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Showing 1–6 of 6 results
Advanced filters: Author: Alex Zelikovsky Clear advanced filters

  • Information on immune receptor repertoire provides important insights on disease progression and therapy development, but can be expensive and time-consuming to obtain. Here the authors report ImReP, a computational method that can extract detailed immune repertoire information from existing tissue-specific RNA sequencing data.

    • Igor Mandric
    • Jeremy Rotman
    • Serghei Mangul
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-14

  • Metagenomics describes the analysis of genetic information in a microbial community to provide taxonomic or functional information on the constituent microorganisms. This Primer describes suitable sample types, sampling handling and processing workflows for metagenomics, and gives a detailed discussion of the various analysis techniques to generate meaningful information from metagenomic data.

    • Shaopeng Liu
    • Judith S. Rodriguez
    • Serghei Mangul
    Reviews
    Nature Reviews Methods Primers
    Volume: 5, P: 1-28

  • Benchmarking studies are important for comprehensively understanding and evaluating different computational omics methods. Here, the authors review practices from 25 recent studies and propose principles to improve the quality of benchmarking studies.

    • Serghei Mangul
    • Lana S. Martin
    • Jonathan Flint
    ReviewsOpen Access
    Nature Communications
    Volume: 10, P: 1-11

  • During the COVID-19 pandemic, genomics and bioinformatics have emerged as essential public health tools. The genomic data acquired using these methods have supported the global health response, facilitated the development of testing methods and allowed the timely tracking of novel SARS-CoV-2 variants. Yet the virtually unlimited potential for rapid generation and analysis of genomic data is also coupled with unique technical, scientific and organizational challenges. Here, we discuss the application of genomic and computational methods for efficient data-driven COVID-19 response, the advantages of the democratization of viral sequencing around the world and the challenges associated with viral genome data collection and processing.

    • Sergey Knyazev
    • Karishma Chhugani
    • Serghei Mangul
    Comments & Opinion
    Nature Methods
    Volume: 19, P: 374-380