From crittend@itis.com Thu Jan 1 15:15:16 2004 Date: Thu, 01 Jan 2004 12:01:30 -0800 From: Lyman/Margaret Crittenden To: Multiple Recipients of Subject: Revised December, 2003 Genomics references Resent-Date: 1 Jan 2004 18:07:50 -0000 Resent-From: angenmap@genome.ansci.iastate.edu Resent-cc: recipient list not shown: ; [ AnGenMap Discussion Mailing List - Mail distributed to 998 members ] [ INFO: http://www.genome.iastate.edu/community/discuss.html ] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ This is a revised version of the December references with the Medline UID included. This can be put in the Pub Med search system to find more information about the reference including the abstract in some cases. JOURNAL REFS. REVISED (GENOMICS METHODS AND REVIEWS) NLM 12/03 1. Albers, J.; Grunwald, T.; Nebling, E.; Piechotta, G.Hintsche, R. Electrical biochip technology--a tool for microarrays and continuous monitoring. Anal Bioanal Chem. 377:521-7, 2003. ADDRESS: Fraunhofer Institut fur Siliziumtechnologie (ISIT), Fraunhoferstrasse 1, 25524, Itzehoe, Germany. Medline UID: 14504676 2. Bartlett, J. M. Differential display: a technical overview. Methods Mol Biol. 226:217-24, 2003. ADDRESS: Division of Cancer and Molecular Pathology, University Department of Surgery, Glasgow Royal Infirmary, United Kingdom. Medline UID: 12958504 3. Bilke, S.; Breslin, T.Sigvardsson, M. Probabilistic estimation of microarray data reliability and underlying gene expression. BMC Bioinformatics. 4:40, 2003. ADDRESS: Complex Systems Division, Department of Theoretical Physics, University of Lund, Solvegatan 14A, SE-223 62 Lund, Sweden. sven@thep.lu.se. Medline UID: 12967349 4. Edwards, J. and Bartlett, J. M. Mutation and polymorphism detection: a technical overview. Methods Mol Biol. 226:287-94, 2003. ADDRESS: University Department of Surgery, Glasgow Royal Infirmary, United Kingdom. Medline UID: 12958510 5. Ekstrom, P. O.; Bjorheim, J.; Gaudernack, G.Giercksky, K. E. Population screening of single-nucleotide polymorphisms exemplified by analysis of 8000 alleles. J Biomol Screen. 7:501-6, 2002. ADDRESS: Department of Surgical Oncology, Institute for Cancer Research, The Norwegian Radium Hospital, Oslo, Norway. Medline UID: 14599347 6. Guimil, R.; Beier, M.; Scheffler, M.; Rebscher, H.; Funk, J.; Wixmerten, A.; Baum, M.; Hermann, C.; Tahedl, H.; Moschel, E.; Obermeier, F.; Sommer, I.; Buchner, D.; Viehweger, R.; Burgmaier, J.; Stahler, C. F.; Muller, M.Stahler, P. F. Geniom technology--the benchtop array facility. Nucleosides Nucleotides Nucleic Acids. 22:1721-3, 2003. ADDRESS: Febit AG, Mannheim, Germany. ramon.guimil@febit.de. Medline UID: 14565504 7. Han, M. and Robinson, M. A. PCR-SSCP analysis of polymorphism: a simple and sensitive method for detecting differences between short segments of DNA. Methods Mol Biol. 226:327-34, 2003. ADDRESS: Transplantation Immunology, Department of Internal Medicine, UT Southwestern Medical Center, Dallas, TX, USA. Medline UID: 12958517 8. Healy, J.; Thomas, E. E.; Schwartz, J. T.Wigler, M. Annotating large genomes with exact word matches. Genome Res. 13:2306-15, 2003. ADDRESS: Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA. healy@cshl.edu. Medline UID: 12975312 9. Jahn-Hofmann, K.; Holzhey, N.; Ellinger, T.Engels, J. W. A new concept for DNA-arrays. Nucleosides Nucleotides Nucleic Acids. 22:1479-82, 2003. ADDRESS: Institut fur Organische Chemie und Chemische Biologie, Johann-Wolfgang-Goethe Universitat, Frankfurt am Main, Germany. Medline UID: 14565447 10. Kankainen, M. and Wong, G. DANCER: a program for digital anatomical reconstruction of gene expression data. Nucleic Acids Res. 31:e132, 2003. ADDRESS: Laboratory of Functional Genomics and Bioinformatics, Department of Neurobiology, A.I. Virtanen Institute for Molecular Sciences, University of Kuopio, PO Box 1627, FIN-70211, Kuopio, Finland. Medline UID: 14576332 11. Khalturin, K.; Kuznetsov, S.Bosch, T. C. PCR fluorescence differential display. Methods Mol Biol. 226:237-44, 2003. ADDRESS: Zoological Institute, University of Kiel, Germany. Medline UID: 12958506 12. Laayoun, A.; Sothier, I.; Menou, L.; Bernal-Mendez, E.; Kotera, M.; Bourget, C.; Trevisiol, E.; Lhomme, J.Troesch, A. Labeling during cleavage of nucleic acids for their detection on DNA chips. Nucleosides Nucleotides Nucleic Acids. 22:649-52, 2003. ADDRESS: BioMerieux, Advanced Technology, Chemin de l'Orme, Marcy l'Etoile, France. ali.laayoun@eu.biomerieux.com. Medline UID: 14565245 13. Liu, H.; Li, J.Wong, L. A comparative study on feature selection and classification methods using gene expression profiles and proteomic patterns. Genome Inform Ser Workshop Genome Inform. 13:51-60, 2002. ADDRESS: Laboratories for Information Technology, 21 Heng Mui Keng Terr, 119613 Singapore. huiqing@lit.a-star.edu.sg. Medline UID: 14571374 14. Lovmar, L.; Fredriksson, M.; Liljedahl, U.; Sigurdsson, S.Syvanen, A. C. Quantitative evaluation by minisequencing and microarrays reveals accurate multiplexed SNP genotyping of whole genome amplified DNA. Nucleic Acids Res. 31:e129, 2003. ADDRESS: Molecular Medicine, Department of Medical Sciences, Entrance 70, 3rd Floor, Research Department 2, Uppsala University Hospital, SE-75185 Uppsala, Sweden. Medline UID: 14576329 15. Lucito, R.; Healy, J.; Alexander, J.; Reiner, A.; Esposito, D.; Chi, M.; Rodgers, L.; Brady, A.; Sebat, J.; Troge, J.; West, J. A.; Rostan, S.; Nguyen, K. C.; Powers, S.; Ye, K. Q.; Olshen, A.; Venkatraman, E.; Norton, L.Wigler, M. Representational oligonucleotide microarray analysis: a high-resolution method to detect genome copy number variation. Genome Res. 13:2291-305, 2003. ADDRESS: Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA. lucito@cshl.org. Medline UID: 12975311 16. Mattick, J. S. Challenging the dogma: the hidden layer of non-protein-coding RNAs in complex organisms. Bioessays. 25:930-9, 2003. ADDRESS: ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, University of Queensland, St. Lucia QLD 4072, Australia. j.mattick@imb.uq.edu.au. Medline UID: 14505360 17. Moreau, Y.; Aerts, S.; De Moor, B.; De Strooper, B.Dabrowski, M. Comparison and meta-analysis of microarray data: from the bench to the computer desk. Trends Genet. 19:570-7, 2003. ADDRESS: Department of Electrical Engineering ESAT-SCD, Katholieke Universiteit Leuven, Kasteelpark Arenberg 10, 3001, Heverlee (Leuven), Belgium. moreau@esat.kuleuven.ac.be. Medline UID: 14550631 18. Mousses, S.; Caplen, N. J.; Cornelison, R.; Weaver, D.; Basik, M.; Hautaniemi, S.; Elkahloun, A. G.; Lotufo, R. A.; Choudary, A.; Dougherty, E. R.; Suh, E.Kallioniemi, O. RNAi microarray analysis in cultured mammalian cells. Genome Res. 13:2341-7, 2003. ADDRESS: Cancer Drug Development Laboratory, Translational Genomics Research Institute (TGen), Gaithersburg, Maryland 20878, USA. smousses@tgen.org. Medline UID: 14525932 19. Nagarajan, R. Intensity-based segmentation of microarray images. IEEE Trans Med Imaging. 22:882-9, 2003. ADDRESS: Center on Aging, University of Arkansas for Medical Sciences, Little Rock, AR 72205, USA. nagarajanradhakrish@uams.edu. Medline UID: 12906242 20. Nakashima, H.; Akahoshi, M.Tanaka, Y. Mutation detection using RT-PCR-RFLP. Methods Mol Biol. 226:319-22, 2003. ADDRESS: Medicine and Biosystemic Science, Kyushu University Graduate, School of Medical Sciences, Fukuoka, Japan. Medline UID: 12958515 21. Noda, H.; Kohara, Y.; Okano, K.Kambara, H. Automated bead alignment apparatus using a single bead capturing technique for fabrication of a miniaturized bead-based DNA probe array. Anal Chem. 75:3250-5, 2003. ADDRESS: Hitachi, Ltd., Central Research Laboratory, 1-280 Higashi-Koigakubo, Kokubunji, Tokyo 185-8601, Japan. noda-h@crl.hitachi.co.jp. Medline UID: 12964776 22. Oien, K. A. Serial analysis of gene expression. Methods Mol Biol. 226:271-84, 2003. ADDRESS: CRC Department of Medical Oncology, University of Glasgow, UK. Medline UID: 12958509 23. Park, T.; Yi, S. G.; Kang, S. H.; Lee, S.; Lee, Y. S.Simon, R. Evaluation of normalization methods for microarray data. BMC Bioinformatics. 4:33, 2003. ADDRESS: Department of Statistics, Seoul National University, Seoul, Korea. tspark@stats.snu.ac.kr. Medline UID: 12950995 24. Reese, M. O.; van Dam, R. M.; Scherer, A.Quake, S. R. Microfabricated fountain pens for high-density DNA arrays. Genome Res. 13:2348-52, 2003. ADDRESS: Department of Applied Physics, California Institute of Technology, Pasadena, California 91125, USA. Medline UID: 12975313 25. Ringquist, S.; Rondeau, G.; Risques, R. A.; Higashiyama, T.; Wang, Y. P.; Porwollik, S.; Boyle, D.; McClelland, M.Welsh, J. Microarray analysis using RNA arbitrarily primed PCR. Methods Mol Biol. 226:245-54, 2003. ADDRESS: Sidney Kimmel Cancer Center, San Diego, CA, USA. Medline UID: 12958507 26. Rithidech, K. and Dunn, J. J. Combining multiplex and touchdown PCR for microsatellite analysis. Methods Mol Biol. 226:295-300, 2003. ADDRESS: Department of Pathology, State University of New York at Stony Brook, USA. Medline UID: 12958511 27. Tellier, R.; Bukh, J.; Emerson, S. U.Purcell, R. H. Long PCR methodology. Methods Mol Biol. 226:173-8, 2003. ADDRESS: Department of Paediatric Laboratory Medicine, The Hospital for Sick Children, Toronto, Ontario, Canada. Medline UID: 12958498 28. Wenzel, T.; Elssner, T.; Fahr, K.; Bimmler, J.; Richter, S.; Thomas, I.Kostrzewa, M. Genosnip: SNP genotyping by MALDI-TOF MS using photocleavable oligonucleotides. Nucleosides Nucleotides Nucleic Acids. 22:1579-81, 2003. ADDRESS: Bruker Daltonik GmbH, Leipzig, Germany. tw@bsax.de. Medline UID: 14565470 29. Woll, D.; Walbert, S.; Stengele, K. P.; Green, R.; Albert, T.; Pfleiderer, W.Steiner, U. E. More efficient photolithographic synthesis of DNA-chips by photosensitization. Nucleosides Nucleotides Nucleic Acids. 22:1395-8, 2003. ADDRESS: University of Konstanz, Konstanz, Germany. Medline UID: 14565427 30. Zhu, H.; Bilgin, M.Snyder, M. Proteomics. Annu Rev Biochem. 72:783-812, 2003. ADDRESS: Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut 06520, USA. heng.zhu@yale.edu. Medline UID: 14527327 31. Zhu, T. Global analysis of gene expression using GeneChip microarrays. Curr Opin Plant Biol. 6:418-25, 2003. ADDRESS: Syngenta Biotechnology Inc., 3054 Cornwallis Road, Research Triangle Park, North Carolina 27709, USA. tong.zhu@syngenta.com. Medline UID: 12972041 ********************************************************************** Margaret and Lyman Crittenden e-mail: crittend@itis.com 8550 Highway 19 Phone: 608-798-0791 Cross Plains, WI 53528 *********************************************************************** ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -o U.S. PIG GENOME COORDINATION PROJECT - sponsored by USDA/CSREES -o WEB: http://www.genome.iastate.edu/