Evan S Snitkin
Affiliation: Boston University
- Comparative assessment of performance and genome dependence among phylogenetic profiling methodsEvan S Snitkin
Bioinformatics Graduate Program, Boston University, Boston, USA
BMC Bioinformatics 7:420. 2006..Here we explore the application of phylogenetic profiling, a method that exploits the evolutionary co-occurrence of genes in the assignment of functional linkages, to eukaryotic genomes...
- Model-driven analysis of experimentally determined growth phenotypes for 465 yeast gene deletion mutants under 16 different conditionsEvan S Snitkin
Bioinformatics Graduate Program, Boston University, Boston, MA 02215, USA
Genome Biol 9:R140. 2008..Integration of high-throughput experimental assays and genome-scale computational methods is likely to produce insight otherwise unreachable, but specific examples of such integration have only begun to be explored...
- Optimality criteria for the prediction of metabolic fluxes in yeast mutantsEvan S Snitkin
Graduate Program in Bioinformatics, Boston University, 44 Cummington St, Boston, Massachusetts 02215, USA
Genome Inform 20:123-34. 2008..This demonstrates that assessment of models at the level of flux predictions is a critical step in assessing the biological validity of different models and optimization criteria...
- Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage networkBolan Linghu
Bioinformatics Program, Boston University, 24 Cummington Street, Boston, MA 02215, USA
Genome Biol 10:R91. 2009..Many of these disease-disease associations are supported by epidemiology, but with no previous genetic basis. Such associations can drive novel hypotheses on molecular mechanisms of diseases and therapies...
- High-precision high-coverage functional inference from integrated data sourcesBolan Linghu
Bioinformatics Graduate Program, Boston University, Boston, MA, 02215, USA
BMC Bioinformatics 9:119. 2008....
- Epistatic interaction maps relative to multiple metabolic phenotypesEvan S Snitkin
Program in Bioinformatics, Boston University, Boston, Massachusetts, United States of America
PLoS Genet 7:e1001294. 2011..The approaches and results reported could influence future efforts in understanding metabolic diseases and the role of biochemical regulation in the cell...
- Towards the identification of essential genes using targeted genome sequencing and comparative analysisAdam M Gustafson
Bioinformatics Graduate Program, Boston University, Boston, MA 02215 USA
BMC Genomics 7:265. 2006....
- Metabolic network model of a human oral pathogenVarun Mazumdar
Boston University, Bioinformatics Program, Boston, MA 02215, USA
J Bacteriol 191:74-90. 2009..The current model, which is amenable to further experimental testing and refinements, could prove useful in evaluating the oral microbiome dynamics and in the development of novel biomedical applications...
- VisANT: an integrative framework for networks in systems biologyZhenjun Hu
Bioinformatics Program, Boston University, 24 Cummington Street, Boston, MA 02115, USA
Brief Bioinform 9:317-25. 2008..bu.edu) which integrates, mines and displays hierarchical information. Challenges to integrating modeling (discrete or continuous) and simulation capabilities into such visual mining software are briefly discussed...