Journal Club (Spring 2004)
Wednesdays, 12 noon-1pm
748 Mayo Building
Credit available as BInf 5480.
To change dates, swap with another presenter and tell Lynda Ellis.
| Jan 21 |
Lynda Ellis |
Organizational Meeting |
| Jan 28 | Chris Dwan |
David Peak, Jevin D. West, Susanna M. Messinger, and Keith A. Mott
(2004) "Evidence for complex, collective dynamics and emergent, distributed computation in plants" Proc. Natl. Acad. Sci. USA, 101(4): 918-922. http://www.pnas.org/cgi/content/full/101/4/918 |
| Feb 4 | Tim Kunau |
John Quackenbush (2001) COMPUTATIONAL GENETICS: COMPUTATIONAL ANALYSIS OF MICROARRAY DATA Nature Reviews Genetics 2: 418 - 427. http://www.nature.com/cgi-taf/DynaPage.taf?file=/nrg/journal/v2/n6/full/nrg0601_418a_fs.html |
| Feb 11 | Bob Milius |
H. Steven Wiley, Stanislav Y. Shavartsman, and Douglas A.
Lauffenburger (2003) Computational modeling of the EGF-receptor system: a paradigm for systems biology TRENDS in Cell Biology 13(1): 43-50. http://www.sciencedirect.com/science/journal/09628924 |
| Feb 18 | Sean Anderson |
Schuster S, Pfeiffer T, Moldenhauer F, Koch I, Dandekar T. (2002) Exploring the pathway structure of metabolism: decomposition into subnetworks and application to Mycoplasma pneumoniae. Bioinformatics 18: 351-61. http://bioinformatics.oupjournals.org/cgi/content/abstract/18/2/351 |
| Feb 25 |
Carol Gross |
Irene Nobeli, Hannes Ponstingl, Eugene B. Krissinel and Janet M.
Thornton (2003) A Structure-based Anatomy of the E. coli Metabolome. Journal of Molecular Biology 334: 697-719. http://www.sciencedirect.com/science/journal/00222836 |
| Mar 3 | Kevin Messner |
Pritpal S Tamber, Fiona Godlee and Peter Newmark (2003) Open access to peer-reviewed research: making it happen Lancet. 2003 Nov 8;362(9395):1575-7. Crawford, B.D. (2003) Open-access publishing: where is the value? Lancet. 2003 Nov 8;362(9395):1578-80. Both at: http://www.sciencedirect.com/science/journal/01406736 |
| Mar 10 | Lynda Ellis |
Eric W. Klee, Daniel F. Carlson, Scott C. Fahrenkrug, Stephen C.
Ekker, and Lynda B. M. Ellis (2004) Identifying secretomes in people, pufferfish and pigs Nucl. Acids. Res. 2004 32: 1414-1421. http://nar.oupjournals.org/cgi/content/full/32/4/1414 |
| Mar 17 | ***No Journal Club*** |
Spring Break |
| Mar 24 | Dave Roe |
Lincoln Stein (2003) Integrating Biological Databases Nature Reviews Genetics 4: 337-345. http://www.nature.com/cgi-taf/DynaPage.taf?file=/nrg/journal/v4/n5/full/nrg1065_fs.html |
| Mar 31 | Zheng Jin Tu |
Rafael A. Irizarry, Benjamin M. Bolstad, Francois Collin, Leslie M.
Cope, Bridget Hobbs, and Terence P. Speed (2003) Summaries of Affymetrix GeneChip probe level data Nucl. Acids. Res. 2003 31: e15. http://nar.oupjournals.org/cgi/content/full/31/4/e15 |
| Apr 7 | Michael Jarcho |
S. Aydogan, S. Orcun, G. Blau, J.F. Pekny, G. Applequist, Y. Yih, G.
Chiu, B. Yao (2003) Aggregate System Level Material Analysis for Advanced Life Support Systems Proceedings of the International Conference On Environmental Systems, July 2003, Vancouver, BC, CANAD, SAE International http://www.sae.org/servlets/productDetail?PROD_TYP=PAPER&PROD_CD=2003-01-2362 |
| Apr 14 | Wayne Xu |
VK Mootha, CM Lindgren, K-F Eriksson, A Subramanian, S Sihag, J
Lehar, P Puigserver, E Carlsson, M Ridderstråle, E Laurila, N
Houstis, MJ Daly, N Patterson, JP Mesirov, TR Golub, P Tamayo, B
Spiegelman, ES Lander, JN Hirschhorn, D Altshuler, LC Groop
(2003) PGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes Nature Genetics 34: 267-273. http://www.nature.com/cgi-taf/DynaPage.taf?file=/ng/journal/v34/n3/full/ng1180.html |
| Apr 21 | Charlie Paule |
E J C G van den Oord and B M Neale (2004) Will haplotype maps be useful for finding genes? Molecular Psychiatry 9: 227-236. http://www.nature.com/cgi-taf/DynaPage.taf?file=/mp/journal/v9/n3/full/4001449a.html The International HapMap Consortium (2003) The International HapMap Project Nature 426: 789 - 796. http://www.nature.com/cgi-taf/DynaPage.taf?file=/nature/journal/v426/n6968/full/nature02168_fs.html |
| Apr 28 | Haoyu Yu |
B.M. Bolstad, R.A Irizarry, M. Astrand, and T.P. Speed (2003) A comparison of normalization methods for high density oligonucleotide array data based on variance and bias Bioinformatics 2003 19: 185-193. http://bioinformatics.oupjournals.org/cgi/content/abstract/19/2/185 |
| May 5 |
Jennifer Hall John Carlis Lynda Ellis |
Ethics in Bioinformatics: A Discussion Herman T. Tavani (2004) Wiley, 334pp. Ethics and Technology: Ethical Issues in an Age of Information and Communication Technology http://he-cda.wiley.com/WileyCDA/HigherEdTitle/productCd-0471249661.html |