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Article
Open AccessA super-enhancer-regulated RNA-binding protein cascade drives pancreatic cancer
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...
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Article
Open AccessSplicing factor SRSF1 deficiency in the liver triggers NASH-like pathology and cell death
Regulation of RNA processing contributes profoundly to tissue development and physiology. Here, we report that serine-arginine-rich splicing factor 1 (SRSF1) is essential for hepatocyte function and survival. ...
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Article
Open AccessMultiplexed transcriptome discovery of RNA-binding protein binding sites by antibody-barcode eCLIP
Ultraviolet crosslinking and immunoprecipitation (CLIP) methodologies enable the identification of RNA binding sites of RNA-binding proteins (RBPs). Despite improvements in the library preparation of RNA fragm...
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Article
Transcriptome-wide identification of RNA-binding protein binding sites using seCLIP-seq
Discovery of interaction sites between RNA-binding proteins (RBPs) and their RNA targets plays a critical role in enabling our understanding of how these RBPs control RNA processing and regulation. Cross-linki...
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Article
Open AccessCrosstalk between CRISPR-Cas9 and the human transcriptome
CRISPR-Cas9 expression independent of its cognate synthetic guide RNA (gRNA) causes widespread genomic DNA damage in human cells. To investigate whether Cas9 can interact with endogenous human RNA transcripts ...
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Article
Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes
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...
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Open AccessAuthor Correction: A large-scale binding and functional map of human RNA-binding proteins
A Correction to this paper has been published: https://doi.org/10.1038/s41586-020-03067-w
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Article
Large-scale tethered function assays identify factors that regulate mRNA stability and translation
The molecular functions of the majority of RNA-binding proteins (RBPs) remain unclear, highlighting a major bottleneck to a full understanding of gene expression regulation. Here, we develop a plasmid resource...
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Article
Open AccessA large-scale binding and functional map of human RNA-binding proteins
Many proteins regulate the expression of genes by binding to specific regions encoded in the genome1. Here we introduce a new data set of RNA elements in the human genome that are recognized by RNA-binding protei...
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Article
Open AccessPrinciples of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins
A critical step in uncovering rules of RNA processing is to study the in vivo regulatory networks of RNA binding proteins (RBPs). Crosslinking and immunoprecipitation (CLIP) methods enable map** RBP targets ...
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Article
An in vivo genome-wide CRISPR screen identifies the RNA-binding protein Staufen2 as a key regulator of myeloid leukemia
Aggressive myeloid leukemias such as blast crisis chronic myeloid leukemia and acute myeloid leukemia remain highly lethal. Here we report a genome-wide in vivo CRISPR screen to identify new dependencies in th...
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Article
Short poly(A) tails are a conserved feature of highly expressed genes
Although deadenylation induces translational inhibition and mRNA decay, well-expressed transcripts are now shown to possess short, well-defined poly(A) tails, suggesting that pruned tails may be ideal for prot...
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RNA-binding protein CPEB1 remodels host and viral RNA landscapes
The RNA-binding protein CPEB1 drives post-transcriptional changes in the host transcriptome and poly(A)-tail lengthening of viral RNAs, processes essential for productive HCMV infection.
