BibSonomy :: user  :: dzerbino ::

bookmarks

publications

(18)   

• Generating consensus sequences from partial order multiple sequence alignment graphs
  Christopher Lee Bioinformatics19(8):999--1008May2003.
  to Expression Analysis, Alignment, Consensus Algorithms, Humans, Software, Gene DNA, Sequence Profiling, by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX 
• An Eulerian path approach to local multiple alignment for DNA sequences
  Yu Zhang and Michael S Waterman Proc Natl Acad Sci USA102(5):1285--90Feb2005.
  to Sequence, Base Repetitive Acid Molecular Sequences, Alignment, Models, Acid, Genetic, Data, DNA, Homology, Nucleic Sequence by dzerbino 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 Alignment, Sequence Design, Algorithms, Analysis, Interface DNA, Molecular User-Computer Base Chromosome Software, Mapping, Sequence, Data, Software by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• Multiple sequence alignment using partial order graphs
  Christopher Lee and Catherine Grasso and Mark F Sharlow Bioinformatics18(3):452--64Mar2002.
  to Molecular Algorithms, Factors, Sequence, RNA, Base Plant Alignment, Proteins, Genetic, Nucleotidyltransferases, Glucose-1-Phosphate Data, Expressed Time DNA, Adenylyltransferase, Homology, Statistical, Specificity, Models, Software, Sensitivity Quality Humans, Messenger, and Sequence Databases, Tags, Control 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 Profiling, Base Studies, Feasibility Data, Sequence Alignment, Algorithms, DNA, Analysis, Molecular Expression Gene Contig Mapping, by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX 
• The fragment assembly string graph
  Eugene W Myers BioinformaticsSep2005.
  to Analysis, DNA Molecular Base Sequence, Sequence Fragmentation, Algorithms, Data, Mapping DNA, Chromosome 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 Alignment, Genome, (Genetics), Conductance Animals, Sequence Phylogeny, DNA, Molecular, Mammals, Functions, Genetic Data, Base Evolution, Models, Fibrosis Regulator, Computer Sequence, Simulation, Molecular Analysis, Variation Cystic Likelihood Transmembrane by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• Toward simplifying and accurately formulating fragment assembly
  E W Myers J Comput Biol2(2):275--90Jan1995.
  to Statistical DNA, of Models, Reproducibility Base Results, Probability, Sequence, Mathematics, Oligodeoxyribonucleotides, by dzerbino and 1 other person 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 Sequence Algorithms, Chromosome DNA, Software, Base Analysis, Sequence, Mapping, Molecular Data, Mapping Contig 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 Molecular Chromatin, Genome, Analysis, Genes, Sites, Insect, Heterochromatin, melanogaster, DNA, Chromosome Physical Contig Computational Sequences, Euchromatin, Drosophila Algorithms, Nucleic Tagged Acid, Repetitive Data, Sequence Mapping, Animals, Biology 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 Sequence (Genetics), Fragment Molecular Genetic, Base Expression Data, Alignment, Fragmentation Variation DNA, Algorithms, Restriction Profiling, DNA Sequence, Length, Analysis, Gene Polymorphism, 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 Statistical Algorithms, Humans, Genomics, Animals, Models, Sequence DNA, Genome, 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, DNA, Sequence Feasibility Studies, Analysis, Human, Humans, Chromosomes, 1, Pair Bacterial Viral, Genome, 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 Computational Genomics, Analysis, Software Sequence Algorithms, Biology, DNA, Genome, by dzerbino on Sep 17, 2007, 8:19 PM
  BibTeX 
• SSAHA: a fast search method for large DNA databases
  Z Ning and A J Cox and J C Mullikin Genome Res11(10):1725--9Oct2001.
  to Software, Systems, Specificity Alignment, DNA, Factual, and Database Algorithms, Sensitivity Base Databases, Composition, Management Sequence 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 Duplication, Sequence Bacterial Algorithms, Gene Software, DNA, Analysis, Computational Biology, Gammaproteobacteria, Genome, 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 Lactococcus Campylobacter Genome, DNA, Algorithms, Mapping, Contig Alignment, jejuni, Models, Sequence Software, Theoretical, meningitidis, lactis Bacterial, Analysis, Neisseria 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 Algorithms, Protein, Expression Profiling, Cluster Models, Sequence Homology Molecular, Analysis, Evolution, Regulation, Alignment, Statistical, Software, Genetic, Gene Chains, Markov DNA, by dzerbino and 1 other person on Sep 17, 2007, 8:19 PM
  BibTeX