Multiple sequence alignment

Xem 1-19 trên 19 kết quả Multiple sequence alignment
  • Tuyển tập các báo cáo nghiên cứu về sinh học được đăng trên tạp chí y học Molecular Biology cung cấp cho các bạn kiến thức về ngành sinh học đề tài: RNAstrand: reading direction of structured RNAs in multiple sequence alignments...

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  • Tuyển tập các báo cáo nghiên cứu về sinh học được đăng trên tạp chí y học Molecular Biology cung cấp cho các bạn kiến thức về ngành sinh học đề tài: Multiple sequence alignment with user-defined anchor points...

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  • Tuyển tập các báo cáo nghiên cứu về sinh học được đăng trên tạp chí y học Molecular Biology cung cấp cho các bạn kiến thức về ngành sinh học đề tài: DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment...

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  • Tuyển tập các báo cáo nghiên cứu về sinh học được đăng trên tạp chí y học Molecular Biology cung cấp cho các bạn kiến thức về ngành sinh học đề tài: Noisy: Identification of problematic columns in multiple sequence alignments...

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  • Tuyển tập các báo cáo nghiên cứu về sinh học được đăng trên tạp chí y học Molecular Biology cung cấp cho các bạn kiến thức về ngành sinh học đề tài: Hierarchical folding of multiple sequence alignments for the prediction of structures and RNA-RNA interactions...

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  • Tuyển tập các báo cáo nghiên cứu về sinh học được đăng trên tạp chí y học Molecular Biology cung cấp cho các bạn kiến thức về ngành sinh học đề tài: AlignMiner: a Web-based tool for detection of divergent regions in multiple sequence alignments of conserved sequences...

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  • Tuyển tập các báo cáo nghiên cứu về sinh học được đăng trên tạp chí y học Molecular Biology cung cấp cho các bạn kiến thức về ngành sinh học đề tài: Sequence embedding for fast construction of guide trees for multiple sequence alignment...

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  • Multiple sequence alignment techniques have recently gained popularity in the Natural Language community, especially for tasks such as machine translation, text generation, and paraphrase identification. Prior work falls into two categories, depending on the type of input used: (a) parallel corpora (e.g., multiple translations of the same text) or (b) comparable texts (non-parallel but on the same topic). So far, only techniques based on parallel texts have successfully used syntactic information to guide alignments. ...

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  • Limitedproteolysis of the pyruvate decarboxylase (E1,a2b2 ) component of the pyruvate dehydrogenase (PDH) multi-enzyme complexofBacillus stearothermophilushas indicated the importance for catalysis of a site (Tyr281-Arg282) in the E1asubunit (Chauhan, H.J., Domingo, G.J., Jung, H.-I. & Perham, R.N. (2000)Eur. J. Biochem.267, 7158–7169).

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  • A homologue of interleukin 18 has been identified from rainbow trout,Oncorhynchus mykiss. The trout IL-18gene spans 3.7 kb and consists of six exons and five introns, sharing the same gene organization with its human coun-terpart. The putative translated protein is 199 amino acids in length with no predicted signal peptide. Analysis of the multiple sequence alignment reveals a conserved ICE cut site, resulting in a mature peptide of 162 amino acids. The trout IL-18 shares 41–45% similarity with known IL-18 molecules and contains an IL-1 family signature motif....

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  • Spinocerebellar ataxia types 2 (SCA2) and 3 (SCA3) are autosomal-dominantly inherited, neurodegenerative dis-eases caused by CAG repeat expansions in the coding regions of the genes encoding ataxin-2 and ataxin-3, respectively. To provide a rationale for further functional experiments, we explored the proteinarchitectures of ataxin-2 and ataxin-3. Using structure-based multiple sequence alignments of homologous proteins, we investigated domains, sequence motifs, and interaction partners.

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  • Parallel Implementation of MAFFT on CUDA-Enabled Graphics Hardware present a new approach to accelerat- ing MAFFT on Graphics Processing Units (GPUs) using the Compute Unified Device Architecture (CUDA) programming model. Compared with the implementations of other MSA algorithms on GPUs, parallelization of MAFFT is more challenging since the space complexity.

     

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  • The idea for The Phylogenetic Handbook was conceived during an early edition of theWorkshop on Virus Evolution andMolecular Epidemiology. The rationale was simple: to collect the information being taught in the workshop and turn it into a comprehensive, yet simply written textbook with a strong practical component. Marco and Annemie took up this challenge, and, with the help of many experts in the field, successfully produced the First Edition in 2003.

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  • We describe a novel approach to unsupervised learning of the events that make up a script, along with constraints on their temporal ordering. We collect naturallanguage descriptions of script-specific event sequences from volunteers over the Internet. Then we compute a graph representation of the script’s temporal structure using a multiple sequence alignment algorithm. The evaluation of our system shows that we outperform two informed baselines.

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  • Tuyển tập báo cáo các nghiên cứu khoa học quốc tế ngành hóa học dành cho các bạn yêu hóa học tham khảo đề tài: Multipattern Consensus Regions in Multiple Aligned Protein Sequences and Their Segmentation

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  • Protein family databases obtain sequences fromone of the large protein sequence databases,most commonly SWISS- PROT with TrEMBL (Bairoch and Apweiler, 2000) but also PIR (Barker et al., 2000). They then apply an algorithm, either manual or automatic, to group the sequences into families. Each family is represented in one or more ways to facilitate both inspection by humans and comparison by computer programs. The most common representation is a multiple alignment of the family’s sequences, either with insertion and deletion (gap) characters or without.

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  • Several efforts have been made since 1990 to overcome the effort required to maintain curated protein family data- bases by automatically clustering the protein sequence databases using sequence similarity. The general approach is to compute all possible pairwise comparisons, and then cluster them in some fashion, shifting the effort from humans to computers. This otherwise computationally very demanding process has benefited from the introduc- tion of the rapid PSI-BLAST system(Altschul et al., 1997).

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  • ProDom(Corpet et al., 2000) is one of the earliest clustered protein family databases and continually updates its methods and services. Currently, it coordinates some of its larger entries with Pfam-A and uses PSI-BLAST to cluster the remaining sequences in SWISS-PROT and TrEMBL. While only large entries have been scrutinized manually, the consistency of all families is assessed by computing a series of numerical measurements. The resulting families are represented as consensus sequences and gapped multiple alignments.

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  • Apart from the multiple alignment construction problem, a fully automatic approach also has to provide a clustering, and to work for multidomain proteins, define domain boundaries. For instance, the Domainer algorithm, 10 which performs the clus- tering of domain families based on all versus all Blastp matching, is a fully automatic approach that was used for building the ProDom database. We are most familiar with the Domainer method but believe that other automated sequence clustering approaches share similar drawbacks.

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