multiple sequence alignment problem
P-Coffee: A New Divide-and-conquer Method for Multiple Sequence Alignment
... individual problem size by dividing the original sequence set into multiple independent sets of ...consider alignment between a residue inside the partition and others outside the ...the ...
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Cluster Analysis Method for Multiple Sequence Alignment
... the alignment of lengthy, highly variable or extremely numerous sequences that cannot be aligned solely by human ...high-quality sequence alignments, and occasionally in adjusting the final results to ...
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Prenominal Modifier Ordering via Multiple Sequence Alignment
... Our problem differs from alignment of biolog- ical sequences in that we have little prior knowl- edge of the similarity between ...choosing alignment order (i.e., which sequence to align next) ...
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Learning to Paraphrase: An Unsupervised Approach Using Multiple Sequence Alignment
... Observe that “Fed” (Federal Reserve) and “Greenspan” are interchangeable only in the domain of US financial matters. Also, note that one cannot draw one-to-one cor- respondences between single words or phrases. For in- ...
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Progressive Multiple Sequence Alignment with Indel Evolution
... effective alignment process [62, ...overall problem thus reducing the problem ...for alignment can be traced back to Felsenstein 1982 [35] who applied it to obtain ungapped pairwise alignments ...
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MSARC: Multiple sequence alignment by residue clustering
... this problem, in recent programs [4-8] progressive alignment is usually preceded by consis- tency transformation (incorporating information from all pairwise alignments into the objective function) and/or ...
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Multiple sequence alignment algorithms for the phylogenic analysis of chloroplast DNA
... the problem of finding an optimal alignment of the columns of two multiple sequence alignments under the sum-of-pairs objective with linear ...a multiple alignment by the sum of ...
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Bootstrapping Lexical Choice via Multiple Sequence Alignment
... following problem: given a parallel (but unaligned) corpus consisting of both complex semantic input and corresponding natural language verbalizations, learn a semantics-to-words mapping dictionary ...
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sORFs.org : a repository of small ORFs identified by ribosome profiling
... Based on ribosome profiling data . (i) The fragment length organization similarity score (FLOSS), described by Ingo- lia et al. (20), measures the magnitude of disagreement be- tween the RPF-length distribution of ...
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DNA Sequence alignment using programme by algorithm
... individual sequence regions, is qualitative and conceptually simple, though time-consuming to analyze on a large ...certain sequence features—such as insertions, deletions, repeats, or inverted repeats—from ...
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Designing universal primers for the isolation of DNA sequences encoding Proanthocyanidins biosynthetic enzymes in Crataegus aronia
... primers, multiple sequence alignment (MSA) analysis was per- formed initially among all retrieved DNA sequences from selected taxa using ClustalW in the Vector NTI ...of sequence similarity. ...
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Novel mutations in the S1 domain of COVID 19 Spike protein of isolate from Gujarat origin, Western India
... Till date there are three full length COVID 19 virus genome sequences available from India. The earlier two were reported from Kerala, Southern India and the more recent one has been reported from Gujarat, western part ...
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Inferring phylogenies of evolving sequences without multiple sequence alignment
... The alignment-free approach implemented here appears to have no difficulty, at appropriate parameter settings across our simulated datasets, in capturing homology signal and generating topologies that are very ...
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Insights of Rv2921c (Ftsy) Gene of Mycobacterium tuberculosis H37Rv To Prove Its Significance by Computational Approach
... [33]. Multiple sequence alignment result shows that this gene is universally present in all species of this bacterium with having some minute ...
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Molecular Footprint of Kenya’s Gene Bank Repositories Based on the cp Genome Signatures
... inferred. Multiple sequence alignments were performed by BioEdit and the intra- and infraspecific genetic divergences were calculated using MEGA 6 beta software [53] according to the Kimura 2-parameter ...
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Refin-Align: New Refinement Algorithm For Multiple Sequence Alignment
... Multiple sequence alignment can help biologist to pre- dict structure and function information for a set of se- ...roles. Multiple sequence alignment can also help in the ...
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Characterization of a novel Helitron family in insect genomes: insights into classification, evolution and horizontal transfer
... high sequence similarity among species of different insect ...stepwise sequence acquisition was observed in Sfru_Hel1Aa, Sfru_Hel1Ab and Sfru_Hel1Ac in Spodoptera ...stepwise sequence acquisition and ...
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Title: Multiple Sequence Alignment Based Method for Construction of Phylogenetic Trees
... The phylogenetic tree is a form of graphical representation of relationship between organisms, species or genomic sequence. Phylogeny is the study of evolutionary history of different species. Each node in the ...
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Conservation of the 17-Kilodalton Antigen Gene within the Genus Bartonella
... nucleotide sequence and the cor- responding deduced amino acid sequence shared various levels of homology among the species tested ...signal sequence of A-X-A has been shown by our laboratory to be a ...
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Isolation, cloning and sequence analysis of lactate dehydrogenase gene from Theileria annulata may lead to design of new antitheilerial drugs
... dehydrogenase sequence was isolated from from a Theileria ...the sequence was cloned into the vector pGEM-T ...dehydrogenase sequence compared to the ...
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