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  • Error correction.

    • Jeff Reynolds
    Comments & Opinion
    Nature
  • Try to stand out from the crowd.

    • Gio Clairval
    Comments & Opinion
    Nature
  • 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
  • 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
  • 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
  • Asynchronous flight in all major groups of insects likely arose from a single common ancestor with reversions to a synchronous flight mode enabled by shifts back and forth between different regimes in the same set of dynamic parameters.

    • Jeff Gau
    • James Lynch
    • Simon Sponberg
    ResearchOpen Access
    Nature
    Volume: 622, P: 767-774
  • Sun et al. report human lifespan changes in the brain’s functional connectome in 33,250 individuals, which highlights critical growth milestones and distinct maturation patterns and offers a normative reference for development, aging and diseases.

    • Lianglong Sun
    • Tengda Zhao
    • Yong He
    Research
    Nature Neuroscience
    Volume: 28, P: 891-901
  • The Southern Ocean is critically important for global climate yet poorly represented by climate models. Here the authors trace sea surface temperature biases in this region to cloud-related errors in atmospheric-model simulated surface heat fluxes and provide a pathway to improve the models.

    • Patrick Hyder
    • John M. Edwards
    • Stephen E. Belcher
    ResearchOpen Access
    Nature Communications
    Volume: 9, 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
  • Vaccination is effective in protecting from COVID-19. Here the authors report immune responses and breakthrough infections in twice-vaccinated patients receiving anti-TNF treatments for inflammatory bowel disease, and find dampened vaccine responses that implicate the need of adapted vaccination schedules for these patients.

    • Simeng Lin
    • Nicholas A. Kennedy
    • Jeannie Bishop
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-14
  • The redox state of volcanic gases and melts can become decoupled during magma ascent, according to observations of gas emissions from Kīlauea’s lava lake, Hawaii. Cooling of fast-rising bubbles changes the abundance of redox-sensitive gas species.

    • Clive Oppenheimer
    • Bruno Scaillet
    • Yves Moussallam
    Research
    Nature Geoscience
    Volume: 11, P: 678-681
  • Chronic infection with SARS-CoV-2 leads to the emergence of viral variants that show reduced susceptibility to neutralizing antibodies in an immunosuppressed individual treated with convalescent plasma.

    • Steven A. Kemp
    • Dami A. Collier
    • Ravindra K. Gupta
    Research
    Nature
    Volume: 592, P: 277-282
  • Sera from vaccinated individuals and some monoclonal antibodies show a modest reduction in neutralizing activity against the B.1.1.7 variant of SARS-CoV-2; but the E484K substitution leads to a considerable loss of neutralizing activity.

    • Dami A. Collier
    • Anna De Marco
    • Ravindra K. Gupta
    Research
    Nature
    Volume: 593, P: 136-141
  • An extensive map of human DNase I hypersensitive sites, markers of regulatory DNA, in 125 diverse cell and tissue types is described; integration of this information with other ENCODE-generated data sets identifies new relationships between chromatin accessibility, transcription, DNA methylation and regulatory factor occupancy patterns.

    • Robert E. Thurman
    • Eric Rynes
    • John A. Stamatoyannopoulos
    ResearchOpen Access
    Nature
    Volume: 489, P: 75-82
  • COVID-19 can be associated with neurological complications. Here the authors show that markers of brain injury, but not immune markers, are elevated in the blood of patients with COVID-19 both early and months after SARS-CoV-2 infection, particularly in those with brain dysfunction or neurological diagnoses.

    • Benedict D. Michael
    • Cordelia Dunai
    • David K. Menon
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-15
  • A high-density DNase I cleavage map from 243 human cell and tissue types provides a genome-wide, nucleotide-resolution map of human transcription factor footprints.

    • Jeff Vierstra
    • John Lazar
    • John A. Stamatoyannopoulos
    ResearchOpen Access
    Nature
    Volume: 583, P: 729-736
  • 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
  • As the US president announced his advisers and agency heads after taking office, Nature tracked the appointees who matter most to science.

    • Nidhi Subbaraman
    • Jeff Tollefson
    • Alexandra Witze
    News
    Nature
  • 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
  • This study finds that sST2 is a disease-causing factor for Alzheimer’s disease. Higher sST2 levels impair microglial Aβ clearance in APOE4+ female individuals. A genetic variant, rs1921622, is associated with a reduction in sST2 level and protects against AD in APOE4+ female individuals.

    • Yuanbing Jiang
    • Xiaopu Zhou
    • Nancy Y. Ip
    ResearchOpen Access
    Nature Aging
    Volume: 2, P: 616-634
  • The interplay between amyloid and tau pathology in Alzheimer’s disease is still not well understood. Here, the authors show that amyloid-related increased in soluble p-tau is related to subsequent accumulation of tau aggregates and cognitive decline in early stage of the disease.

    • Alexa Pichet Binette
    • Nicolai Franzmeier
    • Oskar Hansson
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-16
  • A case–control study investigating the causes of recent cases of acute hepatitis of unknown aetiology in 32 children identifies an association between adeno-associated virus infection and host genetics in disease susceptibility.

    • Antonia Ho
    • Richard Orton
    • Emma C. Thomson
    Research
    Nature
    Volume: 617, P: 555-563
  • In Alzheimer’s disease (AD) tau and neurodegeneration have complex regional relationships. Here, the authors show neuronal hypometabolism discordant with tau burden defines functional resilience or susceptibility to Alzheimer’s pathology via limbic/cortical axes. Susceptible groups have faster cognitive decline and evidence of non-Alzheimer’s pathologies.

    • Michael Tran Duong
    • Sandhitsu R. Das
    • Ilya M. Nasrallah
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-15
  • Alzheimer’s disease is heterogeneous in its neuroimaging and clinical phenotypes. Here the authors present a semi-supervised deep learning method, Smile-GAN, to show four neurodegenerative patterns and two progression pathways providing prognostic and clinical information.

    • Zhijian Yang
    • Ilya M. Nasrallah
    • Balebail Ashok Raj
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-15
  • High-resolution maps of DNase I hypersensitive sites from 733 human biosamples are used to identify and index regulatory DNA within the human genome.

    • Wouter Meuleman
    • Alexander Muratov
    • John Stamatoyannopoulos
    ResearchOpen Access
    Nature
    Volume: 584, P: 244-251
  • The Mouse ENCODE Consortium has mapped transcription, DNase I hypersensitivity, transcription factor binding, chromatin modifications and replication domains throughout the mouse genome in diverse cell and tissue types; these data were compared with those from human to confirm substantial conservation in the newly annotated potential functional sequences and to reveal pronounced divergence of other sequences involved in transcriptional regulation, chromatin state and higher order chromatin organization.

    • Feng Yue
    • Yong Cheng
    • Bing Ren
    ResearchOpen Access
    Nature
    Volume: 515, P: 355-364
  • Alzheimer’s disease has been associated with increased structural brain aging. Here the authors describe a model that predicts brain aging from resting state functional connectivity data, and demonstrate this is accelerated in individuals with pre-clinical familial Alzheimer’s disease.

    • Julie Gonneaud
    • Alex T. Baria
    • Etienne Vachon-Presseau
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-17
  • RNA-sequencing analysis of cells in the human cortex enabled identification of diverse cell types, revealing well-conserved architecture and homologous cell types as well as extensive differences when compared with datasets covering the analogous region of the mouse brain.

    • Rebecca D. Hodge
    • Trygve E. Bakken
    • Ed S. Lein
    Research
    Nature
    Volume: 573, P: 61-68
  • Post-international travel quarantine has been widely implemented to mitigate SARS-CoV-2 transmission, but the impacts of such policies are unclear. Here, the authors used linked genomic and contact tracing data to assess the impacts of a 14-day quarantine on return to England in summer 2020.

    • Dinesh Aggarwal
    • Andrew J. Page
    • Ewan M. Harrison
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-13
  • In this study, Aggarwal and colleagues perform prospective sequencing of SARS-CoV-2 isolates derived from asymptomatic student screening and symptomatic testing of students and staff at the University of Cambridge. They identify important factors that contributed to within university transmission and onward spread into the wider community.

    • Dinesh Aggarwal
    • Ben Warne
    • Ian G. Goodfellow
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-16
  • The BIN1 SNP rs744373 is associated with higher CSF tau and phosphorylated tau levels. Here the authors show, using PET imaging, that this SNP is associated with tau accumulation in the brain as well as impaired memory in older individuals without dementia.

    • Nicolai Franzmeier
    • Anna Rubinski
    • Ansgar J. Furst
    ResearchOpen Access
    Nature Communications
    Volume: 10, P: 1-12
  • Mouse genomic footprinting reveals conservation of transcription factor (TF) recognition repertoires and trans-regulatory circuitry despite massive turnover of DNA elements that contact TFs in vivo.

    • Andrew B. Stergachis
    • Shane Neph
    • John A. Stamatoyannopoulos
    ResearchOpen Access
    Nature
    Volume: 515, P: 365-370
  • Mutations in the BAF SWI/SNF complex subunits are frequent in cancers but selective therapeutic approaches are not available yet. Here, the authors demonstrate that defects ofARID1Aand other subunits sensitizes cancer cells to the DNA checkpoint kinase inhibitor ATR in a synthetic lethal manner.

    • Chris T. Williamson
    • Rowan Miller
    • Christopher J. Lord
    ResearchOpen Access
    Nature Communications
    Volume: 7, P: 1-13