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Showing 1–50 of 272 results
Advanced filters: Author: Kevin R Roy Clear advanced filters
  • MedHELM, an extensible evaluation framework including a new taxonomy for classifying medical tasks and a benchmark of many datasets across these categories, enables the evaluation of large language models on real-world clinical tasks.

    • Suhana Bedi
    • Hejie Cui
    • Nigam H. Shah
    Research
    Nature Medicine
    P: 1-9
  • Clonal haematopoiesis of indeterminate potential is driven by somatic mutations in hematopoietic stem/progenitor cells and may progress to myelodysplastic syndromes (MDS). Here authors show that the two conditions share a similar pattern of bone marrow remodeling, characterized by the emergence of inflammatory mesenchymal stromal cells and IFN-responsive T cells, reinforcing their shared etio-pathology.

    • Karin D. Prummel
    • Kevin Woods
    • Borhane Guezguez
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-25
  • To enable a sensed RNA to activate diverse RNA effectors, the authors engineer a programmable dual-site ribozyme that, upon RNA trigger binding, self-cleaves to release an embedded RNA. It enables trigger-dependent release of diverse ncRNAs and controls CRISPR-Cas9 editing in zebrafish and human cells.

    • Mandy Yu Theng Lim
    • Chermaine Tan
    • Sherry Shiying Aw
    ResearchOpen Access
    Nature Communications
    Volume: 17, P: 1-18
  • Small RNAs such as snaR-A (small NF90-associated RNA isoform A) may contribute to cancer-related phenotypes. Here the authors find that snaR-A interacts with mRNA splicing factors in subnuclear foci and causes splicing defects in mRNA subpopulations, which is associated with increased cell proliferation, and poor outcomes in cancer patients.

    • Sihang Zhou
    • Simon Lizarazo
    • Kevin Van Bortle
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-15
  • LARGE1 glycosyltransferase synthesizes matriglycan (xylose-glucuronate)n on dystroglycan, and short matriglycan can cause neuromuscular disorders. Authors show that LARGE1 processively polymerizes matriglycan of defined length on prodystroglycan.

    • Soumya Joseph
    • Nicholas J. Schnicker
    • Kevin P. Campbell
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-15
  • Mucosal melanoma (MM) is a cancer with poor prognosis derived from mucosal melanocytes. Here, the authors implement a combination of genetic changes that occur in MM patients in a zebrafish model, revealing the potential MM cell of origin and showing that patient and zebrafish MMs share a gene signature that is more metastatic and immune-evasive.

    • Swathy Babu
    • Jiajia Chen
    • Megan L. Insco
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-13
  • The medium-resolution transmission spectrum of the exoplanet WASP-39b, described using observations from the Near Infrared Spectrograph G395H grating aboard JWST, shows significant absorption from CO2 and H2O and detection of SO2.

    • Lili Alderson
    • Hannah R. Wakeford
    • Xi Zhang
    ResearchOpen Access
    Nature
    Volume: 614, P: 664-669
  • 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
  • Using SCN2A haploinsufficiency as a proof-of-concept, upregulation of the existing functional gene copy through CRISPR activation was able to rescue neurological-associated phenotypes in Scn2a haploinsufficient mice and human neurons.

    • Serena Tamura
    • Andrew D. Nelson
    • Kevin J. Bender
    Research
    Nature
    Volume: 646, P: 983-991
  • 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
  • The authors present SVclone, a computational method for inferring the cancer cell fraction of structural variants from whole-genome sequencing data.

    • Marek Cmero
    • Ke Yuan
    • Christian von Mering
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-15
  • Chromosome-scale assembly for the cultivated octoploid strawberry (Fragaria × ananassa) uncovers the origin and evolutionary processes that shaped this complex allopolyploid, providing a useful resource for genome-wide analyses and molecular breeding.

    • Patrick P. Edger
    • Thomas J. Poorten
    • Steven J. Knapp
    ResearchOpen Access
    Nature Genetics
    Volume: 51, P: 541-547
  • Phylogenomic analysis of 7,923 angiosperm species using a standardized set of 353 nuclear genes produced an angiosperm tree of life dated with 200 fossil calibrations, providing key insights into evolutionary relationships and diversification.

    • Alexandre R. Zuntini
    • Tom Carruthers
    • William J. Baker
    ResearchOpen Access
    Nature
    Volume: 629, P: 843-850
  • Mammals host a diversity of parasites including lice. Using cophylogenetics and phylogenetic comparative methods, the authors show that the main lineages of placental mammal lice had a single common ancestor and find that all parasitic lice had an avian ancestral host.

    • Kevin P. Johnson
    • Conrad Matthee
    • Jorge Doña
    Research
    Nature Ecology & Evolution
    Volume: 6, P: 1205-1210
  • Whole-genome sequencing, transcriptome-wide association and fine-mapping analyses in over 7,000 individuals with critical COVID-19 are used to identify 16 independent variants that are associated with severe illness in COVID-19.

    • Athanasios Kousathanas
    • Erola Pairo-Castineira
    • J. Kenneth Baillie
    ResearchOpen Access
    Nature
    Volume: 607, P: 97-103
  • This study used fine-mapping to analyze genetic regions associated with bipolar disorder, identifying specific risk genes and providing new insights into the biology of the condition that may guide future research and treatment approaches.

    • Maria Koromina
    • Ashvin Ravi
    • Niamh Mullins
    ResearchOpen Access
    Nature Neuroscience
    Volume: 28, P: 1393-1403
  • Many tumours exhibit hypoxia (low oxygen) and hypoxic tumours often respond poorly to therapy. Here, the authors quantify hypoxia in 1188 tumours from 27 cancer types, showing elevated hypoxia links to increased mutational load, directing evolutionary trajectories.

    • Vinayak Bhandari
    • Constance H. Li
    • Christian von Mering
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-10
  • The authors present DIGIT, a Bayesian imaging method that maps quantum emitters to lattice sites, achieving 0.178 Å precision and a new exponential scaling law, enabling massively parallel, sub-ångström localization in quantum and biological systems.

    • Yuqin Duan
    • Qiushi Gu
    • Dirk R. Englund
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-8
  • Genome-wide analyses identify 30 independent loci associated with obsessive–compulsive disorder, highlighting genetic overlap with other psychiatric disorders and implicating putative effector genes and cell types contributing to its etiology.

    • Nora I. Strom
    • Zachary F. Gerring
    • Manuel Mattheisen
    ResearchOpen Access
    Nature Genetics
    Volume: 57, P: 1389-1401
  • The transmission spectrum of the exoplanet WASP-39b is obtained using observations from the Single-Object Slitless Spectroscopy mode of the Near Infrared Imager and Slitless Spectrograph instrument aboard the JWST.

    • Adina D. Feinstein
    • Michael Radica
    • Xi Zhang
    ResearchOpen Access
    Nature
    Volume: 614, P: 670-675
  • Whole-genome sequencing data for 2,778 cancer samples from 2,658 unique donors across 38 cancer types is used to reconstruct the evolutionary history of cancer, revealing that driver mutations can precede diagnosis by several years to decades.

    • Moritz Gerstung
    • Clemency Jolly
    • Christian von Mering
    ResearchOpen Access
    Nature
    Volume: 578, P: 122-128
  • Some cancer patients first present with metastases where the location of the primary is unidentified; these are difficult to treat. In this study, using machine learning, the authors develop a method to determine the tissue of origin of a cancer based on whole sequencing data.

    • Wei Jiao
    • Gurnit Atwal
    • Christian von Mering
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-12
  • Cancers evolve as they progress under differing selective pressures. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, the authors present the method TrackSig the estimates evolutionary trajectories of somatic mutational processes from single bulk tumour data.

    • Yulia Rubanova
    • Ruian Shi
    • Christian von Mering
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-12
  • Here the authors report asperigimycins, fungal ribosomally synthesized and post-translationally modified peptides with a heptacyclic scaffold. After chemically modifying them for nanomolar anticancer activity, CRISPR screening identifies SLC46A3 as a key transporter for their uptake in cells.

    • Qiuyue Nie
    • Fanglong Zhao
    • Xue Gao
    Research
    Nature Chemical Biology
    Volume: 21, P: 1938-1947
  • There’s an emerging body of evidence to show how biological sex impacts cancer incidence, treatment and underlying biology. Here, using a large pan-cancer dataset, the authors further highlight how sex differences shape the cancer genome.

    • Constance H. Li
    • Stephenie D. Prokopec
    • Christian von Mering
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-24
  • Integrative analyses of transcriptome and whole-genome sequencing data for 1,188 tumours across 27 types of cancer are used to provide a comprehensive catalogue of RNA-level alterations in cancer.

    • Claudia Calabrese
    • Natalie R. Davidson
    • Christian von Mering
    ResearchOpen Access
    Nature
    Volume: 578, P: 129-136
  • The dayside thermal emission spectrum and brightness temperature map of the ultra-hot Jupiter WASP-18b obtained from the NIRISS instrument on the JWST showed water emission features, an atmosphere consistent with solar metallicity, as well as a steep and symmetrical decrease in temperature towards the nightside.

    • Louis-Philippe Coulombe
    • Björn Benneke
    • Peter J. Wheatley
    ResearchOpen Access
    Nature
    Volume: 620, P: 292-298
  • Analyses of 2,658 whole genomes across 38 types of cancer identify the contribution of non-coding point mutations and structural variants to driving cancer.

    • Esther Rheinbay
    • Morten Muhlig Nielsen
    • Christian von Mering
    ResearchOpen Access
    Nature
    Volume: 578, P: 102-111
  • In somatic cells the mechanisms maintaining the chromosome ends are normally inactivated; however, cancer cells can re-activate these pathways to support continuous growth. Here, the authors characterize the telomeric landscapes across tumour types and identify genomic alterations associated with different telomere maintenance mechanisms.

    • Lina Sieverling
    • Chen Hong
    • Christian von Mering
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-13