Titlebook: Research in Computational Molecular Biology; 12th Annual Internat Martin Vingron,Limsoon Wong Conference proceedings 2008 Springer-Verlag B

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Automatic Recognition of Cells (ARC) for 3D Images of , ,atching to find the optimal match between cells in a subject image and cells in 15 template images that have been manually annotated and vetted. We applied ARC to the recognition of cells in 3D confocal images of the first larval stage (L1) of . hermaphrodites, and achieved an average accuracy of 94.91%.

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Computational Biology: Its Challenges Past, Present, and Future,physics with biophysics. We need to think only of bioinformatics, computational biology, and even system biology and genomics for example. These terms seem to strongly suggest that this is all rather new. Yet a short review of the work of those such as J.B.S. Haldane, Sewell Wright, DArcy Thompson a

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CompostBin: A DNA Composition-Based Algorithm for Binning Environmental Shotgun Reads,amenable to traditional methods of characterization. Environmental shotgun sequencing (ESS) overcomes this hurdle by sequencing the DNA from the organisms present in a microbial community. The interpretation of this metagenomic data can be greatly facilitated by associating every sequence read with

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: A Bayesian Hierarchical HMM for Cis-Regulatory Module Decoding in Metazoan Genomes,ding sites (motifs) for a certain array of regulatory proteins, capable of integrating, amplifying or attenuating multiple regulatory signals via combinatorial interaction with these proteins. The architecture of CRM organizations is reminiscent of the grammatical rules underlying a natural language

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A Combined Expression-Interaction Model for Inferring the Temporal Activity of Transcription Factors inferred. The first group of methods relies on the expression levels of TFs assuming that the activity of a TF is highly correlated with its mRNA abundance. The second treats the activity level as unobserved and infers it from the expression of the genes the TF regulates. While both types of metho

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A Fast, Alignment-Free, Conservation-Based Method for Transcription Factor Binding Site Discovery,are becoming more prevalent. Most comparative methods for transcription factor (TF) binding site discovery make use of global or local alignments of orthologous regulatory regions to assess whether a particular DNA site is conserved across related organisms, and thus more likely to be functional. Si