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- 4Computing Science, Department of/Technical Reports (Computing Science)
- 3Biological Sciences, Department of
- 2Agricultural, Food and Nutritional Science, Department of
- 2Agricultural, Food and Nutritional Science, Department of/Journal Articles (Agricultural, Food and Nutritional Science)
- 2Biological Sciences, Department of/Journal Articles (Biological Sciences)
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2005
Dong, Xaoli, Wishart, David S., Stothard, Paul, Greiner, Russ, Guo, AnChi, van Domselaar, Gary H., Szafron, Duane, Shrivastava, Savita, Cruz, Joseph A., Lu, Paul
BASys (Bacterial Annotation System) is a web server that supports automated, in-depth annotation of bacterial genomic (chromosomal and plasmid) sequences. It accepts raw DNA sequence data and an optional list of gene identification information and provides extensive textual annotation and...
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2004
Technical report TR04-22. Model selection problem in Bayesian belief network (BN) structure learning is a classicial problem in the BN literature. To do model selection in BN structure learning, we need a evaluation score and a searching procedure. The generative criteria, AIC, BIC and BDe, are...
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2007
Johnson, S.J., Carroll, R.T., Vidmar, J.J., Stroeher,V., Taylor, G.T., Good, A.G., DePauw, M., Lu, Z., Savidov, N.
Nitrogen (N) is the most important factor limiting crop productivity worldwide. The ability of plants to acquire N from applied fertilizers is one of the critical steps limiting the efficient use of nitrogen. To improve N use efficiency, genetically modified plants that overexpress alanine...
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2003
Greiner, Russ, Poulin, B., Lu, Paul, Anvik, J., Lu, Z., Macdonell, Cam, Wishart, David, Eisner, Roman, Szafron, Duane
Technical report TR03-09. Naive Bayes classifiers, a popular tool for predicting the labels of query instances, are typically learned from a training set. However, since many training sets contain noisy data, a classifier user may be reluctant to blindly trust a predicted label. We present a...
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2006
Wang, W., Li, J., Liu, D., Lu, Z., Zheng, H., Wong, G., Cai, Z., Fan, C., Zhang, J., Vang, S., Long, M., Zhang, G., Wang, J., Shi, J.
Retroposition is widely found to play essential roles in origination of new mammalian and other animal genes. However, the scarcity of retrogenes in plants has led to the assumption that plant genomes rarely evolve new gene duplicates by retroposition, despite abundant retrotransposons in plants...
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2007
Sawhney, Summit, Greiner, Russ, Querengesser, Lori, Shrivastava, Savita, Vogel, Hans J., Arndt, David, Macinnis, Glen D., Natalie, Zhang, Gavin E., Ying, Duggan, Tang, Peter, Amegbey, Godwin, Jewell, Kevin, Wagner, James, Clements, Tzur, Dan, Bamforth, Fiona, Young, Nelson, Miniaci, Jessica, Nikolai, Lisa, Eisner, Roman, Coutouly, Marie-Aude, Clive, Derrick, Li, Liang, Marrie, Tom, Block, David, Hau, David D., Cheng, Dean, Melisa, Gebremedhin, Stothard, Paul, Forsythe, Ian, Weljie, Alim M., Dowlatabadi, Reza, Wishart, David S., Sykes, Brian D., Fung, Chris, Knox, Craig, Jeroncic, Kevin, Mulu, Guo, Lewis, Mike, Guo, An Chi
The Human Metabolome Database (HMDB) is currently the most complete and comprehensive curated collection of human metabolite and human metabolism data in the world. It contains records for more than 2180 endogenous metabolites with information gathered from thousands of books, journal articles...
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2003
Greiner, Russell, Wishart, David, Eisner, Roman, Lu, Z., Lu, Paul, Macdonell, Cam, Poulin, B., Szafron, Duane, Anvik, J.
Technical report TR03-14. Identifying the destination or localization of proteins is key to understanding their function and facilitating their purification. A number of existing computational prediction methods are based on sequence analysis. However, these methods are limited in scope, accuracy...
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Proteome Analyst - Transparent High-throughput Protein Annotation: Function, Localization and Custom Predictors
Download2003
Lu, Z., Eisner, Roman, Lu, Paul, Macdonell, Cam, Szafron, Duane, Greiner, Russell, Poulin, B., Wishart, David, Anvik, J., Habibi-Nazhad, B.
Technical report TR03-05. Modern sequencing technology now permits the sequencing of entire genomes, leading to thousands of new gene sequences in need of detailed annotation. It is too time consuming to predict the properties of each protein sequence manually and to organize the results of many...