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Showing 101–150 of 357 results
Advanced filters: Author: Benjamin D. Simons Clear advanced filters
  • Using unique barcodes for tumour cells, the authors explore the dynamics of human glioblastoma subpopulations, and suggest that clonal heterogeneity emerges through stochastic fate decisions of a neutral proliferative hierarchy.

    • Xiaoyang Lan
    • David J. Jörg
    • Peter B. Dirks
    Research
    Nature
    Volume: 549, P: 227-232
  • Elise Robinson, Mark Daly and colleagues present an analysis of genetic data from autism spectrum disorder (ASD) and population-based studies and find evidence for genetic correlations between ASDs and typical variation in social behavior and communication traits. These results may inform genetic models of ASDs and other neuropsychiatric disorders.

    • Elise B Robinson
    • Beate St Pourcain
    • Mark J Daly
    Research
    Nature Genetics
    Volume: 48, P: 552-555
  • A deep neural network with ‘knockout training’ is used to model sensorimotor transformations and neural perturbations of male Drosophila melanogaster during visually guided social behaviour and provides predictions and insights into relationships between stimuli, neurons and behaviour.

    • Benjamin R. Cowley
    • Adam J. Calhoun
    • Mala Murthy
    ResearchOpen Access
    Nature
    Volume: 629, P: 1100-1108
  • Here, the authors quantify the effect of cryo-EM data acquisition with stage-tilt on the global resolution of reconstructions and present a tool for predicting an optimal stage-tilt angle to ameliorate the effects of preferred specimen orientation.

    • Sriram Aiyer
    • Philip R. Baldwin
    • Dmitry Lyumkis
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-19
  • From 1980 to 2018, the levels of total and non-high-density lipoprotein cholesterol increased in low- and middle-income countries, especially in east and southeast Asia, and decreased in high-income western countries, especially those in northwestern Europe, and in central and eastern Europe.

    • Cristina Taddei
    • Bin Zhou
    • Majid Ezzati
    ResearchOpen Access
    Nature
    Volume: 582, P: 73-77
  • Functional roles of natural acetylcholine (ACh) dynamics are not fully understood. This study reveals dynamic changes in ACh release across the mouse striatum during learning and extinction, identifying how and where release dynamics shape brain plasticity to gate learning and promote extinction of cue-reward associations.

    • Safa Bouabid
    • Liangzhu Zhang
    • Mark W. Howe
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-21
  • An improved, fully re-annotated Aedes aegypti genome assembly (AaegL5) provides insights into the sex-determining M locus, chemosensory systems that help mosquitoes to hunt humans and loci involved in insecticide resistance and will help to generate intervention strategies to fight this deadly disease vector.

    • Benjamin J. Matthews
    • Olga Dudchenko
    • Leslie B. Vosshall
    ResearchOpen Access
    Nature
    Volume: 563, P: 501-507
  • Inducible genetic mosaics can provide information about cellular lineages that are otherwise difficult to obtain. Here the authors report a mosaic knockout system called Red2Flpe-SCON, which allows lineage tracing of wild-type and mutant cells using a multicolour fluorescent reporter in mice.

    • Szu-Hsien Sam Wu
    • Somi Kim
    • Bon-Kyoung Koo
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-12
  • A wide variety of tissues exhibit nested hierarchical organisation of cells in gene expression and activities. Here, authors present NeST, a method for spatial transcriptomics to identify such structures and uncover their functions via ligand-receptor communication, in both two and three dimensions.

    • Benjamin L. Walker
    • Qing Nie
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-17
  • The existence of a topological bulk-boundary correspondence for Dirac semimetals has remained an open question. Here, Wieder et al. predict one-dimensional hinge states originating from bulk three-dimensional Dirac points in solid-state Dirac semimetals, revealing condensed matter Dirac fermions to be higher-order topological.

    • Benjamin J. Wieder
    • Zhijun Wang
    • B. Andrei Bernevig
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-13
  • The halictid bee Lasioglossum albipes has both solitary and eusocial individuals, making it a model for social evolution. Here, Kocher et al. identify a genetic variation associated with this social polymorphism, including a variant that can regulate the expression of an autism-associated gene, syntaxin 1a.

    • Sarah D. Kocher
    • Ricardo Mallarino
    • Naomi E. Pierce
    ResearchOpen Access
    Nature Communications
    Volume: 9, P: 1-7
  • Whether a single group of stem cells or multiple populations contribute to the homeostasis of the interfollicular epidermis is controversial; here the authors use lineage tracing and mathematical modelling to show that the progenitors that maintain mouse epidermis are underpinned by slow-cycling stem cells that become mobilized on injury.

    • Guilhem Mascré
    • Sophie Dekoninck
    • Cédric Blanpain
    Research
    Nature
    Volume: 489, P: 257-262
  • Using genetic lineage tracing, tumour cells are traced in vivo in an unperturbed solid tumour; in a carcinogen-induced papilloma mouse model, cells in these benign lesions are found to mirror the clonal hierarchy organization of normal tissue.

    • Gregory Driessens
    • Benjamin Beck
    • Cédric Blanpain
    Research
    Nature
    Volume: 488, P: 527-530
  • The anomeric effect is a chemical phenomenon that refers to an observed stabilization of six-membered carbohydrate rings when they contain an electronegative substituent at the C1 position of the ring. This stereoelectronic effect influences the three-dimensional shapes of many biological molecules, but the underlying physical origin is unclear. Here it is shown that complexes formed between a truncated peptide motif and an isolated sugar in the gas phase are nearly identical structurally; however, the strength of the polarization of their interactions with the peptide differs greatly. It will be important to re-evaluate the influence, and biological effects, of substituents at position C2 of the six-membered carbohydrate rings.

    • Emilio J. Cocinero
    • Pierre Carcabal
    • Benjamin G. Davis
    Research
    Nature
    Volume: 469, P: 76-79
  • Simulating molecular adsorption on surfaces presents considerable challenges, as computational methods typically suffer from either insufficient accuracy or prohibitive computational costs. Now, with an open-source multilevel embedding approach, adsorption processes on the surfaces of ionic materials can be modelled routinely with an accuracy comparable to that of experiments.

    • Benjamin X. Shi
    • Andrew S. Rosen
    • Angelos Michaelides
    ResearchOpen Access
    Nature Chemistry
    Volume: 17, P: 1688-1695
  • A report from the Australian Acute Care Genomics programme shows that the integration of rapid whole-genome sequencing and multi-omic analyses informs diagnoses and treatment decisions in a prospective cohort of 290 critically ill infants and children.

    • Sebastian Lunke
    • Sophie E. Bouffler
    • Zornitza Stark
    ResearchOpen Access
    Nature Medicine
    Volume: 29, P: 1681-1691
  • Angelman syndrome is a neurodevelopmental disorder caused by the deletion of a single gene. Here, researchers discovered a small molecule that could be delivered peripherally to activate a dormant copy of the gene throughout the brain, providing a potential treatment opportunity.

    • Hanna Vihma
    • Kelin Li
    • Benjamin D. Philpot
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-16
  • The band topology of nonmagnetic crystals can be characterized by Topological Quantum Chemistry (TQC), whereas the band topology of magnetic crystals remains unexplored. Here, the authors extend TQC to the magnetic space groups to form a complete, real-space theory of band topology in magnetic and nonmagnetic crystalline solids.

    • Luis Elcoro
    • Benjamin J. Wieder
    • B. Andrei Bernevig
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-10
  • The dynamic relaxation spectrum of a supercooled liquid is asymmetric near the glass transition. Overcoming the difficulty of accessing low temperatures and long timescales, simulations now attribute this feature to dynamic facilitation.

    • Benjamin Guiselin
    • Camille Scalliet
    • Ludovic Berthier
    Research
    Nature Physics
    Volume: 18, P: 468-472
  • Ohmic contacts to n-type molybdenum disulfide can be created over a temperature range from millikelvins to 300 K using a window-contacted technique, which leads to evidence for fractional quantum Hall states at filling fractions of 4/5 and 2/5 in the lowest Landau levels of bilayer molybdenum disulfide devices.

    • Siwen Zhao
    • Jinqiang Huang
    • Zheng Vitto Han
    ResearchOpen Access
    Nature Electronics
    Volume: 7, P: 1117-1125
  • Serological testing remains a passive component of the current public health response to the COVID-19 pandemic. Using a mathematical model, the authors examine how testing for antibodies could have enabled policies in which seropositive individuals increased their relative levels of social interaction while offsetting transmission risks

    • Alicia N. M. Kraay
    • Kristin N. Nelson
    • Benjamin A. Lopman
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-10
  • KIF14 is a mitotic kinesin whose malfunction is associated with cerebral and renal developmental defects and several cancers. Here the authors use cryoEM to determine 20 structures of KIF14 constructs bound to microtubules in the presence of different nucleotide analogues and provide the structural basis for a coordinated chemo-mechanical kinesin translocation model.

    • Matthieu P.M.H. Benoit
    • Ana B. Asenjo
    • Hernando Sosa
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-21
  • Bower et al. describe a population of mural lymphatic endothelial cells found along meningeal blood vessels in the adult zebrafish. These mural cells are distinct from meningeal lymphatic vessel cells but form by developmental lymphangiogenesis. They take up low-density lipoproteins from the bloodstream and can modulate angiogenesis during meningeal vascularization.

    • Neil I Bower
    • Katarzyna Koltowska
    • Benjamin M Hogan
    Research
    Nature Neuroscience
    Volume: 20, P: 774-783
  • Elise Robinson and colleagues present the polygenic transmission disequilibrium test (pTDT) for evaluating transmission of polygenic risk in family-based study designs. The authors apply pTDT to a cohort of autism spectrum disorder (ASD) families and find that common polygenic variation acts additively with de novo variants to contribute to ASD risk.

    • Daniel J Weiner
    • Emilie M Wigdor
    • Elise B Robinson
    Research
    Nature Genetics
    Volume: 49, P: 978-985
  • Many topological crystalline phases have unknown physical responses. Here, the authors systematically extend the theory of defect and flux responses to predict zero-dimensional (0D) states in topological crystalline materials, including 2D PbTe monolayers and 3D SnTe.

    • Frank Schindler
    • Stepan S. Tsirkin
    • Benjamin J. Wieder
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-18
  • Honey bee workers take on different tasks for the colony as they age. Here, the authors develop a method to extract a descriptor of the individuals’ social networks and show that interaction patterns predict task allocation and distinguish different developmental trajectories.

    • Benjamin Wild
    • David M. Dormagen
    • Tim Landgraf
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-12
  • Grockowiak et al. explore bone marrow niche heterogeneity in myeloproliferative neoplasms, polycytemia vera and essential thrombocytemia and find JAK2-mutated hematopoietic stem cells occupying distinct niches affecting cell growth and therapy response.

    • Elodie Grockowiak
    • Claudia Korn
    • Simón Méndez-Ferrer
    ResearchOpen Access
    Nature Cancer
    Volume: 4, P: 1193-1209
  • Emerging sulfur isotope data divides opinion surrounding the Great Oxidation Event. Utilising computational approaches and additional data, Uveges et al. reconcile these disparities, offering a more refined framework of atmospheric oxygenation.

    • Benjamin T. Uveges
    • Gareth Izon
    • Roger E. Summons
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-12
  • Three-dimensional simulations of massive star convection show that core-convection-driven gravity wave oscillations at the surface of the star are not the source of ‘red noise’ seen in photometric observations. The search for the source continues.

    • Evan H. Anders
    • Daniel Lecoanet
    • Adam S. Jermyn
    ResearchOpen Access
    Nature Astronomy
    Volume: 7, P: 1228-1234
  • The Cancer Genome Atlas Research Network reports an integrative analysis of more than 400 samples of clear cell renal cell carcinoma based on genomic, DNA methylation, RNA and proteomic characterisation; frequent mutations were identified in the PI(3)K/AKT pathway, suggesting this pathway might be a potential therapeutic target, among the findings is also a demonstration of metabolic remodelling which correlates with tumour stage and severity.

    • Chad J. Creighton
    • Margaret Morgan
    • Heidi J. Sofia.
    ResearchOpen Access
    Nature
    Volume: 499, P: 43-49
  • A mathematical framework to estimate the fitness of cancer driver mutations by integrating mutational bias, oncogenicity and immunogenicity finds fundamental trade-offs in cancer evolution.

    • David Hoyos
    • Roberta Zappasodi
    • Benjamin D. Greenbaum
    ResearchOpen Access
    Nature
    Volume: 606, P: 172-179
  • Here the authors perform a high-throughput screen to identify compounds that stimulate or repress the splicing of neuronal microexons. One of these compounds rescues the splicing of several microexons in the brains of mice haploinsufficient for Srrm4.

    • Andrew J. Best
    • Ulrich Braunschweig
    • Benjamin J. Blencowe
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-17
  • Analysis of whole-genome sequencing data across 2,658 tumors spanning 38 cancer types shows that chromothripsis is pervasive, with a frequency of more than 50% in several cancer types, contributing to oncogene amplification, gene inactivation and cancer genome evolution.

    • Isidro Cortés-Ciriano
    • Jake June-Koo Lee
    • Christian von Mering
    ResearchOpen Access
    Nature Genetics
    Volume: 52, P: 331-341
  • Analysis of mitochondrial genomes (mtDNA) by using whole-genome sequencing data from 2,658 cancer samples across 38 cancer types identifies hypermutated mtDNA cases, frequent somatic nuclear transfer of mtDNA and high variability of mtDNA copy number in many cancers.

    • Yuan Yuan
    • Young Seok Ju
    • Christian von Mering
    ResearchOpen Access
    Nature Genetics
    Volume: 52, P: 342-352
  • An alternative model for the homeostasis of adult epidermis posits posits only one type of stem cell undergoes both symmetric and asymmetric divisions to ensure epidermal homeostasis. A genetic approach of marking single cells in the adult mouse tail epidermis shows that the clones of labelled cells that arise from their inducible labelling approach are most likely to come from a single compartment of proliferating cells, which may undergo an unlimited number of divisions.

    • Elizabeth Clayton
    • David P. Doupé
    • Philip H. Jones
    Research
    Nature
    Volume: 446, P: 185-189