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7 results for “high-throughput methods”

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  1. 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 ↗

  2. Implementation of Practical Surface SARS-CoV-2 Surveillance in School Settings.

    mSystems · 2022 · 7(4): e0010322

    Surface sampling for SARS-CoV-2 RNA detection has shown considerable promise to detect exposure of built environments to infected individuals shedding virus who would not otherwise be detected. Here, we compare two popular sampling media (VTM and SDS) and two popular …

    PMID 35703437 DOI ↗

  3. Variation in single-nucleotide sensitivity of eCLIP derived from reverse transcription conditions.

    Methods (San Diego, Calif.) · 2017 · 126: 29-37

    Crosslinking and immunoprecipitation (CLIP) followed by high-throughput sequencing identifies the binding sites of RNA binding proteins on RNAs. The covalent RNA-amino acid adducts produced by UV irradiation can cause premature reverse transcription termination and deletions (referred to as crosslink-induced mutation …

    PMID 28790018 DOI ↗

  4. CRISPR/Cas9-mediated integration enables TAG-eCLIP of endogenously tagged RNA binding proteins.

    Methods (San Diego, Calif.) · 2017 · 118-119: 50-59

    Identification of in vivo direct RNA targets for RNA binding proteins (RBPs) provides critical insight into their regulatory activities and mechanisms. Recently, we described a methodology for enhanced crosslinking and immunoprecipitation followed by high-throughput sequencing (eCLIP) using antibodies against endogenous …

    PMID 28003131 DOI ↗

  5. High-Throughput and Cost-Effective Characterization of Induced Pluripotent Stem Cells.

    Stem cell reports · 2017 · 8(4): 1101-1111

    Reprogramming somatic cells to induced pluripotent stem cells (iPSCs) offers the possibility of studying the molecular mechanisms underlying human diseases in cell types difficult to extract from living patients, such as neurons and cardiomyocytes. To date, studies have been published …

    PMID 28410643 DOI ↗

  6. Comprehensive identification of miRNA target sites in live animals.

    Methods in molecular biology (Clifton, N.J.) · 2011 · 732: 169-85

    MicroRNAs (miRNAs) are small RNA molecules that posttranscriptionally regulate the expression of protein-coding genes. The mature miRNAs are loaded into Argonaute-containing protein complexes (miRISC, miRNA Induced S ilencing Complex), and guide these complexes to the 3' UTR of targeted mRNA …

    PMID 21431713 DOI ↗

  7. Determination of tag density required for digital transcriptome analysis: application to an androgen-sensitive prostate cancer model.

    Proceedings of the National Academy of Sciences of the United States of America · 2008 · 105(51): 20179-84

    High-throughput sequencing has rapidly gained popularity for transcriptome analysis in mammalian cells because of its ability to generate digital and quantitative information on annotated genes and to detect transcripts and mRNA isoforms. Here, we described a double-random priming method for …

    PMID 19088194 DOI ↗

Datasets 1

GSE106493 GSE · GEO

Live-cell mapping of organelle-associated RNAs via proximity biotinylation combined with protein-RNA crosslinking

Homo sapiens · GPL11154

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