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5 results for “RNA-binding proteins”

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  1. Neuronal aging causes mislocalization of splicing proteins and unchecked cellular stress.

    Nature neuroscience · 2025 · 28(6): 1174-1184

    Aging is one of the most prominent risk factors for neurodegeneration, yet the molecular mechanisms underlying the deterioration of old neurons are mostly unknown. To efficiently study neurodegeneration in the context of aging, we transdifferentiated primary human fibroblasts from aged …

    PMID 40456907 DOI ↗

  2. High-sensitivity in situ capture of endogenous RNA-protein interactions in fixed cells and primary tissues.

    Nature communications · 2024 · 15(1): 7067

    RNA-binding proteins (RBPs) have pivotal functions in RNA metabolism, but current methods are limited in retrieving RBP-RNA interactions within endogenous biological contexts. Here, we develop INSCRIBE (IN situ Sensitive Capture of RNA-protein Interactions in Biological Environments), circumventing the challenges through …

    PMID 39152130 DOI ↗

  3. Aberrant NOVA1 function disrupts alternative splicing in early stages of amyotrophic lateral sclerosis.

    Acta neuropathologica · 2022 · 144(3): 413-435

    Amyotrophic lateral sclerosis (ALS) is a fatal disease characterized by aberrant alternative splicing (AS). Nuclear loss and cytoplasmic accumulation of the splicing factor TDP-43 in motor neurons (MN) are hallmarks of ALS at late stages of the disease. However, it …

    PMID 35778567 DOI ↗

  4. 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 ↗

  5. Distinct and shared functions of ALS-associated proteins TDP-43, FUS and TAF15 revealed by multisystem analyses.

    Nature communications · 2016 · 7: 12143

    The RNA-binding protein (RBP) TAF15 is implicated in amyotrophic lateral sclerosis (ALS). To compare TAF15 function to that of two ALS-associated RBPs, FUS and TDP-43, we integrate CLIP-seq and RNA Bind-N-Seq technologies, and show that TAF15 binds to ∼4,900 RNAs …

    PMID 27378374 DOI ↗

Datasets 10

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

GSE263371 GSE · GEO

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

Mus musculus · GPL30172

GSE276986 GSE · GEO

Aging-linked deterioration of RNA metabolism destabilizes the stress response of neurons [RNA-seq]

Homo sapiens · GPL24676

GSE276985 GSE · GEO

Aging-linked deterioration of RNA metabolism destabilizes the stress response of neurons [eCLIP-seq]

Mus musculus · GPL24676

GSE277082 GSE · GEO

Aging-linked deterioration of RNA metabolism destabilizes the stress response of neurons [RNASeq, RiboSeq]

Homo sapiens · GPL24676

GSE263870 GSE · GEO

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

Homo sapiens · GPL34382

GSE205536 GSE · GEO

Multiplexed transcriptome discovery of RNA binding protein binding sites by antibody-barcode eCLIP

Homo sapiens · GPL18573

GSE240325 GSE · GEO

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

Homo sapiens · GPL28352

GSE248461 GSE · GEO

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

Homo sapiens · GPL30173

Analyses 10

GSE109423 Processing Pipeline

GSE109423 · 6 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE112353 Processing Pipeline

GSE112353 · 5 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE155649 Processing Pipeline

GSE155649 · 6 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE155708 Processing Pipeline

GSE155708 · 11 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE155726 Processing Pipeline

GSE155726 · 12 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE155728 Processing Pipeline

GSE155728 · 21 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE155729 Processing Pipeline

GSE155729 · 6 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE166402 Processing Pipeline

GSE166402 · 18 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE166404 Processing Pipeline

GSE166404 · 9 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)

GSE94460 Processing Pipeline

GSE94460 · 4 steps · GSE · code_examples

Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. (2021)