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Showing 1–8 of 8 results
Advanced filters: Author: Lorenzo Calviello Clear advanced filters

  • Non-canonical HLA-bound peptides from presumed non-coding regions are potential targets for cancer immunotherapy, but their discovery remains challenging. Here, the authors integrate exome sequencing, transcriptomics, ribosome profiling, and immunopeptidomics to identify tumor-specific non-canonical HLA-bound peptides.

    • Chloe Chong
    • Markus Müller
    • Michal Bassani-Sternberg
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-21

  • Computational analysis of Ribo-seq data with ORFquant allows annotation and quantification of translation at the level of single open reading frames and reveals the extent of gene-specific differences in protein production in diverse human cell lines.

    • Lorenzo Calviello
    • Antje Hirsekorn
    • Uwe Ohler
    Research
    Nature Structural & Molecular Biology
    Volume: 27, P: 717-725

  • A human–SARS-CoV-2 protein interaction map highlights cellular processes that are hijacked by the virus and that can be targeted by existing drugs, including inhibitors of mRNA translation and predicted regulators of the sigma receptors.

    • David E. Gordon
    • Gwendolyn M. Jang
    • Nevan J. Krogan
    Research
    Nature
    Volume: 583, P: 459-468

  • RiboTaper quantifies the three-nucleotide periodicity in Ribo-seq data to find translated open reading frames (ORFs). The de novo inferred set of ORFs comprehensively defines the cellular proteome across a wide expression range and comprises few additional translated noncoding regions.

    • Lorenzo Calviello
    • Neelanjan Mukherjee
    • Uwe Ohler
    Research
    Nature Methods
    Volume: 13, P: 165-170

  • Subcellular localization of RNAs and proteins is important for polarized cells such as neurons. Here the authors differentiate mouse embryonic stem cells into neurons, and analyze the local transcriptome, proteome, and translated transcriptome in their cell bodies and neurites, providing a unique resource for future studies on neuronal polarity.

    • Alessandra Zappulo
    • David van den Bruck
    • Marina Chekulaeva
    ResearchOpen Access
    Nature Communications
    Volume: 8, P: 1-13