BibSonomy :: user  :: dzerbino ::

bookmarks

publications

(16)   

• Generating consensus sequences from partial order multiple sequence alignment graphs
  Christopher Lee Bioinformatics19(8):999--1008May2003.
  to Consensus Alignment, Gene Expression Algorithms, Profiling, Humans, Analysis, Sequence DNA, Software, by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX 
• Minimus: a fast, lightweight genome assembler
  Daniel D Sommer and Arthur L Delcher and Steven L Salzberg and Mihai Pop BMC BioinformaticsFeb2007.
  to Software User-Computer DNA, Analysis, Alignment, Design, Mapping, Molecular Chromosome Data, Sequence, Algorithms, Interface Sequence Software, Base by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• A novel method for multiple alignment of sequences with repeated and shuffled elements
  Benjamin Raphael and Degui Zhi and Haixu Tang and Pavel Pevzner Genome Res14(11):2336--46Nov2004.
  to Protein, Analysis, Acid Genetic, Databases, Software, Sequence Amino Alignment, Homology, Algorithms, by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• De novo repeat classification and fragment assembly
  Pavel A Pevzner and Paul A Pevzner and Haixu Tang and Glenn Tesler Genome Res14(9):1786--96Sep2004.
  to Nucleic Contig Alignment, Sequences, Linkage Humans, Multigene Bacterial, Genome, Mapping, Family Acid, Sequence Repetitive (Genetics), Artificial, Analysis, Biology, Human, Computational Cluster Algorithms, Chromosomes, by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX 
• Fragment assembly with short reads
  Mark Chaisson and Pavel Pevzner and Haixu Tang Bioinformatics20(13):2067--74Sep2004.
  to Studies, Expression Base Gene Feasibility Analysis, Sequence Profiling, DNA, Data, Molecular Algorithms, Mapping, Contig Alignment, by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX 
• The fragment assembly string graph
  Eugene W Myers BioinformaticsSep2005.
  to Molecular Algorithms, Base DNA Chromosome DNA, Fragmentation, Data, Sequence, Analysis, Mapping Sequence by dzerbino and 2 other people on Sep 17, 2007, 8:19 PM
  BibTeX 
• Reconstructing large regions of an ancestral mammalian genome in silico
  Mathieu Blanchette and Eric D Green and Webb Miller and David Haussler Genome Res14(12):2412--23Dec2004.
  to Data, Likelihood Sequence, Analysis, Mammals, Simulation, Cystic Evolution, Functions, Genetic Computer Phylogeny, Transmembrane Regulator, Animals, Variation Fibrosis DNA, Conductance Alignment, Molecular Molecular, Base Genome, (Genetics), Models, Sequence by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• Assembling millions of short DNA sequences using SSAKE
  Ren'e L Warren and Granger G Sutton and Steven J M Jones and Robert A Holt Bioinformatics23(4):500--1Feb2007.
  to Analysis, Molecular Chromosome Mapping Contig Base Mapping, DNA, Algorithms, Sequence, Data, Sequence Software, by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX 
• A whole-genome assembly of Drosophila
  E W Myers and G G Sutton and A L Delcher and I M Dew and D P Fasulo and M J Flanigan and S A Kravitz and C M Mobarry and K H Reinert and K A Remington and E L Anson and R A Bolanos and H H Chou and C M Jordan and A L Halpern and S Lonardi and E M Beasley and R C Brandon and L Chen and P J Dunn and Z Lai and Y Liang and D R Nusskern and M Zhan and Q Zhang and X Zheng and G M Rubin and M D Adams and J C Venter Science287(5461):2196--204Mar2000.
  to melanogaster, Nucleic Genome, Chromatin, Physical Molecular DNA, Algorithms, Contig Genes, Acid, Repetitive Insect, Mapping, Animals, Analysis, Euchromatin, Sequence Biology Sites, Computational Heterochromatin, Chromosome Drosophila Tagged Sequences, Data, by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• Efficiently detecting polymorphisms during the fragment assembly process
  Daniel Fasulo and Aaron Halpern and Ian Dew and Clark Mobarry BioinformaticsJan2002.
  to Gene (Genetics), Alignment, Sequence Molecular DNA, Profiling, DNA Expression Sequence, Genetic, Variation Fragmentation Polymorphism, Restriction Algorithms, Analysis, Base Length, Fragment Data, Consensus by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX 
• Occupancy modeling of coverage distribution for whole genome shotgun DNA sequencing
  Michael C Wendl Bull Math Biol68(1):179--96Jan2006.
  to Genomics, Sequence Humans, Genome, Models, Algorithms, DNA, Statistical Animals, Analysis, by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• An analysis of the feasibility of short read sequencing
  Nava Whiteford and Niall Haslam and Gerald Weber and Adam Prügel-Bennett and Jonathan W Essex and Peter L Roach and Mark Bradley and Cameron Neylon Nucleic Acids Res33(19):e171Nov2005.
  to Genomics, Chromosomes, Feasibility 1, Viral, Studies, DNA, Genome, Human, Sequence Analysis, Bacterial Pair Humans, by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• Gene maps linearization using genomic rearrangement distances
  Guillaume Blin and Eric Blais and Danny Hermelin and Pierre Guillon and Mathieu Blanchette and Nadia El-Mabrouk J Comput Biol14(4):394--407May2007.
  to Genome, Computational Software Algorithms, DNA, Biology, Analysis, Genomics, Sequence by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• A pseudo-boolean framework for computing rearrangement distances between genomes with duplicates
  S'ebastien Angibaud and Guillaume Fertin and Irena Rusu and St'ephane Vialette J Comput Biol14(4):379--93May2007.
  to Sequence Genome, Gammaproteobacteria, Software, Duplication, Computational Algorithms, Gene Analysis, Biology, Bacterial DNA, by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• An Eulerian path approach to DNA fragment assembly
  P A Pevzner and H Tang and M S Waterman Proc Natl Acad Sci USA98(17):9748--53Aug2001.
  to lactis Mapping, Algorithms, Neisseria meningitidis, Sequence Bacterial, DNA, Alignment, Campylobacter Theoretical, Contig jejuni, Software, Analysis, Genome, Models, Lactococcus by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX 
• Using guide trees to construct multiple-sequence evolutionary HMMs
  I Holmes BioinformaticsJan2003.
  to Software, Sequence Analysis, Evolution, Gene Alignment, Statistical, Algorithms, Cluster Expression Genetic, Profiling, Homology Molecular, Regulation, Markov Chains, DNA, Models, Protein, by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX