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    Article

    Challenges and best practices in omics benchmarking

    Technological advances enabling massively parallel measurement of biological features — such as microarrays, high-throughput sequencing and mass spectrometry — have ushered in the omics era, now in its third d...

    Thomas G. Brooks, Nicholas F. Lahens, Antonijo Mrčela in Nature Reviews Genetics (2024)

  2. Article

    Open Access

    CAMPAREE: a robust and configurable RNA expression simulator

    The accurate interpretation of RNA-Seq data presents a moving target as scientists continue to introduce new experimental techniques and analysis algorithms. Simulated datasets are an invaluable tool to accura...

    Nicholas F. Lahens, Thomas G. Brooks, Dimitra Sarantopoulou in BMC Genomics (2021)

  3. Article

    Open Access

    Comparative evaluation of full-length isoform quantification from RNA-Seq

    Full-length isoform quantification from RNA-Seq is a key goal in transcriptomics analyses and has been an area of active development since the beginning. The fundamental difficulty stems from the fact that RNA...

    Dimitra Sarantopoulou, Thomas G. Brooks, Soumyashant Nayak in BMC Bioinformatics (2021)