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Showing 1–50 of 124 results
Advanced filters: Author: Caleb A. Class Clear advanced filters
  • Population-scale WGS reveals genetic determinants of persistent EBV DNA, linking immune regulation—especially antigen processing and MHC class II variation—to EBV persistence and heterogeneous disease associations.

    • Sherry S. Nyeo
    • Erin M. Cumming
    • Caleb A. Lareau
    ResearchOpen Access
    Nature
    Volume: 650, P: 664-672
  • 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
  • CLASSIC is a high-throughput genetic profiling platform that combines long- and short-read next-generation-sequencing modalities to quantitatively assess pools of constructs of arbitrary length containing diverse genetic part compositions.

    • Kshitij Rai
    • Ronan W. O’Connell
    • Caleb J. Bashor
    Research
    Nature
    P: 1-10
  • Analysis of 14,106 tumor genomes highlights recurrent mutations in mitochondrial ribosomal RNA encoded within the mitochondrial genome. Mutations occur at hotspot positions and are under strong purifying selection in the germline.

    • Sonia Boscenco
    • Jacqueline Tait-Mulder
    • Payam A. Gammage
    ResearchOpen Access
    Nature Genetics
    Volume: 57, P: 2705-2714
  • This study reveals how human small ubiquitin-like modifier (SUMO) E1 recruits its E2 partner UBC9 and transfers SUMO1 through large structural changes, uncovering key mechanisms that ensure specificity and fidelity in SUMOylation, an essential protein modification pathway.

    • Anindita Nayak
    • Digant Nayak
    • Shaun K. Olsen
    ResearchOpen Access
    Nature Structural & Molecular Biology
    Volume: 32, P: 2441-2453
  • The long-spined sea urchin has colonized areas along the Tasmanian coast owing to climate-induced changes in ocean currents, forming barrens that threaten marine species. This study shows how a government-supported strategy of overfishing this sea urchin could help conservation and fisheries outcomes.

    • Katherine A. Cresswell
    • L. Richard Little
    • Stephen C. Bradshaw
    Research
    Nature Sustainability
    Volume: 8, P: 498-507
  • Long-period radio transients emit powerful polarized signals lasting minutes to an hour. The discovery of ASKAP J1935+2148, a source showing diverse emission modes that resemble neutron-star behaviour, challenges existing ideas of these phenomena.

    • M. Caleb
    • E. Lenc
    • B. W. Stappers
    ResearchOpen Access
    Nature Astronomy
    Volume: 8, P: 1159-1168
  • Coherent radio emission with a long (nearly 6.5 h) period has been detected from both magnetic poles of a rotating compact object, offering insights into the evolution and emission mechanism of compact radio transients.

    • Y. W. J. Lee
    • M. Caleb
    • Z. Wang
    Research
    Nature Astronomy
    Volume: 9, P: 393-405
  • Using the MeerKAT radio telescope, the authors have discovered a neutron star with an ultra-long spin period of 76 s. Though it resides in the neutron star graveyard, it emits radio waves and challenges our understanding of neutron star evolution.

    • Manisha Caleb
    • Ian Heywood
    • Rob Fender
    Research
    Nature Astronomy
    Volume: 6, P: 828-836
  • A long-period radio transient with coincident radio and X-ray emission and observational properties unlike any known Galactic object has been observed by the Australian Square Kilometre Array Pathfinder.

    • Ziteng Wang
    • Nanda Rea
    • Nithyanandan Thyagarajan
    Research
    Nature
    Volume: 642, P: 583-586
  • Multiple myeloma (MM) cancer cells can develop different resistance mechanisms to therapies inducing DNA-damage. Here, the authors show that the mitochondrial DNA repair protein DNA2 promotes MM cells survival after DNA damage-induced metabolic reprogramming.

    • Natthakan Thongon
    • Feiyang Ma
    • Simona Colla
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-13
  • Type 2 Long QT syndrome is a cardiac disease associated with hundreds of individual mutations within the Kv11.1 potassium channel. Here, the authors systematically investigate the trafficking defects associated with different types of Kv11.1 mutations and to what extent they can be corrected pharmacologically.

    • Corey L. Anderson
    • Catherine E. Kuzmicki
    • Craig T. January
    Research
    Nature Communications
    Volume: 5, P: 1-13
  • A study describes chromatin accessibility and paired gene expression across the entire developing human brain during the first trimester in the context of gene regulation and neurodevelopmental disease.

    • Camiel C. A. Mannens
    • Lijuan Hu
    • Sten Linnarsson
    ResearchOpen Access
    Nature
    Volume: 647, P: 179-186
  • The Signac framework enables the end-to-end analysis of single-cell chromatin data and interoperability with the Seurat package for multimodal analysis.

    • Tim Stuart
    • Avi Srivastava
    • Rahul Satija
    Research
    Nature Methods
    Volume: 18, P: 1333-1341
  • Diketopiperazine (DKP) natural products have diverse structures and biological functions. Here, the authors elucidate the biosynthetic pathway for indole alkaloid DKP nocardioazine B which includes DKP stereoisomerization by an unusual aspartate/glutamate racemase homolog and N- and C-methylation by a dual function methyltransferase.

    • Garrett Deletti
    • Sajan D. Green
    • Amy L. Lane
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-13
  • Disease risk variants can exert their influence on phenotypes by altering epigenome function. Here, Pelikan et al. show that variants inducing allelic imbalance in histone marks in lymphoblastoid cell lines from lupus patients are enriched in autoimmune disease haplotypes and influence gene expression.

    • Richard C. Pelikan
    • Jennifer A. Kelly
    • Patrick M. Gaffney
    ResearchOpen Access
    Nature Communications
    Volume: 9, P: 1-14
  • Exome sequencing of 851 trios from more than 2,500 individuals finds 187 genes with de novo mutations that contribute to meningomyelocele (spina bifida) and highlights critical pathways required for neural tube closure.

    • Yoo-Jin Jiny Ha
    • Ashna Nisal
    • Joseph G. Gleeson
    Research
    Nature
    Volume: 641, P: 419-426
  • Cytokines are immune signaling molecules that are frequently dysregulated in disease. Here, the authors create engineered cytokine ‘adaptors,’ molecular switches that simultaneously block a target cytokine while inducing local activation of alternative cytokine receptors.

    • Gita C. Abhiraman
    • Karsten D. Householder
    • K. Christopher Garcia
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-11
  • Mouse models often combine mutant alleles to accelerate cancer development, limiting oncogenic diversity. Here the authors show that sporadic MYC activation in Vk*MYC mice is sufficient to induce tumors with a variety of secondary mutations that mirror the genetic heterogeneity of human myeloma.

    • Francesco Maura
    • David G. Coffey
    • Marta Chesi
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-15
  • A study of human and mouse models of pancreatic cancer finds that inhibiting the lipid kinase PIKfyve interferes with the cancer’s lipid homeostasis, making it a potential target for drug development.

    • Caleb Cheng
    • Jing Hu
    • Arul M. Chinnaiyan
    ResearchOpen Access
    Nature
    Volume: 642, P: 776-784
  • Transcriptomic and proteomic analyses show that high levels of the extracellular-matrix protein osteopontin are associated with the attenuated foreign-body response elicited by breast silicone implants wrapped with acellular dermal matrix.

    • Michelle F. Griffin
    • Jennifer B. Parker
    • Michael T. Longaker
    Research
    Nature Biomedical Engineering
    Volume: 9, P: 1254-1275
  • The precise mechanism by which gut microbiota influence the immunotherapy response of tumors in anatomically distant locations remains debated. In this study, using organoids and animal models, Zhang and colleagues show that Bifidobacterium-derived extracellular vesicles synergize the anti-tumor effect of anti-PD-1 via modulation of key cytokines, immune response and oncogenic pathways, and increase in tumor-infiltrating CD8 + T cells.

    • Ranjan Preet
    • Md Atiqul Islam
    • Jun Zhang
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-19
  • Fine-mapping of blood cell traits in the UK Biobank identifies putative causal variants and enrichment of fine-mapped variants in accessible chromatin of hematopoietic progenitor cells. The study provides an analytical framework for single-variant and single-cell analyses of genetic associations.

    • Jacob C. Ulirsch
    • Caleb A. Lareau
    • Vijay G. Sankaran
    Research
    Nature Genetics
    Volume: 51, P: 683-693
  • A number of natural occurring small-molecule splicing modulators are known. Here, the authors combine chemogenomic, structural and biochemical methods and show that these compounds also target the spliceosome-associated protein PHF5A and propose a potential modulator binding site in the PHF5A–SF3B1 complex.

    • Teng Teng
    • Jennifer HC Tsai
    • Ping Zhu
    ResearchOpen Access
    Nature Communications
    Volume: 8, P: 1-16
  • Keypoint-MoSeq is an unsupervised behavior segmentation algorithm that extracts behavioral modules from keypoint tracking data acquired with diverse algorithms, as demonstrated in mice, rats and fruit flies. The extracted modules faithfully reflect human-annotated behaviors even though they are obtained in an unsupervised fashion.

    • Caleb Weinreb
    • Jonah E. Pearl
    • Sandeep Robert Datta
    ResearchOpen Access
    Nature Methods
    Volume: 21, P: 1329-1339
  • The transfer of electronic energy through a photosystem can harm the photosynthetic apparatus when not balanced with CO2 fixation. Here, the authors show that CO2 modulates electronic energy transfer in cyanobacteria by binding to and enhancing the activity of the light-harvesting complex.

    • Alejandra Guillén-García
    • Savannah E. R. Gibson
    • Martin J. Cann
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-10
  • Radio pulses from a rare, radio-loud magnetar, XTE J1810−197, are seen to have undergone a conversion in their polarization state. This change can be linked to the magnetar’s magnetic field geometry, and has commonalities with an effect also seen in fast radio bursts.

    • Marcus E. Lower
    • Simon Johnston
    • Benjamin W. Stappers
    ResearchOpen Access
    Nature Astronomy
    Volume: 8, P: 606-616
  • In a large-scale study involving 389 board-certified dermatologists and 459 primary-care physicians from 39 countries, the impact of a deep learning-aided decision support system on physicians’ diagnostic accuracy was tested across 46 skin diseases and for both light and dark skin tones.

    • Matthew Groh
    • Omar Badri
    • Rosalind Picard
    ResearchOpen Access
    Nature Medicine
    Volume: 30, P: 573-583
  • Genomics analyses reveal that in vitro culture of CAR T cells can lead to reactivation of a latent herpesvirus, which might be involved in complications in patients receiving associated cell therapies.

    • Caleb A. Lareau
    • Yajie Yin
    • Ansuman T. Satpathy
    Research
    Nature
    Volume: 623, P: 608-615
  • The results of the Fifth RNA-Puzzles contest highlights advances in RNA three-dimensional structure prediction and uncovers new insights into RNA folding and structure.

    • Fan Bu
    • Yagoub Adam
    • Zhichao Miao
    ResearchOpen Access
    Nature Methods
    Volume: 22, P: 399-411
  • Due to the pulsed nature of X-ray free electron laser (XFEL) instruments the majority of protein crystals, which are injected using continuous jet injection techniques are wasted. Here, the authors present a microfluidic device to deliver aqueous protein crystal laden droplets segmented with an immiscible oil and demonstrate that with this device an approx. 60% reduction in sample waste was achieved for data collection of 3-deoxy-D-manno-octulosonate 8-phosphate synthase crystals at the EuXFEL.

    • Austin Echelmeier
    • Jorvani Cruz Villarreal
    • Alexandra Ros
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-10
  • Low bandgap tin–lead perovskites are crucial to making efficient all-perovskite tandem solar cells but have so far shown poor stability. By removing the hole transport layer and improving film morphology, Prasanna et al. demonstrate a low-gap perovskite solar cell that is stable for 1,000 h under heat, light and atmospheric conditions.

    • Rohit Prasanna
    • Tomas Leijtens
    • Michael D. McGehee
    Research
    Nature Energy
    Volume: 4, P: 939-947
  • Metamaterials enable the realization of unique material properties such as coupling between strain and momentum in a fluid—known as Willis coupling. Here, Muhlesteinet al. use homogenization theory to better understand Willis coupling in acoustic metamaterials and demonstrate the unusual material response.

    • Michael B. Muhlestein
    • Caleb F. Sieck
    • Michael R. Haberman
    ResearchOpen Access
    Nature Communications
    Volume: 8, P: 1-9
  • It is assumed that single-cell analyses capture one barcode per cell. Here, the authors show that up to 21% of cell barcodes on the 10X Chromium scATAC-seq assay may be derived from barcode multiplets.

    • Caleb A. Lareau
    • Sai Ma
    • Jason D. Buenrostro
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-9