From crittend@itis.com Mon May 14 17:05:56 2001 Date: Mon, 14 May 2001 15:49:43 -0500 From: Lyman/Margaret Crittenden To: Multiple Recipients of Subject: Mapping References, May, 2001 Resent-Date: 14 May 2001 20:51:24 -0000 Resent-From: angenmap@genome.ansci.iastate.edu Resent-cc: recipient list not shown: ; [ AnGenMap Discussion Mailing List - Mail distributed to 838 members ] [ INFO: http://www.genome.iastate.edu/community/discuss.html ] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ JOURNAL REFS. (MAPPING METHODS AND REVIEWS) NLM 5/01 1. Bader, J. S. The relative power of SNPs and haplotype as genetic markers for association tests. Pharmacogenomics. 2:11-24, 2001. ADDRESS: CuraGen Corp., 555 Long Wharf Drive, New Haven, CT 06511, USA. jsbader@curagen.com. Medline UID: 21156760 2. Burke, H. B. Discovering patterns in microarray data. Mol Diagn. 5:349-57, 2000. ADDRESS: Bioinformatics and Computational Research Group, New York Medical College, Valhalla, NY 10595, USA. harry_burke@nymc.edu. Medline UID: 21112338 3. Byers, R. J.; Hoyland, J. A.; Dixon, J.Freemont, A. J. Subtractive hybridization--genetic takeaways and the search for meaning. Int J Exp Pathol. 81:391-404, 2000. ADDRESS: Laboratory Medicine Academic Group, University of Manchester, Manchester, UK. r.byers@man.ac.uk. Medline UID: 21194864 4. Cargill, M. and Daley, G. Q. Mining for SNPs: putting the common variants--common disease hypothesis to the test. Pharmacogenomics. 1:27-37, 2000. ADDRESS: Whitehead Institute/MIT Center for Genome Research, Cambridge, Massachusetts 02139, USA. Medline UID: 21156009 5. Carlson, C. S.; Newman, T. L.Nickerson, D. A. SNPing in the human genome. Curr Opin Chem Biol. 5:78-85, 2001. ADDRESS: Department of Molecular Biotechnology, University of Washington, Box 357330, Seattle, WA 98195-7330, USA. peterpan@mbt.washington.edu. Medline UID: 21111914 6. Chasman, D. and Adams, R. M. Predicting the functional consequences of non-synonymous single nucleotide polymorphisms: structure-based assessment of amino acid variation. J Mol Biol. 307:683-706, 2001. ADDRESS: Variagenics, 60 Hampshire Street, Cambridge, MA 02144, USA. dchasman@variagenics.com. Medline UID: 21154149 7. Fors, L.; Lieder, K. W.; Vavra, S. H.Kwiatkowski, R. W. Large-scale SNP scoring from unamplified genomic DNA. Pharmacogenomics. 1:219-29, 2000. ADDRESS: Third Wave Technologies Inc, Madison, WI 53719, USA. lfors@twt.com. Medline UID: 21151091 8. Friedman, N.; Linial, M.; Nachman, I.Pe'er, D. Using Bayesian networks to analyze expression data. J Comput Biol. 7:601-20, 2000. ADDRESS: School of Computer Science and Engineering, Hebrew University, Jerusalem, Israel. nir@cs.huji.ac.il. Medline UID: 20557878 9. Gastwirth, J. L. and Freidlin, B. On power and efficiency robust linkage tests for affected sibs. Ann Hum Genet. 64:443-53, 2000. ADDRESS: Division of Cancer Genetics and Epidemiology, National Cancer Institute, Bethesda, MD 20892, USA. jlgast@gwu.edu. Medline UID: 21176862 10. Hanson, R. L.; Kobes, S.; Lindsay, R. S.Knowler, W. C. Assessment of parent-of-origin effects in linkage analysis of quantitative traits. Am J Hum Genet. 68:951-62, 2001. ADDRESS: Diabetes and Arthritis Epidemiology Section, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Phoenix, AZ 85014, USA. rhanson@phx.niddk.nih.gov. Medline UID: 21152284 11. Heber, S.; Stoye, J.; Frohme, M.; Hoheisel, J.Vingron, M. Contig selection in physical mapping. J Comput Biol. 7:395-408, 2000. ADDRESS: German Cancer Research Center (DKFZ), Theoretical Bioinformatics (H0300), Heidelberg, Germany. s.heber@dkfz-heidelberg.de. Medline UID: 20557867 12. Henegariu, O.; Bray-Ward, P.; Artan, S.; Vance, G. H.; Qumsyieh, M.Ward, D. C. Small marker chromosome identification in metaphase and interphase using centromeric multiplex fish (CM-FISH). Lab Invest. 81:475-81, 2001. ADDRESS: Department of Genetics, Yale University School of Medicine, New Haven, Connecticut, USA. octavian.henegariu@yale.edu. Medline UID: 21201359 13. Hoh, J.; Wille, A.; Zee, R.; Cheng, S.; Reynolds, R.; Lindpaintner, K.Ott, J. Selecting SNPs in two-stage analysis of disease association data: a model-free approach. Ann Hum Genet. 64:413-7, 2000. ADDRESS: Laboratory of Statistical Genetics, The Rockefeller University, New York, USA. Medline UID: 21176859 14. Holter, N. S.; Maritan, A.; Cieplak, M.; Fedoroff, N. V.Banavar, J. R. Dynamic modeling of gene expression data. Proc Natl Acad Sci U S A. 98:1693-8, 2001. ADDRESS: Department of Physics and Center for Materials Physics, 104 Davey Laboratory, Pennsylvania State University, University Park, PA 16802, USA. Medline UID: 21117100 15. Judson, R. and Stephens, J. C. Notes from the SNP vs. haplotype front. Pharmacogenomics. 2:7-10, 2001. ADDRESS: Genaissance Pharmaceuticals, 5 Science Park, New Haven, CT 06511, USA. r.judson@genaissance.com. Medline UID: 21156759 16. Kokoris, M.; Dix, K.; Moynihan, K.; Mathis, J.; Erwin, B.; Grass, P.; Hines, B.Duesterhoeft, A. High-throughput SNP genotyping with the Masscode system. Mol Diagn. 5:329-40, 2000. ADDRESS: QIAGEN Genomics, Inc, 1725 220th St. SE, Ste 104, Bothell, WA 98021, USA. m.kokoris@qiagengenomics.com. Medline UID: 21112336 17. Lee, C.; Gisselsson, D.; Jin, C.; Nordgren, A.; Ferguson, D. O.; Blennow, E.; Fletcher, J. A.Morton, C. C. Limitations of chromosome classification by multicolor karyotyping. Am J Hum Genet. 68:1043-7, 2001. ADDRESS: Department of Obstetrics and Gynecology, Brigham and Women's Hospital, Boston, MA 02115, USA. Medline UID: 21152291 18. Liang, K. Y.; Hsu, F. C.; Beaty, T. H.Barnes, K. C. Multipoint linkage-disequilibrium-mapping approach based on the case-parent trio design. Am J Hum Genet. 68:937-50, 2001. ADDRESS: Department of Biostatistics, Johns Hopkins University, Baltimore, MD 21205, USA. kyliang@jhsph.edu. Medline UID: 21152283 19. Lipsky, R. H.; Mazzanti, C. M.; Rudolph, J. G.; Xu, K.; Vyas, G.; Bozak, D.; Radel, M. Q.Goldman, D. DNA melting analysis for detection of single nucleotide polymorphisms. Clin Chem. 47:635-44, 2001. ADDRESS: Laboratory of Neurogenetics, National Institute on Alcohol Abuse and Alcoholism, National Institutes of Health, Rockville, MD 20852, USA. rlipsky@mail.nih.gov. Medline UID: 21172517 20. Markianos, K.; Daly, M. J.Kruglyak, L. Efficient multipoint linkage analysis through reduction of inheritance space. Am J Hum Genet. 68:963-77, 2001. ADDRESS: Division of Human Biology, Fred Hutchison Cancer Research Center, Seattle, WA 98109, USA. markiano@fhcrc.org. Medline UID: 21152285 21. Marsan, L. and Sagot, M. F. Algorithms for extracting structured motifs using a suffix tree with an application to promoter and regulatory site consensus identification. J Comput Biol. 7:345-62, 2000. ADDRESS: Institut Gaspard Monge, Universite de Marne la Vallee 5. Medline UID: 20557864 22. Mitchelson, K. R. The application of capillary electrophoresis for DNA polymorphism analysis. Methods Mol Biol. 162-163:3-26, 2001. ADDRESS: Australian Genome Research Facility, University of Queensland, Brisbane, Australia. Medline UID: 21086412 23. Nelson, N. J. Microarrays have arrived: gene expression tool matures. J Natl Cancer Inst. 93:492-4, 2001. Medline UID: 21184559 24. Palm, A. K. Capillary electrophoresis of DNA fragments with replaceable low-gelling agarose gels. Methods Mol Biol. 162-163:279-90, 2001. ADDRESS: Molecular Sciences, AstraZeneca R&D Lund, Lund, Sweden. Medline UID: 21086429 25. Pearce, M. J. and Watson, N. D. Quality control of nucleotides and primers for PCR. Methods Mol Biol. 162-163:347-52, 2001. ADDRESS: Detection, Defence Evaluation and Research Agency, CBD Porton Down, Salisbury, Wiltshire, UK. Medline UID: 21086434 26. Riley, J. H.; Allan, C. J.; Lai, E.Roses, A. The use of single nucleotide polymorphisms in the isolation of common disease genes. Pharmacogenomics. 1:39-47, 2000. ADDRESS: UK Discovery Genetics, Glaxo Wellcome Medicines Research Centre, Stevenage, UK. jhR24535@Glaxo Wellcome.co.uk. Medline UID: 21156010 27. Shmelkov, S. V.; Visser, J. W.Belyavsky, A. V. Two-dimensional gene expression fingerprinting. Anal Biochem. 290:26-35, 2001. ADDRESS: New York Blood Center, 310 East 67th Street, New York, New York 10021, USA. Medline UID: 21091162 28. Sirko-Osadsa, D. A.; Cassidy, S. B.; Depinet, T. W.; Robin, N. H.; Limwongse, C.Schwartz, S. Molecular refinement of karyotype: beyond the cytogenetic band. Genet Med. 1:254-61, 1999. ADDRESS: Department of Genetics and Center for Human Genetics, Case Western Reserve University School of Medicine and University Hospitals of Cleveland, Ohio 44106-9959, USA. Medline UID: 21156041 29. Tachdjian, G.; Aboura, A.; Lapierre, J. M.Viguie, F. Cytogenetic analysis from DNA by comparative genomic hybridization. Ann Genet. 43:147-54, 2000. ADDRESS: Service de biologie du developpement et de la reproduction-cytogenetique, hopital Antoine-Beclere, 92140 Clamart, France. gerard.tachdjian@abc.ap-hop-paris.fr. Medline UID: 21091575 30. Tillib, S. V. and Mirzabekov, A. D. Advances in the analysis of DNA sequence variations using oligonucleotide microchip technology. Curr Opin Biotechnol. 12:53-8, 2001. ADDRESS: Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 32 Vavilov Str., Moscow 117984, Russia. stillib@cityline.ru. Medline UID: 21093871 31. Umek, R. M.; Lin, S. S.; Chen Yp, Y.; Irvine, B.; Paulluconi, G.; Chan, V.; Chong, Y.; Cheung, L.; Vielmetter, J.Farkas, D. H. Bioelectronic detection of point mutations using discrimination of the H63D polymorphism of the Hfe gene as a model. Mol Diagn. 5:321-8, 2000. ADDRESS: Clinical Micro Sensors Division of Motorola, Inc, 757 South Raymond Ave., Pasadena, CA 91105, USA. Medline UID: 21112335 32. Vidal, M. A biological atlas of functional maps. Cell. 104:333-9, 2001. ADDRESS: Dana-Farber Cancer Institute and, Department of Genetics, Harvard Medical School, 44 Binney Street, Boston, MA 02115, USA. marc_vidal@dfci.harvard.edu. Medline UID: 21135256 33. Vohradsky, J. Neural network model of gene expression. FASEB J. 15:846-54, 2001. ADDRESS: Institute of Microbiology, CAS,142 20 Prague, Czech Republic. vohr@biomed.cas.cz. Medline UID: 21159851 34. Wendl, M. C.; Marra, M. A.; Hillier, L. W.; Chinwalla, A. T.; Wilson, R. K.Waterston, R. H. Theories and applications for sequencing randomly selected clones. Genome Res. 11:274-80, 2001. ADDRESS: Genome Sequencing Center, Washington University, St. Louis, Missouri 63108, USA. mwendl@watson.wustl.edu. Medline UID: 21109937 35. Werner, T. Cluster analysis and promoter modelling as bioinformatics tools for the identification of target genes from expression array data. Pharmacogenomics. 2:25-36, 2001. ADDRESS: Genomatix Software GmbH, Karlstrasse 55, D-80333 Munich, Germany. werner@gsf.de. Medline UID: 21156761 36. Wicks, J. and Wilson, S. R. Evaluating linkage and linkage disequilibrium: use of excess sharing and transmission disequilibrium methods in affected sib pairs. Ann Hum Genet. 64:419-32, 2000. ADDRESS: Centre for Mathematics and its Applications, Australian National University, Canberra, ACT. jw@maths.uq.edu.au. Medline UID: 21176860 **************************************************************************** ****************** 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/