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Showing 1–19 of 19 results
Advanced filters: Author: Christophe Dessimoz Clear advanced filters

  • A new method to reconstruct ancestral genomes is used to estimate contigs of the last common ancestor of eukaryotes and to infer features such as the age of gene adjacencies and chromosome rearrangements.

    • Charles Bernard
    • Yannis Nevers
    • Christophe Dessimoz
    ResearchOpen Access
    Nature Ecology & Evolution
    Volume: 9, P: 1951-1961

  • Using a new method called FoldTree, the authors compare proteins on the basis of their shape to construct more accurate family trees over long evolutionary timescales and capture distant relationships where sequence information becomes less reliable.

    • David Moi
    • Charles Bernard
    • Christophe Dessimoz
    ResearchOpen Access
    Nature Structural & Molecular Biology
    Volume: 32, P: 2492-2502

  • Fission yeastSchizosaccharomyces pombe has diverse traits. Jeffares et al. characterize large copy number variations (CNVs) and rearrangements in S. pombe, and show that CNVs are transient with effects on quantitative traits and gene expression, whereas rearrangements influence intrinsic reproductive isolation.

    • Daniel C. Jeffares
    • Clemency Jolly
    • Fritz J. Sedlazeck
    ResearchOpen Access
    Nature Communications
    Volume: 8, P: 1-11

  • FastOMA achieves fast and accurate orthology inference, with linear scalability.

    • Sina Majidian
    • Yannis Nevers
    • Christophe Dessimoz
    ResearchOpen Access
    Nature Methods
    Volume: 22, P: 269-272

  • An efficient and scalable strategy with robust error correction is reported for encoding a record amount of information (including images, text and audio files) in DNA strands; a ‘DNA archive’ has been synthesized, shipped from the USA to Germany, sequenced and the information read.

    • Nick Goldman
    • Paul Bertone
    • Ewan Birney
    Research
    Nature
    Volume: 494, P: 77-80

  • An analysis of publicly available viral genomes explores the evolutionary dynamics of host jumps and shows that humans are as much a source of viral spillover events to other animals as they are recipients.

    • David Moi
    • Christophe Dessimoz
    News & Views
    Nature Ecology & Evolution
    Volume: 8, P: 854-855

  • Sexual reproduction in eukaryotes involves gamete fusion, mediated by fusogenic proteins. Here, the authors identify fusogenic protein homologs encoded within mobile genetic elements in archaeal genomes, solve the crystal structure of one of the proteins, and show that its ectopic expression can fuse mammalian cells, suggesting potential roles in cell-cell fusion and gene exchange.

    • David Moi
    • Shunsuke Nishio
    • Benjamin Podbilewicz
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-18

  • Circulating tumour DNA profiling in early-stage non-small-cell lung cancer can be used to track single-nucleotide variants in plasma to predict lung cancer relapse and identify tumour subclones involved in the metastatic process.

    • Christopher Abbosh
    • Nicolai J. Birkbak
    • Charles Swanton
    Research
    Nature
    Volume: 545, P: 446-451

  • In the life sciences, FAIR principles have reshaped research policy, but their implementation still relies largely on individual researchers – many of whom lack the expertise or support needed to make data truly reusable. Realising FAIR’s promise requires sustained investment in the infrastructures that organise, standardise, and curate data: deposition databases and knowledgebases. These biodata resources are especially critical for AI, which depends on large, high-quality, and consistent data. Landmark advances like AlphaFold and the COVID-19 response illustrate how sustained curation and standardisation in expert resources such as UniProt and the Protein Data Bank have enabled rapid innovation. Yet biodata resources remain precariously funded, jeopardising long-term sustainability and the expert workforce they require. To support ambitious, data-driven science, funders must align policy and budgets by establishing dedicated mechanisms that allocate a small (e.g., 1%), but strategic and stable share, of research funding to core data infrastructures. This would maximise the value of public investment, strengthen open science and international collaboration, and unlock the full potential of FAIR.

    • Lucy Poveda
    • Gavin Farrell
    • Christophe Dessimoz
    Comments & OpinionOpen Access
    Scientific Data
    Volume: 13, P: 1-5

  • The solution of the longstanding “protein folding problem” in 2021 showcased the transformative capabilities of AI in advancing the biomedical sciences. AI was characterized as successfully learning from protein structure data, which then spurred a more general call for AI-ready datasets to drive forward medical research. Here, we argue that it is the broad availability of knowledge, not just data, that is required to fuel further advances in AI in the scientific domain. This represents a quantum leap in a trend toward knowledge democratization that had already been developing in the biomedical sciences: knowledge is no longer primarily applied by specialists in a sub-field of biomedicine, but rather multidisciplinary teams, diverse biomedical research programs, and now machine learning. The development and application of explicit knowledge representations underpinning democratization is becoming a core scientific activity, and more investment in this activity is required if we are to achieve the promise of AI.

    • Christophe Dessimoz
    • Paul D. Thomas
    Comments & OpinionOpen Access
    Scientific Data
    Volume: 11, P: 1-5