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  1. Analyzed Page
  2. Matching Content Categories
  3. CMS
  4. Monthly Traffic Estimate
  5. How Does Doi.org Make Money
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We began analyzing https://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-4-r36, but it redirected us to https://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-4-r36. The analysis below is for the second page.

Title[redir]:
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions | Genome Biology | Full Text
Description:
TopHat is a popular spliced aligner for RNA-sequence (RNA-seq) experiments. In this paper, we describe TopHat2, which incorporates many significant enhancements to TopHat. TopHat2 can align reads of various lengths produced by the latest sequencing technologies, while allowing for variable-length indels with respect to the reference genome. In addition to de novo spliced alignment, TopHat2 can align reads across fusion breaks, which can occur after genomic translocations. TopHat2 combines the ability to identify novel splice sites with direct mapping to known transcripts, producing sensitive and accurate alignments, even for highly repetitive genomes or in the presence of pseudogenes. TopHat2 is available at http://ccb.jhu.edu/software/tophat .

Matching Content Categories {📚}

  • Education
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Content Management System {📝}

What CMS is doi.org built with?

Custom-built

No common CMS systems were detected on Doi.org, and no known web development framework was identified.

Traffic Estimate {📈}

What is the average monthly size of doi.org audience?

🏙️ Massive Traffic: 50M - 100M visitors per month


Based on our best estimate, this website will receive around 91,155,781 visitors per month in the current month.

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How Does Doi.org Make Money? {💸}

We're unsure how the site profits.

Not all websites focus on profit; some are designed to educate, connect people, or share useful tools. People create websites for numerous reasons. And this could be one such example. Doi.org might be plotting its profit, but the way they're doing it isn't detectable yet.

Keywords {🔍}

reads, tophat, alignments, genome, alignment, read, rnaseq, mapping, pubmed, figure, table, splice, spliced, genes, article, number, sites, edit, human, file, star, mapsplice, gene, indels, additional, gsnap, realignment, transcripts, annotations, exons, aligned, pseudogene, results, google, scholar, central, accuracy, data, pseudogenes, distance, methods, authors, experiments, full, original, size, rum, cas, multiple, programs,

Topics {✒️}

keywords=e-mtab-513&expandefo= springer nature author information authors supplementary material simple command-line switch rna-seq unified mapper rna-seq experimental designs authors scientific editing rna-seq reads gathered tthe rna-seq reads real rna-seq dataset call short-anchored reads rna-seq mapping algorithms fixed-length k-mers enhances indel-finding ability exon-spanning reads privacy choices/manage cookies entire human genome rna-seq alignment algorithms rna-seq mapping tools real rna-seq reads years splice site authors’ original file full-length transcripts defined short-anchored reads separately bmc rna-seq read alignment full size image rna-seq alignment program junction-spanning reads extend average exon length simulated rna-seq data core read-alignment engine abbreviations bp multiple sequencing runs long paired-end reads rna-sequencing analysis software 1474-760x contact resulting edit distance edit distance values entire read sequence rna-seq dataset article kim 1186/gb-2013-14-4-r36 share spliced-read alignments increases figures s3-s4 deletion rna-seq transcriptome mapping improves rna-seq mapping

Questions {❓}

Schema {🗺️}

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         description:TopHat is a popular spliced aligner for RNA-sequence (RNA-seq) experiments. In this paper, we describe TopHat2, which incorporates many significant enhancements to TopHat. TopHat2 can align reads of various lengths produced by the latest sequencing technologies, while allowing for variable-length indels with respect to the reference genome. In addition to de novo spliced alignment, TopHat2 can align reads across fusion breaks, which can occur after genomic translocations. TopHat2 combines the ability to identify novel splice sites with direct mapping to known transcripts, producing sensitive and accurate alignments, even for highly repetitive genomes or in the presence of pseudogenes. TopHat2 is available at http://ccb.jhu.edu/software/tophat .
         datePublished:2013-04-25T00:00:00Z
         dateModified:2013-04-25T00:00:00Z
         pageStart:1
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            Edit Distance
            Entire Human Genome
            Multiple Exon
            Transcriptome Mapping
            Animal Genetics and Genomics
            Human Genetics
            Plant Genetics and Genomics
            Microbial Genetics and Genomics
            Bioinformatics
            Evolutionary Biology
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      headline:TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
      description:TopHat is a popular spliced aligner for RNA-sequence (RNA-seq) experiments. In this paper, we describe TopHat2, which incorporates many significant enhancements to TopHat. TopHat2 can align reads of various lengths produced by the latest sequencing technologies, while allowing for variable-length indels with respect to the reference genome. In addition to de novo spliced alignment, TopHat2 can align reads across fusion breaks, which can occur after genomic translocations. TopHat2 combines the ability to identify novel splice sites with direct mapping to known transcripts, producing sensitive and accurate alignments, even for highly repetitive genomes or in the presence of pseudogenes. TopHat2 is available at http://ccb.jhu.edu/software/tophat .
      datePublished:2013-04-25T00:00:00Z
      dateModified:2013-04-25T00:00:00Z
      pageStart:1
      pageEnd:13
      license:http://creativecommons.org/licenses/by/2.0/
      sameAs:https://doi.org/10.1186/gb-2013-14-4-r36
      keywords:
         Splice Site
         Edit Distance
         Entire Human Genome
         Multiple Exon
         Transcriptome Mapping
         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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            address:
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      name:Department of Computer Science, University of Maryland, College Park, MD, USA
      name:Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, USA
      name:Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, USA
      name:Broad Institute of MIT and Harvard, Cambridge, USA
      name:Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, USA
      name:Department of Electrical Engineering and Computer Science, University of California, Berkeley, USA
      name:Illumina Inc., San Diego, USA
      name:Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, USA
      name:Department of Biostatistics, Bloomberg School of Public Health, Johns Hopkins University, Baltimore, USA

Social Networks {👍}(2)

External Links {🔗}(232)

Analytics and Tracking {📊}

  • Google Tag Manager

Libraries {📚}

  • Prism.js

Emails and Hosting {✉️}

Mail Servers:

  • mx.zoho.eu
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Name Servers:

  • josh.ns.cloudflare.com
  • zita.ns.cloudflare.com

CDN Services {📦}

  • Crossref

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