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Showing 1–11 of 11 results
Advanced filters: Author: Christoph Krisp Clear advanced filters

  • Dataset integration is common practice to overcome limitations in statistically underpowered omics datasets. Here the authors present “HarmonizR”, a tool for missing data tolerant experimental variance reduction in large, integrated but independently generated datasets without data imputation, adjustable for individual dataset modalities, correction algorithm, and user preferences.

    • Hannah Voß
    • Simon Schlumbohm
    • Christoph Krisp
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-15

  • The gut microbiome is key to health, yet its protein functions remain largely unexplored. Here, the authors present uMetaP, ultra-sensitive metaproteomics workflow that combines the timsTOF Ultra and FDR-validated de novo sequencing, boosting detection 5,000-fold and revealing gut inflammation targets.

    • Feng Xian
    • Malena Brenek
    • David Gómez-Varela
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-16

  • Medulloblastomas (MBs) are highly heterogeneous paediatric brain tumours that remain challenging to treat. Here, the authors integrate proteomics, epigenomics, transcriptomics and post-translational modification analyses to find molecular subgroups and potential therapeutic targets in MB tumours.

    • Shweta Godbole
    • Hannah Voß
    • Julia E. Neumann
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-24

  • Urothelial cancer is a challenging disease and an emerging field for targeted therapies. Here, the authors optimize clinical proteomics to provide proteome-level data on tumor specificity and identify robust prognostic subtypes with predictive information for repurposed drug candidates.

    • Franz F. Dressler
    • Falk Diedrichs
    • Ákos Végvári
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-19

  • Specificity of inhibitors of voltage-gated ion channels is crucial for their use as therapeutics. Here, the authors show that adamantane derivatives interact with a specific binding site on fenestrations that only become available when accessory subunits are bound to the channel.

    • Eva Wrobel
    • Ina Rothenberg
    • Guiscard Seebohm
    ResearchOpen Access
    Nature Communications
    Volume: 7, P: 1-13

  • The ER chaperone BiP is critical for the unfolded protein response and tightly regulated through reversible AMPylation by FICD, but the structural basis is unknown. Here the authors use thiol-reactive nucleotide derivatives to stabilize the transient FICD:BiP complex and determine its crystal structure.

    • Joel Fauser
    • Burak Gulen
    • Aymelt Itzen
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-14

  • Many bacterial pathogens release effector enzymes belonging to the large Fic family, which modify host targets with nucleotide monophosphates. Now, recombinantly produced Fic enzymes have been equipped with synthetic thiol-reactive nucleotide derivatives to make covalent binary probes. The reaction of modified Fic enzymes with their targets permits covalent substrate capture and the structural determination of low-affinity ternary enzyme–nucleotide–substrate complexes.

    • Burak Gulen
    • Marie Rosselin
    • Aymelt Itzen
    Research
    Nature Chemistry
    Volume: 12, P: 732-739

  • SWATH-mass spectrometry consists of a data-independent acquisition and a targeted data analysis strategy that aims to maintain the favorable quantitative characteristics on the scale of thousands of proteins. Here, using data generated by eleven groups worldwide, the authors show that SWATH-MS is capable of generating highly reproducible data across different laboratories.

    • Ben C. Collins
    • Christie L. Hunter
    • Ruedi Aebersold
    ResearchOpen Access
    Nature Communications
    Volume: 8, P: 1-12

  • In this study, the authors provide a global overview of SARS-CoV-2 genome sequencing, and estimate the proportion of cases sequenced and time to genome upload. They identify disparities and highlight the need to strengthen surveillance in lower and middle income countries.

    • Anderson F. Brito
    • Elizaveta Semenova
    • Nuno R. Faria
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-13