From crittend@itis.com Mon Feb 16 09:58:43 2004 Date: Fri, 13 Feb 2004 13:43:20 -0800 From: Lyman/Margaret Crittenden To: Multiple Recipients of Subject: Genomics References, February, 2004 Resent-Date: 13 Feb 2004 19:39:12 -0000 Resent-From: angenmap@genome.ansci.iastate.edu Resent-cc: recipient list not shown: ; [ AnGenMap Discussion Mailing List - Mail distributed to 1022 members ] [ INFO: http://www.genome.iastate.edu/community/discuss.html ] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ****NOTE**** For those of you who keep your references in ProCite or Reference Manager, the ProCite files of these references are now available for downloading from the following web page: http://www.genome.iastate.edu/ftp/ref/ These files can be read by both programs and entered in to your reference files. Instructions are posted at the web page. We thank Zhiliang Hu for arranging this. JOURNAL REFS. (GENOMICS METHODS AND REVIEWS) NLM 2/04 1. Agris, P. F. Decoding the genome: a modified view. Nucleic Acids Res. 32:223-38, 2004. ADDRESS: Department of Molecular and Structural Biochemistry, 128 Polk Hall, Campus Box 7622, North Carolina State University, Raleigh, NC 27695-7622, USA. Paul_Agris@ncsu.edu. Medline UID: 14715921 2. Auer, H.; Lyianarachchi, S.; Newsom, D.; Klisovic, M. I.; Marcucci, G.; Kornacker, K.Marcucci, U. Chipping away at the chip bias: RNA degradation in microarray analysis.35:292-3, 2003. Medline UID: 14647279 3. Check, E. Geneticists chip away at unruly data. Nature. 427:91, 2004. Medline UID: 14712245 4. Chiaromonte, F.; Miller, W.Bouhassira, E. E. Gene length and proximity to neighbors affect genome-wide expression levels. Genome Res. 13:2602-8, 2003. ADDRESS: Department of Statistics and Department of Health Evaluation Sciences, Pennsylvania State University, University Park, Pennsylvania 16802, USA. Medline UID: 14613975 5. Clark, M. S.; Edwards, Y. J.; Peterson, D.; Clifton, S. W.; Thompson, A. J.; Sasaki, M.; Suzuki, Y.; Kikuchi, K.; Watabe, S.; Kawakami, K.; Sugano, S.; Elgar, G.Johnson, S. L. Fugu ESTs: new resources for transcription analysis and genome annotation. Genome Res. 13:2747-53, 2003. ADDRESS: MRC Rosalind Franklin Centre for Genomics Research, (formerly known as the MRC UK HGMP Resource Centre), Genome Campus, Hinxton, Cambridge, CB10 1SB, UK. mscl@bas.ac.uk. Medline UID: 14613980 6. Cornell, M.; Paton, N. W.; Hedeler, C.; Kirby, P.; Delneri, D.; Hayes, A.Oliver, S. G. GIMS: an integrated data storage and analysis environment for genomic and functional data. Yeast. 20:1291-306, 2003. ADDRESS: Department of Computer Science, University of Manchester, Manchester M13 9PL, UK. Medline UID: 14618567 7. Epstein, J. R.; Ferguson, J. A.; Lee, K. H.Walt, D. R. Combinatorial decoding: an approach for universal DNA array fabrication. J Am Chem Soc. 125:13753-9, 2003. ADDRESS: Max Tishler Laboratory for Organic Chemistry, Department of Chemistry, Tufts University, Medford, Massachusetts 02155, USA. Medline UID: 14599214 8. Herrgard, M. J.; Covert, M. W.Palsson, B. O. Reconciling gene expression data with known genome-scale regulatory network structures. Genome Res. 13:2423-34, 2003. ADDRESS: Department of Bioengineering, Bioinformatics Graduate Program, University of California, San Diego, La Jolla, California 92093-0412, USA. Medline UID: 14559784 9. Leung, Y. F. and Cavalieri, D. Fundamentals of cDNA microarray data analysis. Trends Genet. 19:649-59, 2003. ADDRESS: Bauer Center For Genomics Research, Harvard University, 7 Divinity Avenue, Cambridge, MA 02138, USA. yfleung@cgr.harvard.edu. Medline UID: 14585617 10. Tenenbaum, S. A.; Carson, C. C.; Atasoy, U.Keene, J. D. Genome-wide regulatory analysis using en masse nuclear run-ons and ribonomic profiling with autoimmune sera. Gene. 317:79-87, 2003. ADDRESS: Center for RNA Biology, Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC 27710, USA. Medline UID: 14604794 11. Thach, D. C.; Lin, B.; Walter, E.; Kruzelock, R.; Rowley, R. K.; Tibbetts, C.Stenger, D. A. Assessment of two methods for handling blood in collection tubes with RNA stabilizing agent for surveillance of gene expression profiles with high density microarrays. J Immunol Methods. 283:269-79, 2003. ADDRESS: Center for Biomolecular Science and Engineering, Code 6910, Naval Research Laboratory, 4555 Overlook Avenue SW, Building 30, Washington, DC 20375, USA. Medline UID: 14659918 12. Yang, M. C.; Yang, J. J.; McIndoe, R. A.She, J. X. Microarray experimental design: power and sample size considerations. Physiol Genomics. 16:24-8, 2003. ADDRESS: Department of Statistics, University of Florida, Gainesville, Florida 32611, USA. yang@stat.ufl.edu. Medline UID: 14532333 13. Zhong, J.; Zhang, H.; Stanyon, C. A.; Tromp, G.Finley, R. L. Jr. A strategy for constructing large protein interaction maps using the yeast two-hybrid system: regulated expression arrays and two-phase mating. Genome Res. 13:2691-9, 2003. ADDRESS: Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, Michigan 48201, USA. Medline UID: 14613974 ********************************************************************** 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/