Computational systems bioinformatics CSB 2008 conference proceedings, volume 7 : Stanford University, USA, 26-29 August 2008 (Imperial College Press, 2008)
Includes bibliographical references and author index
Genomics. An ORFome assembly approach to metagenomics sequences analysis / Yuzhen Ye and Haixu Tang. A probabilistic coding based quantum genetic algorithm for multiple sequence alignment / Hongwei Huo ... [et al.]. Scalable computation of kinship and identity coefficients on large pedigrees / En Cheng, Brendan Elliott, and Z. Meral Ozsoyoglu. Voting algorithms for the motif finding problem / Xiaowen Liu, Bin Ma, and Lusheng Wang -- Proteomics. A max-flow based approach to the identification of protein complexes using protein interaction and microarray data / Jianxing Feng, Rui Jiang, and Tao Jiang. MSDash: mass spectrometry database and search / Zhan Wu, Gilles Lajoie, and Bin Ma. Estimating support for protein-protein interaction data with applications to function prediction / Erliang Zeng ... [et al.]. GaborLocal: peak detection in mass spectrum by gabor filters and Gaussian local maxima / Nha Nguyen ... [et al.] --
- Structural bioinformatics. Optimizing Bayes error for protein structure model selection by stability mutagenesis / Xiaoduan Ye, Alan M. Friedman, and Chris Bailey-Kellogg. Feedback algorithm and web-server for protein structure alignment / Zhiyu Zhao ... [et al.]. Predicting flexible length linear B-cell epitopes / Yasser EL-Manzalawy, Drena Dobbs, and Vasant Honavar. Fast and accurate multi-class protein fold recognition with spatial sample kernels / Pavel Kuksa, Pai-Hsi Huang, and Vladimir Pavlovic. Designing secondary structure profiles for fast ncRNA identification / Yanni Sun and Jeremy Buhler. Matching of structural motifs using hashing on residue labels and geometric filtering for protein function prediction / Mark Moll and Lydia E. Kavraki. A Hausdorff-based NOE assignment algorithm using protein backbone determined from residual dipolar couplings and rotamer patterns / Jianyang (Michael) Zeng ... [et al.].
- Iterative non-sequential protein structural alignment / Saeed Salem and Mohammed J. Zaki. Combining sequence and structural profiles for protein solvent accessibility prediction / Rajkumar Bondugula and Dong Xu. Extensive exploration of conformational space improves Rosetta results for short protein domains / Yaohang Li ... [et al.]. Improving homology models for protein-ligand binding sites / Chris Kauffman, Huzefa Rangwala, and George Karypis -- Pathways, networks, and biological systems. Using relative importance methods to model high-throughput gene perturbation screens / Ying Jin ... [et al.]. Consistent alignment of metabolic pathways without abstraction / Ferhat Ay, Tamer Kahveci, and Valerie de Crâecy-Lagard. Detecting pathways transcriptionally correlated with clinical parameters / Igor Ulitsky and Ron Shamir --
- Computational genomics. The effect of massive gene loss following whole genome duplication on the algorithmic reconstruction of the ancestral populus diploid / Chunfang Zheng ... [et al.]. Error tolerant sibship reconstruction in wild populations / Saad I. Sheikh ... [et al.]. On the accurate construction of consensus genetic maps / Yonghui Wu, Timothy J. Close, and Stefano Lonardi. Efficient haplotype inference from pedigrees with missing data using linear systems with disjoint-set data structures / Xin Li and Jing Li -- Computational methods. Knowledge representation and data mining for biological imaging / Wamiq M. Ahmed. Fast multisegment Alignments for temporal expression profiles / Adam A. Smith and Mark Craven. Graph wavelet alignment kernels for drug virtual screening / Aaron Smalter, Jun Huan, and Gerald Lushington