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Titlebook: Research in Computational Molecular Biology; 15th Annual Internat Vineet Bafna,S. Cenk Sahinalp Conference proceedings 2011 Springer Berlin

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Conference proceedings 2011, held in Vancouver, Canada, in March 2011. The 43 revised full papers were carefully reviewed and selected from 153 submissions. The papers cover a wide range of topics including molecular sequence analysis; recognition of genes and regulatory elements; molecular evolution; gene expression; biologi
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Causal Reasoning on Biological Networks: Interpreting Transcriptional Changes,l of our method is the prediction of putative upstream regulators of observed expression changes based on a set of over 400,000 causal relationships. The resulting putative regulators constitute directly testable hypotheses for follow-up.
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Conference proceedings 2011ide range of topics including molecular sequence analysis; recognition of genes and regulatory elements; molecular evolution; gene expression; biological networks; sequencing and genotyping technologies; genomics; population, statistical genetics; systems biology; imaging; computational proteomics; molecular structural biology.
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Constrained De Novo Sequencing of Peptides with Application to Conotoxins,and the number of residues can be determined by a relatively simple mass spectrometry experiment. We show here that the prior knowledge of the number of cysteines in a precursor ion is highly advantageous for de novo sequencing.
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Hapsembler: An Assembler for Highly Polymorphic Genomes,ired reads. Our experiments show that Hapsembler produces accurate and contiguous assemblies of highly polymorphic genomes, while performing on par with the leading tools on haploid genomes. Hapsembler is available for download at http://compbio.cs.toronto.edu/hapsembler.
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Inferring Mechanisms of Compensation from E-MAP and SGA Data Using Local Search Algorithms for Max ing no physical interaction information, the BPMs produced by our method are competitive with previous methods. Biological findings include a suggested global role for the prefoldin complex and a SWR subcomplex in pathway buffering in the budding yeast interactome.
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0302-9743 al International Conference on Research in Computational Molecular Biology, RECOMB 2011, held in Vancouver, Canada, in March 2011. The 43 revised full papers were carefully reviewed and selected from 153 submissions. The papers cover a wide range of topics including molecular sequence analysis; reco
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Metabolic Network Analysis Demystified,given experimental conditions [2], and qualitative, such as the viability of a mutant [3] or minimal media required for growth [4]. Qualitative predictions, on which we focus, tend to be more robust and reliable than quantitative ones, while remaining experimentally testable and biologically relevant.
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