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Zfp697/ZNF697 is an RNA-binding protein that modulates TGF-β1 signaling and hepatic inflammation in liver disease.

Molecular metabolism · 2026 : 102457

Liver diseases driven by metabolic dysfunction, inflammation, and fibrosis such as metabolic dysfunction-associated steatotic liver disease (MASLD), including metabolic dysfunction-associated steatohepatitis (MASH), and acute liver injury represent a growing global health burden. The zinc finger protein Zfp697 (ZNF697 in humans) …

PMID 42875003 DOI ↗

RNA dysregulation as a determinant of aging and neurodegenerative vulnerability.

Trends in cell biology · 2026

In the nervous system, aging causes deterioration of cellular and molecular processes that are associated with declines in cognition, sensory perception, and motor coordination. Aging is also the strongest risk factor for neurodegenerative disease, yet the mechanisms by which aging …

PMID 42711219 DOI ↗

The YTHDF proteins modulate Alzheimer's disease-associated brain gene signatures.

Molecular neurodegeneration · 2026 · 21(1)

Gene signatures of Alzheimer's disease (AD) brains reflect the output of a complex interplay of genetic, epigenetic, epi-transcriptomic, and post-transcriptional regulations. To nominate candidate factors modulating these signatures, we developed a machine learning model to integrate cellular and molecular features …

PMID 42811341 DOI ↗

ARID5A RNA-binding coordinates microglial defense and ferroptosis in iPSC-derived models.

Nature communications · 2026 · 17(1)

RNA-binding proteins (RBPs) are key regulators of gene expression that shape cellular function in health and disease. However, the roles of RBPs in immune cells within the central nervous system (CNS) remain poorly understood. Here, we identify ARID5A as an …

PMID 42717200 DOI ↗

ESCAPE: assigning site-specific activity to covalent ligands in cells by prime editing.

bioRxiv : the preprint server for biology · 2026

Chemical proteomics has identified covalent ligands targeting cysteine residues across many hundreds of human proteins. The functional effects of these liganding events, however, remain challenging to assign at scale. Here we describe ESCAPE (Endogenous Site-specific Competition Assays using Prime Editors), …

PMID 42619774 DOI ↗

Aberrant host mRNA partitioning in Ebola virus condensates driven by RNA folding perpetuates species-dependent interferon response.

bioRxiv : the preprint server for biology · 2026

RNA viruses form membraneless condensates in host cells to drive replication, but whether these compartments also regulate host RNAs remains unclear. Using MERFISH-based subcellular transcriptomics, we quantified cellular mRNA recruitment into Ebola virus condensates under basal and IFN-stimulated states. We …

PMID 42465340 DOI ↗

Large-scale tethered screen of RNA-binding proteins reveals novel regulators of poly(A) site selection.

Molecular cell · 2026

Alternative polyadenylation (APA) generates transcript isoforms with distinct 3' ends, yet the repertoire of its protein regulators remains poorly defined. Using a large-scale tethered function screen, we profiled 879 human RNA-binding proteins (RBPs) and identified 63 high-confidence activators of poly(A) …

PMID 42361791 DOI ↗

High-resolution mapping of CCR4-NOT recruitment elements reveals transcriptome-wide drivers of mRNA decay.

Cell reports · 2026 · 45(5): 117348

The CCR4-NOT complex is a central regulator of gene expression, orchestrating mRNA turnover through interactions with RNA-binding proteins (RBPs) and the microRNA (miRNA)-induced silencing complex. However, identifying which RBP- and miRNA-associated RNA elements recruit CCR4-NOT remains challenging, due in part …

PMID 42154591 DOI ↗

Comprehensive RNA-binding protein analyses and deep learning uncover genetic constraints and disease associations in protein-RNA interfaces.

Cell systems · 2026 : 101588

RNA-binding proteins (RBPs) orchestrate post-transcriptional processes, including splicing, cleavage and polyadenylation, and translation. Our updated RBP resource integrates data from 92 additional RBPs (286 in total) profiled by enhanced CLIP (eCLIP), enabling comprehensive characterization of RNA elements within human K562 …

PMID 42025161 DOI ↗

Localized regulation of cell junction mRNAs is required for epithelial cell integrity.

RNA (New York, N.Y.) · 2026 · 32(5): 635-653

Epithelial cells exhibit a highly polarized organization along their apico-basal axis, a feature that is critical to their function and is frequently perturbed in cancer. One less explored process modulating epithelial cell polarity is the subcellular localization of mRNA molecules. …

PMID 41535088 DOI ↗

Flipper: An advanced framework for identifying differential RNA binding behavior with eCLIP data.

bioRxiv : the preprint server for biology · 2026

Crosslinking and immunoprecipitation (CLIP) methods remain the gold standard for characterizing RNA binding protein (RBP) behavior. As a result, many researchers rely on CLIP to assess how treatments targeting RBPs alter binding patterns and regulatory activity. However, current tools for …

PMID 41959526 DOI ↗

System-level measurement, modeling, and manipulation of RNA.

RNA (New York, N.Y.) · 2026 · 32(4): 409-411

PMID 41839511 DOI ↗

RNA-binding protein LARP6 coordinates hepatic stellate cell activation and liver fibrosis.

The Journal of clinical investigation · 2026

Metabolic syndrome and excessive alcohol consumption (MetALD) result in liver injury and fibrosis, which is driven by increased collagen production by activated hepatic stellate cells (HSCs). Our previous studies demonstrated that LARP6, an RNA-binding protein, may facilitate collagen production. However, …

PMID 41746718 DOI ↗

Structural and mechanistic analysis of covalent ligands targeting the RNA-binding protein NONO.

Cell chemical biology · 2026 · 33(2): 256-267.e11

RNA-binding proteins (RBPs) play important roles in mRNA transcription, processing, and translation. Chemical tools are lacking for RBPs, which has hindered efforts to perturb and understand RBP function in cells. We previously described a chloroacetamide compound (R)-SKBG-1 that covalently binds …

PMID 41534524 DOI ↗

Single-cell and isoform-specific translational profiling of the mouse brain.

Nature · 2026

The brain displays the richest repertoire of post-transcriptional mechanisms regulating mRNA translation^1-11. Among these, alternative splicing has been shown to drive cell-type specificity and, when disrupted, is strongly linked to neurological disorders^12-17. However, genome-wide measurements of mRNA translation with isoform …

PMID 41708856 DOI ↗

MBNL2 dysfunction in outer radial glial cells is associated with disrupted corticogenesis in congenital myotonic dystrophy.

Neurobiology of disease · 2026 · 221: 107305

Myotonic dystrophy type 1 (DM1) arises from toxic CUG-expanded DMPK transcripts that sequester Muscleblind-like (MBNL) proteins, yet how this molecular lesion perturbs brain development in congenital DM1 (CDM) remains unknown. Here, we identify an unanticipated developmental role for MBNL2 in …

PMID 41644016 DOI ↗

Identification of RBP binding sites using RNA deaminases.

Methods in enzymology · 2025 · 713: 287-297

RNA-binding proteins (RBPs) are critical regulators of gene expression and RNA processing. Identification of their binding sites has important implications for their physiological and disease-related functions. Crosslinking and immunoprecipitation, followed by sequencing (CLIP-seq) and its derivatives, are the most commonly …

PMID 40250958 DOI ↗

Integrative CRISPR Screening and RNA Analyses Discover an Essential Role for PUF60 Interactions with 3' Splice Sites in Cancer Progression.

Cancer research · 2025

RNA-binding proteins (RBPs) are important regulators of post-transcriptional gene expression. Understanding which and how RBPs promote cancer progression is crucial for cancers that lack effective targeted therapies, such as triple negative breast cancer (TNBC). Here, we employed both in vitro …

PMID 41411621 DOI ↗

The IFIT2-IFIT3 antiviral complex targets short 5' untranslated regions on viral mRNAs for translation inhibition.

Nature microbiology · 2025 · 10(11): 2934-2948

Recognition of foreign RNA is critical for the innate immune response to viruses. Interferon (IFN)-induced proteins with tetratricopeptide repeats (IFIT) 2 and 3 are highly upregulated following viral infection, but mechanistic insight into their antiviral role is lacking. Here we …

PMID 41093992 DOI ↗

Dosage-sensitive <i>RBFOX2</i> autoregulation promotes cardiomyocyte differentiation by maturing the transcriptome.

bioRxiv : the preprint server for biology · 2025

Haploinsufficiency of the RNA splicing regulator, <i>RBFOX2</i> , is linked to congenital heart disease (CHD), yet its pathogenic mechanisms remain unclear. Here, we demonstrate that RBFOX2 is essential for progressing cardiomyocyte (CM) differentiation by shifting exon usage profiles to more …

PMID 41280054 DOI ↗

KIF5A binds RNA to orchestrate synaptic mRNA localization and stress granules in ALS.

bioRxiv : the preprint server for biology · 2025

Neuronal health depends on the precise transport and local translation of mRNAs to maintain synaptic function across highly polarized cellular architecture. While kinesin motor proteins are known to mediate mRNA transport, the specificity and direct involvement of individual kinesins as …

PMID 41279899 DOI ↗

Imaging Cellular Metabolic Rewiring with SuMMIT-SRS.

bioRxiv : the preprint server for biology · 2025

Cells dynamically rewire their metabolic pathways in response to physiological and pathological cues. Such plasticity is particularly critical in neurons, stem cells, cancer cells, and immune cells, where biosynthetic demands can shift rapidly. However, current metabolic imaging techniques using isotope …

PMID 41279865 DOI ↗

Human AUTS2 regulates neurodevelopmental pathways via dual DNA/RNA binding.

bioRxiv : the preprint server for biology · 2025

The <i>AUTS2</i> gene is implicated in neurodevelopmental and psychiatric disorders, with patient mutations leading to intellectual disability, microcephaly, and autistic behavior. While AUTS2's chromatin-and RNA-related functions are recognized, its direct binding to RNA in human neural progenitors has not been …

PMID 41278797 DOI ↗

Enhancing RNA base editing on mammalian transcripts with small nuclear RNAs.

Nature chemical biology · 2025

Endogenous uridine-rich small nuclear RNAs (U snRNAs) form RNA-protein complexes to process eukaryotic pre-mRNA into mRNA. Previous studies have demonstrated programmable U snRNA guide-targeted exon inclusion and exclusion. Here we investigated whether snRNAs can also enhance RNA base editing over …

PMID 40968292 DOI ↗

RNA triggers chronic stress during neuronal aging.

bioRxiv : the preprint server for biology · 2025

Neurodegenerative diseases are linked with dysregulation of the integrated stress response (ISR), which coordinates cellular homeostasis during and after stress events. Cellular stress can arise from several sources, but there is significant disagreement about which stress might contribute to aging …

PMID 40799579 DOI ↗