We are analyzing https://link.springer.com/article/10.1186/gb-2009-10-3-r25.

Title:
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome | Genome Biology
Description:
Bowtie is an ultrafast, memory-efficient alignment program for aligning short DNA sequence reads to large genomes. For the human genome, Burrows-Wheeler indexing allows Bowtie to align more than 25 million reads per CPU hour with a memory footprint of approximately 1.3 gigabytes. Bowtie extends previous Burrows-Wheeler techniques with a novel quality-aware backtracking algorithm that permits mismatches. Multiple processor cores can be used simultaneously to achieve even greater alignment speeds. Bowtie is open source http://bowtie.cbcb.umd.edu .
Website Age:
28 years and 1 months (reg. 1997-05-29).

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Technology & Computing
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🌠 Phenomenal Traffic: 5M - 10M visitors per month

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Keywords {🔍}

bowtie, alignment, reads, genome, read, pubmed, article, index, alignments, maq, algorithm, google, scholar, soap, human, short, mismatches, cas, data, performance, backtracking, central, table, search, burrowswheeler, memory, sequencing, number, aligner, default, full, reference, policy, align, mapping, sensitivity, quality, run, aligned, maqs, query, find, dna, indexing, footprint, size, set, cases, figure, additional,

Topics {✒️}

profile methylation patterns article number r25 ben langmead article download pdf author information authors map dna-protein interactions vivo protein-dna interactions nih grants r01-lm006845 article langmead additional data files accurate short-read alignment support paired-end alignment full-text minute-space high-throughput sequencing instruments full size image memory-efficient alignment program authors’ original file open source tool genome-wide mapping burrows-wheeler index based favors high-quality alignments sensitive homology search short-read aligners open source software privacy choices/manage cookies wall-clock alignment times short read alignment search bowtie finds memory footprint exceeds hash table search proceeds similarly quality-aware backtracking algorithm short oligomers present public databases today hash-based algorithm short dna sequences author correspondence r25 biomed central human reference genome paired-end alignment full access short-read projects [6 additional data concurrent search threads solexa read mapping human-sized reference [23] open source http exactmatch search resumes small memory footprint

Schema {🗺️}

WebPage:
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         headline:Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
         description:Bowtie is an ultrafast, memory-efficient alignment program for aligning short DNA sequence reads to large genomes. For the human genome, Burrows-Wheeler indexing allows Bowtie to align more than 25 million reads per CPU hour with a memory footprint of approximately 1.3 gigabytes. Bowtie extends previous Burrows-Wheeler techniques with a novel quality-aware backtracking algorithm that permits mismatches. Multiple processor cores can be used simultaneously to achieve even greater alignment speeds. Bowtie is open source http://bowtie.cbcb.umd.edu .
         datePublished:2009-03-04T00:00:00Z
         dateModified:2009-03-04T00:00:00Z
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         license:http://creativecommons.org/licenses/by/2.0/
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            Human Reference Genome
            Memory Footprint
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            Human Genetics
            Plant Genetics and Genomics
            Microbial Genetics and Genomics
            Bioinformatics
            Evolutionary Biology
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      headline:Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
      description:Bowtie is an ultrafast, memory-efficient alignment program for aligning short DNA sequence reads to large genomes. For the human genome, Burrows-Wheeler indexing allows Bowtie to align more than 25 million reads per CPU hour with a memory footprint of approximately 1.3 gigabytes. Bowtie extends previous Burrows-Wheeler techniques with a novel quality-aware backtracking algorithm that permits mismatches. Multiple processor cores can be used simultaneously to achieve even greater alignment speeds. Bowtie is open source http://bowtie.cbcb.umd.edu .
      datePublished:2009-03-04T00:00:00Z
      dateModified:2009-03-04T00:00:00Z
      pageStart:1
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         Central Processing Unit
         Human Reference Genome
         Memory Footprint
         NCBI Short Read Archive
         Animal Genetics and Genomics
         Human Genetics
         Plant Genetics and Genomics
         Microbial Genetics and Genomics
         Bioinformatics
         Evolutionary Biology
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                     type:PostalAddress
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               type:PostalAddress
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      affiliation:
            name:Institute for Advanced Computer Studies, University of Maryland
            address:
               name:Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, USA
               type:PostalAddress
            type:Organization
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      affiliation:
            name:Institute for Advanced Computer Studies, University of Maryland
            address:
               name:Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, USA
               type:PostalAddress
            type:Organization
      name:Steven L Salzberg
      affiliation:
            name:Institute for Advanced Computer Studies, University of Maryland
            address:
               name:Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, USA
               type:PostalAddress
            type:Organization
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      name:Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, USA
      name:Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, USA
      name:Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, USA

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