Wednesdays, 12 noon-1pm
555 Diehl Hall
Unless stated otherwise (*)
Credit available as BInf 5480.
To change dates, swap with another presenter and tell Lynda Ellis.
UM Library's BIJC Information Resources and Services
| Date | Presenter(s) | Title/Articles |
|---|---|---|
| Jan 21 | Lynda Ellis Peter Kirlew |
Organizational Meeting Finding Bioinformatics Articles |
| Jan 28 | Zeke McKinney |
Koomen JM, Haura EB,
Bepler G, Sutphen R, Remily-Wood ER, Benson K, Hussein M, Hazlehurst LA,
Yeatman TJ, Hildreth LT, Sellers TA, Jacobsen PB, Fenstermacher DA, Dalton
WS. (2008) "Proteomic contributions to personalized cancer care." Mol Cell Proteomics. 2008 Oct;7(10):1780-94. http://www.mcponline.org/cgi/content/full/7/10/1780 http://tc.liblink.umn.edu/sfx_local?sid=Entrez:PubMed&id=pmid:18664563 |
| Feb 4 | Wayne Xu Wei Pan |
Alessio Farcomeni (2008) "A review of modern multiple hypothesis testing, with particular attention to the false discovery proportion" Statistical Methods in Medical Research, 17(4), 347-388 (2008). http://smm.sagepub.com/cgi/content/refs/17/4/347 Sandrine Dudoit, Juliet Popper Shaffer and Jennifer C. Boldrick (2003) "Multiple Hypothesis Testing in Microarray Experiments" Statistical Science, 2003, 18(1), 71-103. http://www.stat.berkeley.edu/~sandrine/Docs/Papers/StatSci2003Final.pdf |
| Feb 11 | Nicholas McCarty | Mark Newman (2008) "The Physics of Networks" Physics Today, November 2008, 33-38. http://www.math.umn.edu/~othmer/5445/networks_physics.pdf |
| Feb 18 | Tamara Schmidt-Hegge | Ritchie M. and Motsinger A. (December 2005). "Multifactor dimensionality reduction for detecting gene-gene and gene-environment interactions in pharmacogenomics studies." Pharmacogenomics, 6(8): 823-834. http://www.futuremedicine.com/doi/abs/10.2217/14622416.6.8.823 http://tc.liblink.umn.edu/sfx_local?sid=Entrez:PubMed&id=pmid:16296945 |
| Feb 25 *330 Diehl Hall |
Chimezie Ononenyi | Lin H, Wang H, Ding H, Chen YL, Li QZ (2009). "Prediction of Subcellular Localization of Apoptosis Protein Using Chou's Pseudo Amino Acid Composition." Acta Biotheor. 2009 Jan 24. http://www.springerlink.com/content/r1h327077n510606/ http://tc.liblink.umn.edu/sfx_local?sid=Entrez:PubMed&id=pmid:19169652 |
| Mar 4 |
Vic Bloomfield |
Tran LM, Rizk ML, Liao JC. (2008) "Ensemble modeling of metabolic networks." Biophys J. 2008 Dec 15;95(12):5606-17 http://dx.doi.org/doi:10.1529/biophysj.108.135442 http://tc.liblink.umn.edu/sfx_local?sid=Entrez:PubMed&id=pmid:18820235 |
| Mar 11 | Getiria Onsango | Du P, Stolovitzky G, Horvatovich P, Bischoff R, Lim J, Suits F. (2008) "A noise model for mass spectrometry based proteomics." Bioinformatics 24:1070-1077. http://bioinformatics.oxfordjournals.org/cgi/content/full/24/8/1070 |
| Mar 25 | Zheng Jin Tu Jeff Gao |
Kunin V, Copeland A, Lapidus A, Mavromatis K, and Hugenholtz P. (2008) "A Bioinformatician's Guide to Metagenomics" Microbiology and Molecular Biology Reviews 72(4):557-578. http://mmbr.asm.org/cgi/content/full/72/4/557?view=long&pmid=19052320 Nigel C, Son D, Ai K, Reiko M G, Mike C, Yoshio T, Quoc-Hung N, Dinh D, Asanee K, Koichi T, Mika S and Kiyosu T (2008). "BioCaster: detecting public health rumors with a Web-based text mining system" Bioinformatics 24: 2940-2941. http://bioinformatics.oxfordjournals.org/cgi/content/full/24/24/2940 |
| Apr 1 | John Garbe |
Jenkinson AM, Albrecht M, Birney E, Blankenburg H, Down T, Finn RD, Hermjakob H, Hubbard TJ, Jimenez RC, Jones P, Kähäri A, Kulesha E, Macías JR, Reeves GA, Prlic A. (2008) "Integrating biological data - the Distributed Annotation System." BMC Bioinformatics 2008, 9(Suppl 8):S3 http://www.biomedcentral.com/1471-2105/9/S8/S3 Finn RD, Stalker JW, Jackson DK, Kulesha E, Clements J, Pettett R (2007). "ProServer: a simple, extensible Perl DAS server." Bioinformatics. 2007 Jun 15;23(12):1568-70. http://bioinformatics.oxfordjournals.org/cgi/content/full/23/12/1568 |
| Apr 8 | Mike Hardy |
Watkins J (2009) "Convergence time to the Ewens sampling formula in the infinite alleles Moran Model" J Math Biol. 2009 Mar 15. [Epub ahead of print] http://www.springerlink.com/content/v6244m25114kw433/ http://tc.liblink.umn.edu/sfx_local?sid=Entrez:PubMed&id=pmid:19288263 |
| Apr 15 | Dimitrije Jevremovic |
Trinh CT, Wlaschin A, Srienc F. (2009) "Elementary mode analysis: a useful metabolic pathway analysis tool for characterizing cellular metabolism." Appl Microbiol Biotechnol. 2009 Jan;81(5):813-26 http://dx.doi.org/10.1007/s00253-008-1770-1 http://tc.liblink.umn.edu/sfx_local?sid=Entrez:PubMed&id=pmid:19015845 Trinh CT, Unrean P, Srienc F. (2008) "Minimal Escherichia coli cell for the most efficient production of ethanol from hexoses and pentoses." Appl Environ Microbiol. 2008 Jun;74(12):3634-43 http://aem.asm.org/cgi/content/full/74/12/3634?view=long&pmid=18424547 |
| Apr 22 | HoJung Yoon Fang Han |
John Hardy and Andrew Singleton (2009) "Genomewide Association Studies and Human Disease." Published online at www.nejm.org April 15, 2009 (10.1056/NEJMra0808700) http://dx.doi.org/10.1056/NEJMra0808700 http://content.nejm.org/cgi/content/full/NEJMra0808700 Sam T. Roweis, Lawrence K. Saul (2000) "Nonlinear Dimensionality Reduction by Locally Linear Embedding" Science. 2000 Dec 22;290(5500):2323-6. http://www.sciencemag.org/cgi/content/abstract/290/5500/2323 Joshua B. Tenenbaum, Vin de Silva, John C. Langford (2000) "A Global Geometric Framework for Nonlinear Dimensionality Reduction" Science. 2000 Dec 22;290(5500):2319-23. http://www.sciencemag.org/cgi/content/abstract/290/5500/2319 Bernhard Schölkopf, Alexander Smola, Klaus-Robert Müller (1998) "Nonlinear Component Analysis as a Kernel Eigenvalue Problem" Neural Computation 10: 1299-1319. http://www.mitpressjournals.org/doi/abs/10.1162/089976698300017467 |
| Apr 29 | Peter Kirlew |
Smedley D, Haider S, Ballester B, Holland R, London D, Thorisson G, Kasprzyk
A. (2009) "BioMart - biological queries made easy." BMC Genomics 2009, 10:22. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=19144180 |
| May 6 | Peter Kirlew | Shotgun Sequencing:
Howard Hughes Medical Institute
http://www.hhmi.org/biointeractive/media/DNAi_shotgun_seq-lg.wmv Claire Fraser-Ligget, Institute for Genome Sciences, University of Maryland School of Medicine. "Microbial Communities in Health and Disease" Keynote presentation, ISMB 2008 conference http://www.iscb.org/iscb-conferences/247-ismb2008-talks |