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Showing 51–100 of 5442 results
Advanced filters: Author: Matthew D. Best Clear advanced filters
  • Whole-genome sequencing data from more than 2,500 cancers of 38 tumour types reveal 16 signatures that can be used to classify somatic structural variants, highlighting the diversity of genomic rearrangements in cancer.

    • Yilong Li
    • Nicola D. Roberts
    • Christian von Mering
    ResearchOpen Access
    Nature
    Volume: 578, P: 112-121
  • In this study the authors consider the structural variants (SVs) present within cancer cases of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium. They report hundreds of genes, including known cancer-associated genes for which the nearby presence of a SV breakpoint is associated with altered expression.

    • Yiqun Zhang
    • Fengju Chen
    • Christian von Mering
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-14
  • This study reveals that an outer membrane protein from the predator Bdellovibrio bacteriovorus forms a pentameric assembly that traps a lipid monolayer within. This allows the discovery of two superfamilies, distributed across a wide range of bacteria, likely to adopt a similar architecture.

    • Rebecca J. Parr
    • Yoann G. Santin
    • Andrew L. Lovering
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-14
  • Approaches making virtual and experimental screening more resource-efficient are vital for identifying effective inhibitors from a vast pool of potential drugs but remain elusive. Here, the authors address this issue by developing an active learning framework leveraging high-throughput molecular dynamics simulations to identify potential inhibitors for therapeutic applications.

    • Katarina Elez
    • Tim Hempel
    • Frank Noé
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-12
  • Many protein–protein interactions depend on Short Linear Motifs (SLiMs). In this study, the authors use large-scale binding assays, deep mutational scanning, and structural analysis to map SLiMs recognised by human cyclins and uncover the rules that determine their specificity and affinity.

    • Mihkel Örd
    • Matthew J. Winters
    • Norman E. Davey
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-19
  • New field measurements and modeling show meltwater refreezing in Greenland’s bare ice may reduce runoff to surrounding oceans, highlighting a process climate models can incorporate for improved predictions of future sea-level rise.

    • Matthew G. Cooper
    • Laurence C. Smith
    • Dirk van As
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-11
  • Gel electrophoresis image analysis still largely relies on manual or semi-automatic tools, limiting both efficiency and reproducibility. Here, authors introduce GelGenie, an AI-driven open-source platform that rapidly detects gel bands under various conditions.

    • Matthew Aquilina
    • Nathan J. W. Wu
    • Katherine E. Dunn
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-17
  • An analysis of 24,202 critical cases of COVID-19 identifies potentially druggable targets in inflammatory signalling (JAK1), monocyte–macrophage activation and endothelial permeability (PDE4A), immunometabolism (SLC2A5 and AK5), and host factors required for viral entry and replication (TMPRSS2 and RAB2A).

    • Erola Pairo-Castineira
    • Konrad Rawlik
    • J. Kenneth Baillie
    ResearchOpen Access
    Nature
    Volume: 617, P: 764-768
  • In this prespecified exploratory biomarker analysis of the placebo-controlled CheckMate 274 trial, a composite model of adaptive immunity biomarkers and clinical parameters was identified and shown to predict benefit from nivolumab treatment in patients with muscle-invasive urothelial cancer.

    • Matthew D. Galsky
    • Dean F. Bajorin
    • Andrea Necchi
    Research
    Nature Medicine
    Volume: 31, P: 3062-3073
  • Previous research shows surprising rewards drive learning. Here, the authors show that affective error signals (emotional surprise) independently promote learning, and are associated with neural signals separable from reward error signals.

    • Joseph Heffner
    • Romy Frömer
    • Oriel FeldmanHall
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-11
  • Achieving phosphorus circularity is a key challenge to realizing sustainable phosphorus use, and recycling is a major route to accomplish this goal. This Review explores global barriers to phosphorus recycling and discusses approaches to overcome the technical, economic and societal challenges in attaining sustainable phosphorus management.

    • Henrique Rasera Raniro
    • Juan Serrano-Gomez
    • Kasper Reitzel
    Reviews
    Nature Reviews Earth & Environment
    P: 1-18
  • Here the authors apply machine learning approaches to Alzheimer’s genetics, confirm known associations and suggest novel risk loci. These methods demonstrate predictive power comparable to traditional approaches, while also offering potential new insights beyond standard genetic analyses.

    • Matthew Bracher-Smith
    • Federico Melograna
    • Valentina Escott-Price
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-16
  • Hypoimmune gene editing in human pluripotent stem cells (hPSCs) provides a promising platform for cellular therapies. Here, the authors report that CRISPR mediated deletion of ICAM-1 in hPSC-derived grafts reduces immune cell adhesion, dampens T cell activation, and protects against immune rejection.

    • Sayandeep Saha
    • W. John Haynes
    • Matthew E. Brown
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-16
  • On 12 February 2025, a joint meeting of the UK Aging Networks was held in Liverpool, UK. It was convened by the ECMage (extracellular matrix aging) network and EuroAgeNet, an initiative led by ECMage but involving four other UK aging networks — namely, the building links in aging science and translation network (BLAST), the cognitive frailty interdisciplinary network (CFIN), the aging and nutrient sensing network (AGENTS) and the food systems for older people (Food4Years) network — together with industrial and European partners. In this Meeting Report, we summarize the opinions of an industrial panel and round-table discussions on barriers and opportunities related to academic–industrial partnerships.

    • Joe Swift
    • Angela Cucchi
    • Elizabeth G. Canty-Laird
    News & Views
    Nature Aging
    P: 1-5
  • Viral pathogen load in cancer genomes is estimated through analysis of sequencing data from 2,656 tumors across 35 cancer types using multiple pathogen-detection pipelines, identifying viruses in 382 genomic and 68 transcriptome datasets.

    • Marc Zapatka
    • Ivan Borozan
    • Christian von Mering
    ResearchOpen Access
    Nature Genetics
    Volume: 52, P: 320-330
  • Metal–ligand cooperative catalysis involves both the metal and the ligand moieties present in a complex interacting with substrates. Cooperative catalysis is central to the mechanisms of hydrogenases, lactate racemase and alcohol dehydrogenase. This Perspective describes these enzymes, as well as the small-molecule mimics inspired by these elaborate natural catalysts.

    • Matthew D. Wodrich
    • Xile Hu
    Reviews
    Nature Reviews Chemistry
    Volume: 2, P: 1-7
  • A post-translational backbone extension acyl rearrangement (BEAR) reaction has now been developed that converts a ribosomal protein product into a new product containing a β-peptide, γ-peptide or δ-peptide backbone. BEAR reactions represent a general strategy to install extended backbones into genetically encoded proteins and peptides expressed in cells.

    • Leah T. Roe
    • Isabel M. Piper
    • Alanna Schepartz
    Research
    Nature Chemical Biology
    Volume: 21, P: 1621-1630
  • A global network of researchers was formed to investigate the role of human genetics in SARS-CoV-2 infection and COVID-19 severity; this paper reports 13 genome-wide significant loci and potentially actionable mechanisms in response to infection.

    • Mari E. K. Niemi
    • Juha Karjalainen
    • Chloe Donohue
    ResearchOpen Access
    Nature
    Volume: 600, P: 472-477
  • Sequencing analysis of tamoxifen-associated uterine cancers and further in vivo analyses suggest that the drug tamoxifen can activate the PI3K pathway in the absence of oncogenic mutations.

    • Kirsten Kübler
    • Agostina Nardone
    • Rinath Jeselsohn
    ResearchOpen Access
    Nature Genetics
    Volume: 57, P: 2192-2202
  • Here, the authors show that post-translational molecular signatures of human skeletal muscle in response to acute or chronic aerobic and resistance exercise are distinct, potentially dictating the differential physiologic adaptations to different exercise modes.

    • Mark W. Pataky
    • Carrie J. Heppelmann
    • K. Sreekumaran Nair
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-19
  • Viral vector integration can affect the safety of gene and cell therapies. Here, authors introduce MELISSA, a regression-based statistical tool that quantifies integration site risks and clone growth effects, aiding the safety evaluation of therapies in both research and clinical settings.

    • Tsai-Yu Lin
    • Giacomo Ceoldo
    • Danilo Pellin
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-18
  • Distal gene regulation is increasingly recognised as a major contributor to complex trait variability. Here, the authors show that a heritable, biologically interpretable transcriptome signature driven by distal regulation predicts metabolic traits across mice and humans.

    • Anna L. Tyler
    • J. Matthew Mahoney
    • Gregory W. Carter
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-21
  • The discovery of 2023 KQ14, a Sedna-like object with a perihelion of 66 au, fills a gap in the known population. Its orbit does not align with other Sedna-like objects, shedding light on the diversity and dynamical history of the outer Solar System.

    • Ying-Tung Chen
    • Patryk Sofia Lykawka
    • Ji-Lin Zhou
    ResearchOpen Access
    Nature Astronomy
    Volume: 9, P: 1309-1316
  • This multiomic study, including single-nucleus DNA methylation and chromatin conformation matched with single-nuclei RNA sequencing, provides insights into the epigenomic landscape of human subcutaneous adipose tissue.

    • Zeyuan Johnson Chen
    • Sankha Subhra Das
    • Päivi Pajukanta
    ResearchOpen Access
    Nature Genetics
    Volume: 57, P: 2238-2249
  • An analysis of data from the Sherlock-Lung study provides insight into the mutational processes that contribute to lung cancer in never smokers, and looks at the possible role of factors such as air pollution and passive smoking.

    • Marcos Díaz-Gay
    • Tongwu Zhang
    • Maria Teresa Landi
    Research
    Nature
    Volume: 644, P: 133-144
  • Interacting electrons in Hofstadter bands can form symmetry-broken topological states. These are now revealed in magic-angle twisted bilayer graphene, and their properties are influenced by non-uniform quantum geometry.

    • Minhao He
    • Xiaoyu Wang
    • Xiaodong Xu
    Research
    Nature Physics
    Volume: 21, P: 1380-1386
  • The mantle upwelling beneath the Afar rift may be influenced by tectonic processes in the overriding lithospheric plates that shape the distribution of both the compositional heterogeneities and abundance of melt, according to a geochemical and statistical study of volcanic samples.

    • Emma J. Watts
    • Rhiannon Rees
    • Thomas M. Gernon
    ResearchOpen Access
    Nature Geoscience
    Volume: 18, P: 661-669
  • The authors highlight inconsistencies and divergencies in the literature reporting data on indirect calorimetry for studies on whole-body energy homeostasis, and propose harmonization of standards to facilitate data comparison and interpretation across different datasets.

    • Alexander S. Banks
    • David B. Allison
    • Juleen R. Zierath
    Reviews
    Nature Metabolism
    Volume: 7, P: 1765-1780
  • Considering glaciological, topoclimatic and geological variables in addition to glacial velocity improves the prediction of glacial erosion rates according to a machine learning-based global analysis.

    • Sophie L. Norris
    • John C. Gosse
    • Richard B. Alley
    ResearchOpen Access
    Nature Geoscience
    Volume: 18, P: 732-739
  • CD163 is a receptor used by macrophages to capture and detoxify serum haptoglobin-haemoglobin. Here, the authors show that CD163 adopts a multimeric base that presents three arms that combine to form a versatile, calcium-regulated ligand-binding site.

    • Richard X. Zhou
    • Matthew K. Higgins
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-11