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14 results for “coupling”

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  1. 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<sup>1-11</sup>. Among these, alternative splicing has been shown to drive cell-type specificity and, when disrupted, is strongly linked to neurological disorders<sup>12-17</sup>. However, genome-wide measurements of mRNA translation with isoform …

    PMID 41708856 DOI ↗

  2. circHIPK3 nucleates IGF2BP2 and functions as a competing endogenous RNA.

    bioRxiv : the preprint server for biology · 2024

    Circular RNAs (circRNAs) represent a class of widespread endogenous RNAs that regulate gene expression and thereby influence cell biological decisions with implications for the pathogenesis of several diseases. Here, we disclose a novel gene-regulatory role of circHIPK3 by combining analyses …

    PMID 37745562 DOI ↗

  3. Xiphoid nucleus of the midline thalamus controls cold-induced food seeking.

    Nature · 2023 · 621(7977): 138-145

    Maintaining body temperature is calorically expensive for endothermic animals<sup>1</sup>. Mammals eat more in the cold to compensate for energy expenditure<sup>2</sup>, but the neural mechanism underlying this coupling is not well understood. Through behavioural and metabolic analyses, we found that mice …

    PMID 37587337 DOI ↗

  4. Xiphoid nucleus of the midline thalamus controls cold-induced food seeking.

    bioRxiv : the preprint server for biology · 2023

    Maintaining body temperature is calorically expensive for endothermic animals. Mammals eat more in the cold to compensate for energy expenditure, but the neural mechanism underlying this coupling is not well understood. Through behavioral and metabolic analyses, we found that mice …

    PMID 36993706 DOI ↗

  5. Antibody-Oligonucleotide Conjugation Using a SPAAC Copper-Free Method Compatible with 10× Genomics' Single-Cell RNA-Seq.

    Methods in molecular biology (Clifton, N.J.) · 2022 · 2463: 67-80

    Recent advances in multimodal approaches toward single-cell analyses present valuable data points that can complement standard flow cytometry data. In particular, the overlay of cell-surface proteome data with gene expression analysis presents a necessary advancement, particularly in the field of …

    PMID 35344168 DOI ↗

  6. fSHAPE, fSHAPE-eCLIP, and SHAPE-eCLIP probe transcript regions that interact with specific proteins.

    STAR protocols · 2021 · 2(3): 100762

    Selective 2'-hydroxyl acylation analyzed by primer extension (SHAPE) structure probing techniques characterize the secondary structure of RNA molecules, which influence their functions and interactions. A variation of SHAPE, footprinting SHAPE (fSHAPE), probes RNA in the presence and absence of protein …

    PMID 34485935 DOI ↗

  7. Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes.

    Nature methods · 2021 · 18(5): 507-519

    RNA-binding proteins (RBPs) are critical regulators of gene expression and RNA processing that are required for gene function. Yet the dynamics of RBP regulation in single cells is unknown. To address this gap in understanding, we developed STAMP (Surveying Targets …

    PMID 33963355 DOI ↗

  8. Short poly(A) tails are a conserved feature of highly expressed genes.

    Nature structural & molecular biology · 2017 · 24(12): 1057-1063

    Poly(A) tails are important elements in mRNA translation and stability, although recent genome-wide studies have concluded that poly(A) tail length is generally not associated with translational efficiency in nonembryonic cells. To investigate whether poly(A) tail size might be coupled to …

    PMID 29106412 DOI ↗

  9. LIN28 binds messenger RNAs at GGAGA motifs and regulates splicing factor abundance.

    Molecular cell · 2012 · 48(2): 195-206

    LIN28 is a conserved RNA-binding protein implicated in pluripotency, reprogramming, and oncogenesis. It was previously shown to act primarily by blocking let-7 microRNA (miRNA) biogenesis, but here we elucidate distinct roles of LIN28 regulation via its direct messenger RNA (mRNA) …

    PMID 22959275 DOI ↗

  10. Evidence for premature aging due to oxidative stress in iPSCs from Cockayne syndrome.

    Human molecular genetics · 2012 · 21(17): 3825-34

    Cockayne syndrome (CS) is a human premature aging disorder associated with neurological and developmental abnormalities, caused by mutations mainly in the CS group B gene (ERCC6). At the molecular level, CS is characterized by a deficiency in the transcription-couple DNA …

    PMID 22661500 DOI ↗

  11. Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins.

    Cell reports · 2012 · 1(2): 167-78

    Understanding how RNA binding proteins control the splicing code is fundamental to human biology and disease. Here, we present a comprehensive study to elucidate how heterogeneous nuclear ribonucleoparticle (hnRNP) proteins, among the most abundant RNA binding proteins, coordinate to regulate …

    PMID 22574288 DOI ↗

  12. Long pre-mRNA depletion and RNA missplicing contribute to neuronal vulnerability from loss of TDP-43.

    Nature neuroscience · 2011 · 14(4): 459-68

    We used cross-linking and immunoprecipitation coupled with high-throughput sequencing to identify binding sites in 6,304 genes as the brain RNA targets for TDP-43, an RNA binding protein that, when mutated, causes amyotrophic lateral sclerosis. Massively parallel sequencing and splicing-sensitive junction …

    PMID 21358643 DOI ↗

  13. Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans.

    Nature structural & molecular biology · 2010 · 17(2): 173-9

    MicroRNAs (miRNAs) regulate gene expression by guiding Argonaute proteins to specific target mRNA sequences. Identification of bona fide miRNA target sites in animals is challenging because of uncertainties regarding the base-pairing requirements between miRNA and target as well as the …

    PMID 20062054 DOI ↗

  14. An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells.

    Nature structural & molecular biology · 2009 · 16(2): 130-7

    The elucidation of a code for regulated splicing has been a long-standing goal in understanding the control of post-transcriptional gene expression events that are crucial for cell survival, differentiation and development. We decoded functional RNA elements in vivo by constructing …

    PMID 19136955 DOI ↗

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