Schook, L. B.Alexander, L. J. A first-generation porcine whole-genome radiation hybrid map. Mamm Genome. 10:824-30, 1999. ADDRESS: Program on Comparative Genomics, College of Veterinary Medicine, University of Minnesota, 1365 Gortner Avenue, St. Paul, Minnesota 55108,= USA. Medline UID: 99359846 19. Herbergs, J.; Siwek, M.; Crooijmans, R. P.; Van der Poel, J. J.Groenen, M. A. Multicolour fluorescent detection and mapping of AFLP markers in chicken (Gallus domesticus). Anim Genet. 30:274-85, 1999. ADDRESS: Animal Breeding and Genetics Group, Wageningen Institute of Animal Sciences, Wageningen Agricultural University, The Netheralnds. Medline UID: 99397033 20. Hukriede, N. A.; Joly, L.; Tsang, M.; Miles, J.; Tellis, P.; Epstein, J. A.; Barbazuk, W. B.; Li, F. N.; Paw, B.; Postlethwait, J. H.; Hudson, T. J.; Zon, L. I.; McPherson, J. D.; Chevrette, M.; Dawid, I. B.; Johnson, S. L.Ekker, M. Radiation hybrid mapping of the zebrafish genome. Proc Natl Acad Sci U S A. 96:9745-50, 1999. ADDRESS: Laboratory of Molecular Genetics and Unit on Biological Computation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA. Medline UID: 99380590 21. Jakupciak, J. P. and Wells, R. D. Genetic instabilities in (CTG.CAG) repeats occur by recombination. J Biol Chem. 274:23468-79, 1999. ADDRESS: Institute of Biosciences and Technology, Center for Genome Research, Texas A&M University, Texas Medical Center, Houston, Texas 77030,= USA. Medline UID: 99367480 22. Jeffreys, A. J.; Barber, R.; Bois, P.; Buard, J.; Dubrova, Y. E.; Grant, G.; Hollies, C. R.; May, C. A.; Neumann, R.; Panayi, M.; Ritchie, A. E.; Shone, A. C.; Signer, E.; Stead, J. D.Tamaki, K. Human minisatellites, repeat DNA instability and meiotic recombination. Electrophoresis. 20:1665-75, 1999. ADDRESS: Department of Genetics, University of Leicester, UK. ajj@le.ac.uk. Medline UID: 99361783 23. Jensen, C. S. and Kong, A. Blocking Gibbs sampling for linkage analysis in large pedigrees with many= loops. Am J Hum Genet. 65:885-901, 1999. ADDRESS: Department of Mathematics and Computer Science, Institute for Electronic Systems, Aalborg University, Aalborg, Denmark. claus@cs. auc.dk. Medline UID: 99375040 24. Kuklin, A.; Munson, K.; Gjerde, D.; Haefele, R.Taylor, P. Detection of single-nucleotide polymorphisms with the WAVE DNA fragment analysis system. Genet Test. 1:201-6, 1997-1998. ADDRESS: Transgenomic, Inc., San Jose, CA 95131, USA. Medline UID: 99393912 25. Li Vigni, R.; Bianchi, U. A.; Carosi, G.; Lomini, M.; Falchetti, M.; Callea, F.Pecorelli, S. Successful application of indirect in-situ polymerase chain reaction to tissues fixed in Bouin's solution. Histopathology. 35:134-43, 1999. ADDRESS: Department of Obstetrics and Gynaecology, University of Brescia,= Italy. Medline UID: 99390249 26. Mahairas, G. G.; Wallace, J. C.; Smith, K.; Swartzell, S.; Holzman, T.; Keller, A.; Shaker, R.; Furlong, J.; Young, J.; Zhao, S.; Adams, M. D.Hood, L. Sequence-tagged connectors: a sequence approach to mapping and scanning the human genome. Proc Natl Acad Sci U S A. 96:9739-44, 1999. ADDRESS: University of Washington High-Throughput Sequencing Center, 401 Queen Anne Avenue North, Seattle, WA 98109, USA. Medline UID: 99380589 27. McPeek, M. S. and Strahs, A. Assessment of linkage disequilibrium by the decay of haplotype sharing, with application to fine-scale genetic mapping. Am J Hum Genet. 65:858-75, 1999. ADDRESS: Department of Statistics, University of Chicago, Chicago, IL 60637, USA. mcpeek@galton.uchicago.edu. Medline UID: 99375038 28. Mitchelson, K. R.; Drenth, J.; Duong, H.Chaparro, J. X. Direct sequencing of RAPD fragments using 3'-extended oligonucleotide primers and dye terminator cycle-sequencing. Nucleic Acids Res. 27:e28, 1999. ADDRESS: ForBio Research Pty Ltd, 52 Douglas Street, Milton, Queensland 4064, Australia. keithmitchelson@hotmail.com. Medline UID: 99412575 29. Nusbaum, C.; Slonim, D. K.; Harris, K. L.; Birren, B. W.; Steen, R. G.; Stein, L. D.; Miller, J.; Dietrich, W. F.; Nahf, R.; Wang, V.; Merport, O.; Castle, A. B.; Husain, Z.; Farino, G.; Gray, D.; Anderson, M. O.; Devine, R.; Horton, L. T. Jr; Ye, W.; Wu, X.; Kouyoumjian, V.; Zemsteva, I. S.; Wu, Y.; Collymore, A. J.; Courtney, D. F.^=7Fy=80=7F=062. A YAC-based physical map of the mouse genome. Nat Genet. 22:388-93, 1999. ADDRESS: Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA. Medline UID: 99364421 30. Pal, D. and Chakrabarti, P. Graphical representation of the salient conformational features of protein residues. Protein Eng. 12:523-6, 1999. ADDRESS: Department of Biochemistry, Bose Institute, P-1/12 CIT Scheme VIIM, Calcutta 700 054, India. Medline UID: 99365419 31. Pogribny, I.; Yi, P.James, S. J. A sensitive new method for rapid detection of abnormal methylation patterns in global DNA and within CpG islands. Biochem Biophys Res Commun. 262:624-8, 1999. ADDRESS: Division of Biochemical Toxicology, National Center for Toxicological Research, Jefferson, Arkansas, 72079, USA. Medline UID: 99400422 32. Pollack, J. R.; Perou, C. M.; Alizadeh, A. A.; Eisen, M. B.; Pergamenschikov, A.; Williams, C. F.; Jeffrey, S. S.; Botstein, D.Brown, P.= O. Genome-wide analysis of DNA copy-number changes using cDNA microarrays. Nat Genet. 23:41-6, 1999. ADDRESS: Howard Hughes Medical Institute, Stanford Medical Center, Stanford, California 94305, USA. Medline UID: 99400550 33. Priat, C.; Jiang, Z. H.; Renier, C.; Andr, C.Galibert, F. Characterization of 463 type I markers suitable for dog genome mapping. Mamm Genome. 10:803-13, 1999. ADDRESS: Laboratoire de Biochimie et Biologie Moleculaire, UPR41CNRS "Recombinaisons Genetiques", Faculte de Medecine, 2 avenue du Professeur Leon Bernard, 35043 Rennes cedex, France. Medline UID: 99359844 34. Qu, Y.; Whetsell, L.Carpenter, N. J. Technical pitfalls encountered in PCR quantification using microsatellites. Genet Test. 1:213-5, 1997-1998. ADDRESS: H.A. Chapman Institute of Medical Genetics, Tulsa, OK 74135, USA. Medline UID: 99393914 35. Riquet, J.; Coppieters, W.; Cambisano, N.; Arranz, J. J.; Berzi, P.; Davis, S. K.; Grisart, B.; Farnir, F.; Karim, L.; Mni, M.; Simon, P.; Taylor, J. F.; Vanmanshoven, P.; Wagenaar, D.; Womack, J. E.Georges, M. Fine-mapping of quantitative trait loci by identity by descent in outbred populations: application to milk production in dairy cattle. Proc Natl Acad Sci U S A. 96:9252-7, 1999. ADDRESS: Department of Genetics, Faculty of Veterinary Medicine, University of Liege (B43), 20 Bd de Colonster, 4000-Liege, Belgium. Medline UID: 99362744 36. Roberts, S. B.; MacLean, C. J.; Neale, M. C.; Eaves, L. J.Kendler, K.= S. Replication of linkage studies of complex traits: an examination of variation in location estimates. Am J Hum Genet. 65:876-84, 1999. ADDRESS: Department of Human Genetics, Virginia Institute of Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA 23298-0126, USA. Medline UID: 99375039 37. Rubinsztein, D. C.; Amos, B.Cooper, G. Microsatellite and trinucleotide-repeat evolution: evidence for mutational bias and different rates of evolution in different lineages. Philos Trans R Soc Lond B Biol Sci. 354:1095-9, 1999. ADDRESS: Department of Medical Genetics, Cambridge Institute for Medical Research, Addenbrooke's Hospital, UK. dcr1000@cus.cam.ac.uk. Medline UID: 99363156 38. Schermelleh, L.; Thalhammer, S.; Heckl, W.; Posl, H.; Cremer, T.; Schutze, K.Cremer, M. Laser microdissection and laser pressure catapulting for the generation of chromosome-specific paint probes. Biotechniques. 27:362-7, 1999. ADDRESS: Ludwig Maximilians Universitat, Munich, Germany. Medline UID: 99386295 39. Schmerer, W. M.; Hummel, S.Herrmann, B. Optimized DNA extraction to improve reproducibility of short tandem repeat genotyping with highly degraded DNA as target. Electrophoresis. 20:1712-6, 1999. ADDRESS: Historical Anthropology and Human Ecology, Institute for Zoology and Anthropology, Gottingen, Germany. wschmer@gwdg.de. Medline UID: 99361789 40. Silva, F.; Gusmao, L.Amorim, A. Segregation analysis of tetra- and pentanucleotide short tandem repeat polymorphisms: deviation from Mendelian expectations. Electrophoresis. 20:1697-701, 1999. ADDRESS: IPATIMUP-Instituto de Patologia e Imunologia Molecular da Universidade do Porto, Portugal. fsilva@ipatimup.pt. Medline UID: 99361786 41. Wei, K.; Wei, S.; Moralejo, D. H.; Yamada, T.; Ogino, T.Matsumoto, K. An efficient multiplex PCR suitable for large scale typing in linkage= mapping. J Vet Med Sci. 61:849-51, 1999. ADDRESS: Institute for Animal Experimentation, University of Tokushima School of Medicine, Japan. Medline UID: 99385295 ********************************************************************* Lyman B. Crittenden Phone: 608-798-0791 Margaret H. Crittenden 8550 Highway 19, Cross Plains WI 53528-9300, USA e-mail: crittend@itis.com ********************************************************************* +--------------------------------------+--------------------------------+ | U.S. PIG GENOME COORDINATION PROJECT | Paid for by funds from the | | WEB: http://www.genome.iastate.edu | NRSP8 USDA /CSREES sponsored | | LIST: angenmap@db.genome.iastate.edu | PigGenome Coordination Program | +--------------------------------------+--------------------------------+