An Eulerian path approach to DNA fragment assembly

From MaRDI portal
Publication:4547675

DOI10.1073/pnas.171285098zbMath0993.92018OpenAlexW2136651963WikidataQ24555762 ScholiaQ24555762MaRDI QIDQ4547675

Pavel A. Pevzner, Michael S. Waterman, Haixu Tang

Publication date: 11 September 2002

Published in: Proceedings of the National Academy of Sciences (Search for Journal in Brave)

Full work available at URL: http://www.pnas.org/content/vol98/issue17/#APPLIED_MATHEMATICS




Related Items

GTED: Graph Traversal Edit DistanceAN EFFICIENT ALGORITHM FOR CHINESE POSTMAN WALK ON BI-DIRECTED DE BRUIJN GRAPHSA fast algorithm for the construction of universal footprinting templates in DNANext generation sequencing under de novo genome assemblyAn Eulerian path approach to local multiple alignment for DNA sequencesOn the Sound Covering Cycle Problem in Paired de Bruijn GraphsAll instantiations of the greedy algorithm for the shortest common superstring problem are equivalentBidirectional Variable-Order de Bruijn GraphsMetaCoAG: binning metagenomic contigs via composition, coverage and assembly graphsSafety and completeness in flow decompositions for RNA assemblyBlock structure and stability of the genetic codeGraph algorithms for DNA sequencing -- origins, current models and the futureThe principles of informational genomicsOn the domination number of $t$-constrained de Bruijn graphsVStrains: de novo reconstruction of viral strains via iterative path extraction from assembly graphsThe simplified partial digest problem: approximation and a graph-theoretic modelBounding the number of Eulerian tours in undirected graphsLinking indexing data structures to de Bruijn graphs: construction and updateLinear-time superbubble identification algorithm for genome assemblyTowards a theory of patchesApproximate all-pairs suffix/prefix overlapsAn embedding technique in the study of word-representability of graphsConstruction of de Bruijn sequences from product of two irreducible polynomialsFailed zero forcing and critical sets on directed graphsA one pass streaming algorithm for finding Euler toursRefined bounds on the number of Eulerian tours in undirected graphsGenetic code from tRNA point of viewOn the complexity of the Eulerian closed walk with precedence path constraints problemFour-regular graphs with rigid vertices associated to DNA recombinationOn the Query Complexity of Testing Orientations for Being EulerianCollapsing Superstring ConjectureModified classical graph algorithms for the DNA fragment assembly problemDNA-Seq Error Correction Based on Substring IndicesThe Contig Assembly Problem and Its Algorithmic SolutionsGlobal optimization for scaffolding and completing genome assembliesScaling metagenome sequence assembly with probabilistic de Bruijn graphsApproximating Shortest Superstring Problem Using de Bruijn GraphsUnnamed ItemConsensus on de Bruijn graphsAlignment-free sequence comparison using absent wordsConstruction of a de Bruijn Graph for Assembly from a Truncated Suffix TreePopping Superbubbles and Discovering Clumps: Recent Developments in Biological Sequence AnalysisSafe and Complete Contig Assembly Via OmnitigsEdge-Matching Problems with RotationsSynteny Paths for Assembly Graphs ComparisonDisentangled Long-Read De Bruijn Graphs via Optical MapsOn the complexity of approximately matching a string to a directed graphThe complexity of string partitioningWalk-preserving transformation of overlapped sequence graphs into blunt sequence graphs with GetBluntedSpace efficient merging of de Bruijn graphs and Wheeler graphs


Uses Software


Cites Work