Nature Search

The secretome of senescent monocytes predicts age-related clinical outcomes in humans

Olinger, Banarjee et al. use several proteomic approaches to profile the senescent monocyte secretome and identify senescence-associated circulating proteins that associate with age- and obesity-related phenotypes in two independent aging studies.

Bradley Olinger
Reema Banarjee
Nathan Basisty
Research03 Jun 2025
Nature Aging

Volume: 5, P: 1266-1279
Low CCR5 expression protects HIV-specific CD4+ T cells of elite controllers from viral entry

Here, Claireaux et al. show that people who naturally control HIV infection express lower levels of the viral co-receptor CCR5 in specific CD4⁺ T cells, and that this results from mutations or receptor internalization by CD4⁺ T cell-produced chemokines.

Mathieu Claireaux
Rémy Robinot
Lisa A. Chakrabarti
ResearchOpen Access26 Jan 2022
Nature Communications

Volume: 13, P: 1-19
A comprehensive platform for analyzing longitudinal multi-omics data

The analysis of longitudinal bulk and single-cell multi-omics data is a highly complex task. Here, the authors introduce PALMO, a software platform with five modules to analyse longitudinal bulk and single-cell multi-omics data, which is extensively tested in external datasets that include multiple omics modalities.

Suhas V. Vasaikar
Adam K. Savage
Xiao-jun Li
ResearchOpen Access27 Mar 2023
Nature Communications

Volume: 14, P: 1-16
Decoding a cryptic mechanism of metronidazole resistance among globally disseminated fluoroquinolone-resistant Clostridioides difficile

Detection of resistance to the antibiotic metronidazole in C. difficile often requires the presence of heme in the media, for unclear reasons. Here, the authors show that most metronidazole-resistant strains carry a mutation that promotes expression of a heme-dependent enzyme that degrades nitroimidazoles, and the mutation often co-occurs with an amino-acid substitution in DNA gyrase that confers resistance to another class of antibiotics, fluoroquinolones.

Abiola O. Olaitan
Chetna Dureja
Julian G. Hurdle
ResearchOpen Access12 Jul 2023
Nature Communications

Volume: 14, P: 1-15
SHOC2 phosphatase-dependent RAF dimerization mediates resistance to MEK inhibition in RAS-mutant cancers

Targeted inhibition of the ERK-MAPK pathway is challenged by the development of resistance and toxicity. Here, the authors show that SHOC2 genetic inhibition impairs lung tumour development and improves MEK inhibitor efficacy in RAS- and EGFR-mutant cells.

Greg G. Jones
Isabel Boned del Río
Pablo Rodriguez-Viciana
ResearchOpen Access10 Jun 2019
Nature Communications

Volume: 10, P: 1-16
Comparative cost analysis of a diagnostic multi-omics platform for decision support in advanced cancer – results from the Tumor Profiler Melanoma project

Tarun Mehra
Dominik Menges
Andreas Wicki
ResearchOpen Access17 Dec 2025
npj Precision Oncology

Volume: 10, P: 1-9
T-cell dysfunction in the glioblastoma microenvironment is mediated by myeloid cells releasing interleukin-10

The tumour microenvironment counteracts immune therapy in Glioblastomas. Authors show here, using spatially resolved and single cell transcriptomics, that dysfunctional T cells are induced by a myeloid cell subset via Interleukin-10 signalling, and inhibition of the downstream JAK/STAT pathway might restore glioblastoma immune therapy responsiveness.

Vidhya M. Ravi
Nicolas Neidert
Dieter Henrik Heiland
ResearchOpen Access17 Feb 2022
Nature Communications

Volume: 13, P: 1-16
Dysregulation of brain and choroid plexus cell types in severe COVID-19

Single-nucleus transcriptomes of frontal cortex and choroid plexus samples from patients with COVID-19 reveal pathological cell states that are similar to those associated with human neurodegenerative diseases and chronic brain disorders.

Andrew C. Yang
Fabian Kern
Tony Wyss-Coray
Research21 Jun 2021
Nature

Volume: 595, P: 565-571
Proimmunogenic impact of MEK inhibition synergizes with agonist anti-CD40 immunostimulatory antibodies in tumor therapy

Immune checkpoint inhibitors have limited efficacy in tumors with lower mutational burden and non-permissive microenvironment. Here, the authors show that combining MEK inhibition with an agonist anti-CD40 immunostimulatory antibody improves antitumor treatment by inducing immunogenic changes in the tumor microenvironment.

Daniel Baumann
Tanja Hägele
Rienk Offringa
ResearchOpen Access01 May 2020
Nature Communications

Volume: 11, P: 1-18
Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

Resistance to first line treatment is a major hurdle in cancer treatment, that can be overcome with drug combinations. Here, the authors provide a large drug combination screen across cancer cell lines to benchmark crowdsourced methods and to computationally predict drug synergies.

Michael P. Menden
Dennis Wang
Julio Saez-Rodriguez
ResearchOpen Access17 Jun 2019
Nature Communications

Volume: 10, P: 1-17
Defining the disease liability of variants in the cystic fibrosis transmembrane conductance regulator gene

Garry Cutting and colleagues report a comprehensive functional and clinical analysis of CFTR variants reported in cystic fibrosis. They determine that 128 of 160 CFTR variants with an allele frequency of >0.01% are causal for disease.

Patrick R Sosnay
Karen R Siklosi
Garry R Cutting
Research25 Aug 2013
Nature Genetics

Volume: 45, P: 1160-1167
Quantitative multiplexed profiling of cellular signaling networks using phosphotyrosine-specific DNA-tagged SH2 domains

Kevin Dierck
Kazuya Machida
Peter Nollau
Research23 Aug 2006
Nature Methods

Volume: 3, P: 737-744
C. difficile intoxicates neurons and pericytes to drive neurogenic inflammation

The molecular mechanism underlying the severe neurogenic inflammation induced by Clostridioides difficile is presented, providing a therapeutic target for treating this infection.

John Manion
Melissa A. Musser
Min Dong
Research12 Sept 2023
Nature

Volume: 622, P: 611-618
Targeting bacterial membrane function: an underexploited mechanism for treating persistent infections

Infections involving slow-growing and persistent bacteria, includingMycobacterium tuberculosisand biofilms, are difficult to treat. Here, Hurdle and colleagues argue that developing antibiotics to target the bacterial membrane and membrane functions is a promising approach for the treatment for these difficult-to-treat infections.

Julian G. Hurdle
Alex J. O'Neill
Richard E. Lee
Reviews16 Dec 2010
Nature Reviews Microbiology

Volume: 9, P: 62-75
Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins

Wollscheid et al. describe a multiplexed, mass spectrometry–based approach to catalog glycoproteins on the surfaces of live cells without the need for antibodies. They use it to monitor changes in the cell-surface glycoproteome during T-cell activation and the differentiation of embryonic stem cells to neural progenitors.

Bernd Wollscheid
Damaris Bausch-Fluck
Julian D Watts
Research06 Apr 2009
Nature Biotechnology

Volume: 27, P: 378-386
Trimodal single-cell profiling reveals a novel pediatric CD8αα⁺ T cell subset and broad age-related molecular reprogramming across the T cell compartment

Using TEA-seq, Thomson et al. detail transcriptional and epigenetic alterations in the T cell compartment between healthy children and older adults, leading to the discovery of a novel pediatric CD8αα⁺ population poised for rapid effector responses.

Zachary Thomson
Ziyuan He
Claire E. Gustafson
ResearchOpen Access16 Oct 2023
Nature Immunology

Volume: 24, P: 1947-1959
Spectinamides: a new class of semisynthetic antituberculosis agents that overcome native drug efflux

New antibiotics are needed to treat drug-resistant Mycobacterium tuberculosis infections. Richard Lee and his colleagues now report a new series of semisynthetic spectinomycin analogs that show promise as potentially safe and effective antitubercular drug candidates.

Richard E Lee
Julian G Hurdle
Anne J Lenaerts
Research26 Jan 2014
Nature Medicine

Volume: 20, P: 152-158
Bacterial persister cells tackled

Chronic infections can be hard to treat because slow-growing bacteria known as persister cells are usually unharmed by antibiotics. The identification of molecules that target such cells might provide a solution.

Julian G. Hurdle
Aditi Deshpande
News & Views28 Mar 2018
Nature

Volume: 556, P: 40-41
Frizzled proteins are colonic epithelial receptors for C. difficile toxin B

Here, a genome-wide CRISPR–Cas9 screen is used to identify the Wnt receptors frizzled as physiologically relevant Clostridium difficile toxin B receptors, providing new therapeutic targets for treating C. difficile infections.

Liang Tao
Jie Zhang
Min Dong
Research28 Sept 2016
Nature

Volume: 538, P: 350-355
The AIMe registry for artificial intelligence in biomedical research

We present the AIMe registry, a community-driven reporting platform for AI in biomedicine. It aims to enhance the accessibility, reproducibility and usability of biomedical AI models, and allows future revisions by the community.

Julian Matschinske
Nicolas Alcaraz
David B. Blumenthal
Comments & Opinion25 Aug 2021
Nature Methods

Volume: 18, P: 1128-1131
Evaluation of a large language model to simplify discharge summaries and provide cardiological lifestyle recommendations

Rust et al. evaluate a large language model to simplify cardiology discharge summaries and provide lifestyle recommendations. Findings show improved readability while maintaining medical accuracy, as well as relevant, but not sufficiently personalized, lifestyle recommendations.

Paul Rust
Julian Frings
Leonard Fehring
ResearchOpen Access29 May 2025
Communications Medicine

Volume: 5, P: 1-11
Expanding access to water quality monitoring with the open-source WaterScope testing platform

Alicja Dabrowska
George R. Lewis
Sammy Mahdi
ResearchOpen Access23 Jul 2024
npj Clean Water

Volume: 7, P: 1-10
Host genetics and infectious disease: new tools, insights and translational opportunities

Infectious diseases are an ever-present global threat. In this Review, Kwok, Mentzer and Knight discuss our latest understanding of how human genetics influence susceptibility to disease. Furthermore, they discuss emerging progress in the interplay between host and pathogen genetics, molecular responses to infection and vaccination, and opportunities to bring these aspects together for rapid responses to emerging diseases such as COVID-19.

Andrew J. Kwok
Alex Mentzer
Julian C. Knight
Reviews04 Dec 2020
Nature Reviews Genetics

Volume: 22, P: 137-153
Skeletal muscle proteomics: considerations and opportunities

Julian P. H. Wong
Yaan-Kit Ng
Benjamin L. Parker
ReviewsOpen Access02 Jul 2025
npj Metabolic Health and Disease

Volume: 3, P: 1-10
On-chip beam rotators, adiabatic mode converters, and waveplates through low-loss waveguides with variable cross-sections

A new technology enables fast production of waveguide (SPIM-WG) based high performance optical devices with very low loss, precisely organized refractive index, arbitrarily variable cross-sections and high coupling efficiency.

Bangshan Sun
Fyodor Morozko
Martin J. Booth
ResearchOpen Access07 Jul 2022
Light: Science & Applications

Volume: 11, P: 1-15
Cross-instrument optical coherence tomography-angiography (OCTA)-based prediction of age-related macular degeneration (AMD) disease activity using artificial intelligence

Anna Heinke
Haochen Zhang
William R. Freeman
ResearchOpen Access07 Nov 2024
Scientific Reports

Volume: 14, P: 1-9
Sphingosine 1-phosphate modulation and immune cell trafficking in inflammatory bowel disease

Intestinal immune cell trafficking is a tightly regulated process involved in health and disease. This Review discusses the sphingosine 1-phosphate modulators as therapeutic agents in targeting leukocyte trafficking and inflammation in inflammatory bowel disease.

Bram Verstockt
Stefania Vetrano
Severine Vermeire
Reviews14 Feb 2022
Nature Reviews Gastroenterology & Hepatology

Volume: 19, P: 351-366
NF-κB inhibitors, unique γ-pyranol-γ-lactams with sulfide and sulfoxide moieties from Hawaiian plant Lycopodiella cernua derived fungus Paraphaeosphaeria neglecta FT462

Chun-Shun Li
Ariel M. Sarotti
Shugeng Cao
ResearchOpen Access05 Sept 2017
Scientific Reports

Volume: 7, P: 1-10
Distinct regional ontogeny and activation of tumor associated macrophages in human glioblastoma

Alexander P. Landry
Michael Balas
Zsolt Zador
ResearchOpen Access11 Nov 2020
Scientific Reports

Volume: 10, P: 1-13
Identification of Novel Alzheimer’s Disease Loci Using Sex-Specific Family-Based Association Analysis of Whole-Genome Sequence Data

Dmitry Prokopenko
Julian Hecker
Rudolph E. Tanzi
ResearchOpen Access19 Mar 2020
Scientific Reports

Volume: 10, P: 1-9
Supervised training of spiking neural networks for robust deployment on mixed-signal neuromorphic processors

Julian Büchel
Dmitrii Zendrikov
Dylan R. Muir
ResearchOpen Access03 Dec 2021
Scientific Reports

Volume: 11, P: 1-12
Defining multiplicity of vector uptake in transfected Plasmodium parasites

Manuela Carrasquilla
Sophie Adjalley
Marcus C. S. Lee
ResearchOpen Access02 Jul 2020
Scientific Reports

Volume: 10, P: 1-11
Chemical Modulation of the Biological Activity of Reutericyclin: a Membrane-Active Antibiotic from Lactobacillusreuteri

Philip T. Cherian
Xiaoqian Wu
Julian G. Hurdle
ResearchOpen Access17 Apr 2014
Scientific Reports

Volume: 4, P: 1-9
Syntheses and evaluation of macrocyclic engelhardione analogs as antitubercular and antibacterial agents

Li Shen
Marcus M Maddox
Dianqing Sun
Research03 Apr 2013
The Journal of Antibiotics

Volume: 66, P: 319-325
Design, synthesis and microbiological evaluation of ampicillin–tetramic acid hybrid antibiotics

Philip T Cherian
Aditi Deshpande
Richard E Lee
Research18 May 2016
The Journal of Antibiotics

Volume: 70, P: 65-72

Search

The secretome of senescent monocytes predicts age-related clinical outcomes in humans

Low CCR5 expression protects HIV-specific CD4+ T cells of elite controllers from viral entry

A comprehensive platform for analyzing longitudinal multi-omics data

Decoding a cryptic mechanism of metronidazole resistance among globally disseminated fluoroquinolone-resistant Clostridioides difficile

SHOC2 phosphatase-dependent RAF dimerization mediates resistance to MEK inhibition in RAS-mutant cancers

Comparative cost analysis of a diagnostic multi-omics platform for decision support in advanced cancer – results from the Tumor Profiler Melanoma project

T-cell dysfunction in the glioblastoma microenvironment is mediated by myeloid cells releasing interleukin-10

Dysregulation of brain and choroid plexus cell types in severe COVID-19

Proimmunogenic impact of MEK inhibition synergizes with agonist anti-CD40 immunostimulatory antibodies in tumor therapy

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

Defining the disease liability of variants in the cystic fibrosis transmembrane conductance regulator gene

Quantitative multiplexed profiling of cellular signaling networks using phosphotyrosine-specific DNA-tagged SH2 domains

C. difficile intoxicates neurons and pericytes to drive neurogenic inflammation

Targeting bacterial membrane function: an underexploited mechanism for treating persistent infections

Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins

Trimodal single-cell profiling reveals a novel pediatric CD8αα⁺ T cell subset and broad age-related molecular reprogramming across the T cell compartment

Spectinamides: a new class of semisynthetic antituberculosis agents that overcome native drug efflux

Bacterial persister cells tackled

Frizzled proteins are colonic epithelial receptors for C. difficile toxin B

The AIMe registry for artificial intelligence in biomedical research

Evaluation of a large language model to simplify discharge summaries and provide cardiological lifestyle recommendations

Expanding access to water quality monitoring with the open-source WaterScope testing platform

Host genetics and infectious disease: new tools, insights and translational opportunities

Skeletal muscle proteomics: considerations and opportunities

On-chip beam rotators, adiabatic mode converters, and waveplates through low-loss waveguides with variable cross-sections

Cross-instrument optical coherence tomography-angiography (OCTA)-based prediction of age-related macular degeneration (AMD) disease activity using artificial intelligence

Sphingosine 1-phosphate modulation and immune cell trafficking in inflammatory bowel disease

NF-κB inhibitors, unique γ-pyranol-γ-lactams with sulfide and sulfoxide moieties from Hawaiian plant Lycopodiella cernua derived fungus Paraphaeosphaeria neglecta FT462

Distinct regional ontogeny and activation of tumor associated macrophages in human glioblastoma

Identification of Novel Alzheimer’s Disease Loci Using Sex-Specific Family-Based Association Analysis of Whole-Genome Sequence Data

Supervised training of spiking neural networks for robust deployment on mixed-signal neuromorphic processors

Defining multiplicity of vector uptake in transfected Plasmodium parasites

Chemical Modulation of the Biological Activity of Reutericyclin: a Membrane-Active Antibiotic from Lactobacillusreuteri

Syntheses and evaluation of macrocyclic engelhardione analogs as antitubercular and antibacterial agents

Design, synthesis and microbiological evaluation of ampicillin–tetramic acid hybrid antibiotics

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