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Titlebook: Research in Computational Molecular Biology; 13th Annual Internat Serafim Batzoglou Conference proceedings 2009 Springer-Verlag Berlin Heid

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Xiang Zhang,Feng Pan,Yuying Xie,Fei Zou,Wei Wanggs or regulatory proteins, and in only a fraction of patients, and there is wide variation in individual response to these drugs or transcription factors. These studies highlight the importance for understanding the molecular mechanisms underlying hemoglobin switching so that future studies can be d
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Searching Protein 3-D Structures in Linear Time,se a series of preprocessing algorithms that enable faster queries. We checked the performance of our linear-expected-time algorithm through computational experiments over the whole PDB database. According to the experiments, our algorithm is 3.6 to 28 times faster than previously known algorithms f
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Optimization-Based Peptide Mass Fingerprinting for Protein Mixture Identification,lation study, we identify a set of limiting factors that hinder the performance of PMF-based protein mixture identification. We argue that it is feasible to remove these limitations and PMF can be a powerful tool in the analysis of protein mixtures, especially in the identification of low-abundance
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New Perspectives on Gene Family Evolution: Losses in Reconciliation and a Link with Supertrees,the problem of computing a species tree that minimizes the number of gene duplications, given a set of gene trees, is in fact a slight variant of a supertree problem; (3) We show that deciding if a set of gene trees can be explained using only apparent duplications can be done efficiently, as well a
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Topology-Free Querying of Protein Interaction Networks,d approach, and with queries from less studied species, where only topology-free algorithms apply. . detects many more matches than QNet, while in both cases giving results that are highly functionally coherent.
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