Searching journal content for articles similar to Smith-Unna et al. 26 (8): 1134.

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  1. Method: TransBorrow: genome-guided transcriptome assembly by borrowing assemblies from different assemblers
    • Ting Yu,
    • Zengchao Mu,
    • Zhaoyuan Fang,
    • Xiaoping Liu,
    • Xin Gao,
    • and Juntao Liu
    Genome Res. August 2020 30: 1181-1190; Published in Advance August 17, 2020, doi:10.1101/gr.257766.119
    ...reference-based) and de novo. In general, if a high-quality is available for some species, such as humans, -guided assemblers such as Scallop (Shao and Kingsford 2017), TransComb (Liu et al. 2016b), StringTie (Pertea et al. 2015), StringTie2 (Kovaka et al. 2019), Cufflinks (Trapnell et al. 2010), Class2...
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  2. Method: Nematode gene annotation by machine-learning-assisted proteotranscriptomics enables proteome-wide evolutionary analysis
    • Alejandro Ceron-Noriega,
    • Miguel V. Almeida,
    • Michal Levin,
    • and Falk Butter
    Genome Res. January 2023 33: 112-128; Published in Advance January 18, 2023, doi:10.1101/gr.277070.122
    ...N50) were highly similar to the ExN50 values of the C. elegans WormBase annotation, especially for the GF assembly (Pearson's r of 0.96 for GF-WormBase and 0.88 for GG-WormBase comparison) (Fig. 1A). TransRate (Smith-Unna et al. 2016) transcriptome overall assembly scores were 0.39 for GF and GG, well...
  3. Method: Increased taxon sampling reveals thousands of hidden orthologs in flatworms
    • José M. Martín-Durán,
    • Joseph F. Ryan,
    • Bruno C. Vellutini,
    • Kevin Pang,
    • and Andreas Hejnol
    Genome Res. July 2017 27: 1263-1272; Published in Advance April 11, 2017, doi:10.1101/gr.216226.116
    ...: 2662–2673. Smith-Unna RD, Boursnell C, Patro R, Hibberd JM, Kelly S. 2015. TransRate: reference free quality assessment of de-novo transcriptome assemblies. bioRxiv 021626. Solà E, Álvarez-Presas M, Frías-López C, Littlewood DT, Rozas J, Riutort M. 2015. Evolutionary analysis of mitos from...
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