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Publisher Correction: Comprehensive evaluation of phosphoproteomic-based kinase activity inference

Sophia Müller-Dott
Eric J. Jaehnig
Julio Saez-Rodriguez
Amendments and CorrectionsOpen Access17 Jul 2025
Nature Communications

Volume: 16, P: 1
An unbiased ranking of murine dietary models based on their proximity to human metabolic dysfunction-associated steatotic liver disease (MASLD)

The LITMUS consortium provides a resource of rodent MASLD models benchmarked against metabolic, histologic and transcriptomic features that are relevant for human MASLD. The work is useful for selecting relevant rodent models for studying this common disease.

Michele Vacca
Ioannis Kamzolas
Antonio Vidal-Puig
ResearchOpen Access12 Jun 2024
Nature Metabolism

Volume: 6, P: 1178-1196
Systems analysis of RhoGEF and RhoGAP regulatory proteins reveals spatially organized RAC1 signalling from integrin adhesions

Müller et al. provide a comprehensive resource depicting cellular substrates, localization and interacting partners of RhoGEF and RhoGAP proteins regulating the canonical Rho family of GTPases.

Paul M. Müller
Juliane Rademacher
Oliver Rocks
Research23 Mar 2020
Nature Cell Biology

Volume: 22, P: 498-511
Advancing cell–cell communication analysis from single-cell genomics data

CellPhoneDB infers cell–cell communication by integrating single-cell genomics data with a curated database of ligand–receptor interactions. Now, a Protocol Update describes the latest version of the tool including many new features.

Iguaracy Pinheiro-de-Sousa
Evangelia Petsalaki
News & Views25 Mar 2025
Nature Protocols

P: 1-3
Myelin–axon interface vulnerability in Alzheimer’s disease revealed by subcellular proteomics and imaging of human and mouse brain

In Alzheimer’s disease (AD), disruptions in myelin and axonal structures occur, although the underlying mechanisms remain unclear. Here the authors show that, at the myelin–axon interface, axon–glial signaling, paranodal architecture and amyloid-β aggregation are altered in AD, implicating myelin–axon disruption in disease progression.

Yifei Cai
Iguaracy Pinheiro-de-Sousa
Jaime Grutzendler
Research13 Jun 2025
Nature Neuroscience

Volume: 28, P: 1418-1435
Comprehensive evaluation of phosphoproteomic-based kinase activity inference

Kinases regulate cellular processes, making their study essential for understanding cellular function and disease. Here, the authors evaluate methods to infer kinase activity from phosphoproteomics data and provide a toolkit to evaluate future methods.

Sophia Müller-Dott
Eric J. Jaehnig
Julio Saez-Rodriguez
ResearchOpen Access22 May 2025
Nature Communications

Volume: 16, P: 1-21
Subcellular proteomics and iPSC modeling uncover reversible mechanisms of axonal pathology in Alzheimer’s disease

Axonal spheroids disrupt neural circuits in Alzheimer’s disease. In this study, using subcellular proximity labeling proteomics in human brain and iPSC modeling, the authors link spheroid formation to dysregulated mTOR, cytoskeletal and lipid transport signaling.

Yifei Cai
Jean Kanyo
Jaime Grutzendler
ResearchOpen Access10 Mar 2025
Nature Aging

Volume: 5, P: 504-527
Author Correction: Dynamic regulation of hypoxia-inducible factor-1α activity is essential for normal B cell development

Natalie Burrows
Rachael J. M. Bashford-Rogers
Patrick H. Maxwell
Amendments and Corrections14 Sept 2021
Nature Immunology

Volume: 22, P: 1465
Phosphoproteomics identifies a bimodal EPHA2 receptor switch that promotes embryonic stem cell differentiation

Fgf4 is a critical signal driving embryonic stem cell (ESC) exit from pluripotency and differentiation. Here the authors identify EPHA2 as a target of FGF4 signalling in ESCs, and show that EPHA2-EFNA1 signalling promotes pluripotent gene expression and suppresses commitment through repression of ERK1/2 activation.

Rosalia Fernandez-Alonso
Francisco Bustos
Greg M. Findlay
ResearchOpen Access13 Mar 2020
Nature Communications

Volume: 11, P: 1-13
Large-scale phage-based screening reveals extensive pan-viral mimicry of host short linear motifs

Protein-protein interactions underlie all aspects of a viral infection. Here the authors employ a pan-viral approach for systematic identification of motif-mediated interactions between viral and human proteins and show that the information can be used to find targets for antiviral drug development.

Filip Mihalič
Leandro Simonetti
Ylva Ivarsson
ResearchOpen Access26 Apr 2023
Nature Communications

Volume: 14, P: 1-20
Dynamic regulation of hypoxia-inducible factor-1α activity is essential for normal B cell development

B cell development and selection occur in the often hypoxic environment of the bone marrow. Burrows and colleagues demonstrate that dynamic regulation of B cell–intrinsic hypoxia-inducible factor-1α is essential for normal B cell development and function.

Natalie Burrows
Rachael J. M. Bashford-Rogers
Patrick H. Maxwell
Research31 Aug 2020
Nature Immunology

Volume: 21, P: 1408-1420
Distinct signalling dynamics of BMP4 and BMP9 in brown versus white adipocytes

Benjamin Constant
Ioannis Kamzolas
Wei Li
ResearchOpen Access08 May 2025
Scientific Reports

Volume: 15, P: 1-15

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