Search publications

50 results for “Translation”

Keywords

Author

Year

Journal

Clear

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 ↗
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 ↗
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 translation1-11. Among these, alternative splicing has been shown to drive cell-type specificity and, when disrupted, is strongly linked to neurological disorders12-17. However, genome-wide measurements of mRNA translation with isoform …

PMID 41708856 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 ↗
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 ↗
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 ↗
Human CCR4 deadenylase homolog Angel1 is a non-stop mRNA decay factor.

RNA (New York, N.Y.) · 2025 · 31(8): 1195-1205

Translation elongation stalls trigger mRNA decay and degradation of the nascent polypeptide via translation-dependent quality control pathways. One such pathway, non-stop mRNA decay (NSD), targets aberrant mRNAs that lack stop codons, for example, due to premature polyadenylation. Here we identify …

PMID 40441874 DOI ↗
Structural and mechanistic analysis of covalent ligands targeting the RNA-binding protein NONO.

bioRxiv : the preprint server for biology · 2025

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 recently reported a chloroacetamide compound ( R )-SKBG-1 that …

PMID 40661397 DOI ↗
Genome-Wide Interrogation of SARS-CoV-2 RNA-Protein Interactions Uncovers Hidden Regulatory Sites.

bioRxiv : the preprint server for biology · 2025

The global impact of the COVID-19 pandemic underscores the critical need for a comprehensive understanding of SARS-CoV-2 replication mechanisms. While the central roles of the RNA dependent RNA polymerase (NSP12), primase protein (NSP8), and nucleocapsid protein (N) in the virus …

PMID 40501555 DOI ↗
Phenylpyrazoles as Inhibitors of the m6A RNA-Binding Protein YTHDF2.

JACS Au · 2025 · 5(2): 618-630

The N6-methyladenosine (m6A) modification, which is the most common RNA modification in eukaryotes, is regulated by the "writer" methyltransferases, the "reader" m6A binding proteins, and the "eraser" demethylases. m6A plays a multifunctional role in physiological and pathological processes, regulating all …

PMID 40017738 DOI ↗
Short 5' UTRs serve as a marker for viral mRNA translation inhibition by the IFIT2-IFIT3 antiviral complex.

bioRxiv : the preprint server for biology · 2025

Recognition of "non-self" nucleic acids, including cytoplasmic dsDNA, dsRNA, or mRNAs lacking proper 5' cap structures, is critical for the innate immune response to viruses. Here, we demonstrate that short 5' untranslated regions (UTRs), a characteristic of many viral mRNAs, …

PMID 39990370 DOI ↗
LARP6 regulates the mRNA translation of fibrogenic genes in liver fibrosis.

bioRxiv : the preprint server for biology · 2025

Metabolic syndrome and excessive alcohol consumption result in liver injury and fibrosis, which is characterized by increased collagen production by activated Hepatic Stellate Cells (HSCs). LARP6, an RNA-binding protein, was shown to facilitate collagen production. However, LARP6 expression and functionality …

PMID 39868246 DOI ↗
Steering research on mRNA splicing in cancer towards clinical translation.

Nature reviews. Cancer · 2024 · 24(12): 887-905

Splicing factors are affected by recurrent somatic mutations and copy number variations in several types of haematologic and solid malignancies, which is often seen as prima facie evidence that splicing aberrations can drive cancer initiation and progression. However, numerous spliceosome …

PMID 39384951 DOI ↗
Localized molecular chaperone synthesis maintains neuronal dendrite proteostasis.

Nature communications · 2024 · 15(1): 10796

Proteostasis is maintained through regulated protein synthesis and degradation and chaperone-assisted protein folding. However, this is challenging in neuronal projections because of their polarized morphology and constant synaptic proteome remodeling. Using high-resolution fluorescence microscopy, we discover that hippocampal and spinal …

PMID 39737952 DOI ↗
Long-read Ribo-STAMP simultaneously measures transcription and translation with isoform resolution.

Genome research · 2024 · 34(11): 2012-2024

Transcription and translation are intertwined processes in which mRNA isoforms are crucial intermediaries. However, methodological limitations in analyzing translation at the mRNA isoform level have left gaps in our understanding of critical biological processes. To address these gaps, we developed …

PMID 38906680 DOI ↗
Localized synthesis of molecular chaperones sustains neuronal proteostasis.

bioRxiv : the preprint server for biology · 2024

Neurons are challenged to maintain proteostasis in neuronal projections, particularly with the physiological stress at synapses to support intercellular communication underlying important functions such as memory and movement control. Proteostasis is maintained through regulated protein synthesis and degradation and chaperone-assisted …

PMID 37873158 DOI ↗
Integrated multi-omics analysis of zinc-finger proteins uncovers roles in RNA regulation.

Molecular cell · 2024 · 84(19): 3826-3842.e8

RNA interactome studies have revealed that hundreds of zinc-finger proteins (ZFPs) are candidate RNA-binding proteins (RBPs), yet their RNA substrates and functional significance remain largely uncharacterized. Here, we present a systematic multi-omics analysis of the DNA- and RNA-binding targets and …

PMID 39303722 DOI ↗
A phage nucleus-associated RNA-binding protein is required for jumbo phage infection.

Nucleic acids research · 2024 · 52(8): 4440-4455

Large-genome bacteriophages (jumbo phages) of the proposed family Chimalliviridae assemble a nucleus-like compartment bounded by a protein shell that protects the replicating phage genome from host-encoded restriction enzymes and DNA-targeting CRISPR-Cas nucleases. While the nuclear shell provides broad protection against …

PMID 38554115 DOI ↗
Transcriptome regulation by PARP13 in basal and antiviral states in human cells.

iScience · 2024 · 27(4): 109251

The RNA-binding protein PARP13 is a primary factor in the innate antiviral response, which suppresses translation and drives decay of bound viral and host RNA. PARP13 interacts with many proteins encoded by interferon-stimulated genes (ISG) to activate antiviral pathways including …

PMID 38495826 DOI ↗
Seryl-tRNA synthetase promotes translational readthrough by mRNA binding and involvement of the selenocysteine incorporation machinery.

Nucleic acids research · 2023 · 51(19): 10768-10781

Translational readthrough of UGA stop codons by selenocysteine-specific tRNA (tRNASec) enables the synthesis of selenoproteins. Seryl-tRNA synthetase (SerRS) charges tRNASec with serine, which is modified into selenocysteine and delivered to the ribosome by a designated elongation factor (eEFSec in eukaryotes). …

PMID 37739431 DOI ↗
A phage nucleus-associated RNA-binding protein is required for jumbo phage infection.

bioRxiv : the preprint server for biology · 2023

Large-genome bacteriophages (jumbo phages) of the Chimalliviridae family assemble a nucleus-like compartment bounded by a protein shell that protects the replicating phage genome from host-encoded restriction enzymes and CRISPR/Cas nucleases. While the nuclear shell provides broad protection against host nucleases, …

PMID 37790334 DOI ↗
A super-enhancer-regulated RNA-binding protein cascade drives pancreatic cancer.

Nature communications · 2023 · 14(1): 5195

Pancreatic ductal adenocarcinoma (PDAC) is a lethal malignancy in need of new therapeutic options. Using unbiased analyses of super-enhancers (SEs) as sentinels of core genes involved in cell-specific function, here we uncover a druggable SE-mediated RNA-binding protein (RBP) cascade that …

PMID 37673892 DOI ↗

Datasets 25+

GSE328331 GSE · GEO

Modulation of the DNA/RNA Binding Protein ARID5A Regulates Microglial Activation and Response [RIP-Seq]

Homo sapiens · Illumina

GSE290625 GSE · GEO

Modulation of the DNA/RNA Binding Protein ARID5A Regulates Microglial Activation and Response [eclip]

Homo sapiens · Illumina

GSE290765 GSE · GEO

Modulation of the DNA/RNA Binding Protein ARID5A Regulates Microglial Activation and Response [cutnrun]

Homo sapiens · Illumina

GSE290755 GSE · GEO

Modulation of the DNA/RNA Binding Protein ARID5A Regulates Microglial Activation and Response [rna-seq]

Homo sapiens · Illumina

GSE279065 GSE · GEO

LARP6 shapes the mRNA translation of fibrogenic genes

GPL24676

GSE315406 GSE · GEO

Comprehensive RNA-binding protein analyses using enhanced CLIP (ENCORE) [dataset2]

GPL20301, GPL24676, GPL34284

GSE315347 GSE · GEO

Comprehensive RNA-binding protein analyses using enhanced CLIP (ENCORE) [dataset1]

GPL20301, GPL24676

GSE314176 GSE · GEO

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

GPL24247, GPL34475, GPL34585

GSE314059 GSE · GEO

Single-cell and isoform-specific translational profiling of the mouse brain with long-read sequencing [scRNA-Seq, longread]

GPL34585

GSE314058 GSE · GEO

Single-cell and isoform-specific translational profiling of the mouse brain [scRNA-seq]

GPL34475

GSE279064 GSE · GEO

LARP6 shapes the mRNA translation of fibrogenic genes [RNA-seq]

GPL24676

GSE278725 GSE · GEO

LARP6 shapes the mRNA translation of fibrogenic genes [eCLIP]

GPL24676

GSE276504 GSE · GEO

Single cell and isoform-specific translational profiling of the mouse brain [ribostamp]

GPL24247

GSE275133 GSE · GEO

Single cell and isoform-specific translational profiling of the mouse brain [Bulk RNA-seq]

GPL24247

GSE275091 GSE · GEO

Single cell and isoform-specific translational profiling of the mouse brain [Ribo-STAMP]

GPL24247

GSE124714 GSE · GEO

The mRNA decay factor CAR-1 regulates axon regeneration via mitochondrial calcium dynamics

6239 · GPL13657

GSE112353 GSE · GEO

Active ribosome profiling with RiboLace and standard ribosome profiling in HEK-293 cells

Homo sapiens · GPL16791

GSE94460 GSE · GEO

Ribosome profiling of HEK293 cells.

Homo sapiens · GPL16791

GSE137258 GSE · GEO

Inhibition of YTHDF2 triggers proteotoxic cell death in MYC-driven breast cancer

Homo sapiens · GPL20301

GSE114922 GSE · GEO

RNA sequencing of bone marrow CD34+ hematopoietic stem and progenitor cells from patients with myelodysplastic syndrome and healthy controls

Homo sapiens · GPL20301

GSE121569 GSE · GEO

ALS implicated protein TDP-43 sustains levels of STMN2 a mediator of motor neuron growth and repair

Homo sapiens · GPL11154

GSE202881 GSE · GEO

Pyruvate Kinase M (PKM) binds ribosomes in a poly-ADP ribosylation dependent manner to induce translational stalling

Homo sapiens · GPL24676

GSE206674 GSE · GEO

SerRS mediates translational readthrough of through engagement of the selenocysteine incorporation machinery

Homo sapiens · GPL30173

GSE240014 GSE · GEO

An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [in_situ_STAMP]

Mus musculus · GPL24247

GSE240521 GSE · GEO

An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [eCLIP-seq ]

Mus musculus · GPL21103

Showing first 25 dataset results.