[HTML][HTML] CLIP and complementary methods

M Hafner, M Katsantoni, T Köster, J Marks… - Nature Reviews …, 2021 - nature.com
RNA molecules start assembling into ribonucleoprotein (RNP) complexes during
transcription. Dynamic RNP assembly, largely directed by cis-acting elements on the RNA …

Proteomic and interactomic insights into the molecular basis of cell functional diversity

I Bludau, R Aebersold - Nature Reviews Molecular Cell Biology, 2020 - nature.com
The ability of living systems to adapt to changing conditions originates from their capacity to
change their molecular constitution. This is achieved by multiple mechanisms that modulate …

[HTML][HTML] The human RNA-binding proteome and its dynamics during translational arrest

J Trendel, T Schwarzl, R Horos, A Prakash, A Bateman… - Cell, 2019 - cell.com
Proteins and RNA functionally and physically intersect in multiple biological processes,
however, currently no universal method is available to purify protein-RNA complexes. Here …

The regulation and functions of the nuclear RNA exosome complex

C Kilchert, S Wittmann, L Vasiljeva - Nature Reviews Molecular Cell …, 2016 - nature.com
The RNA exosome complex is the most versatile RNA-degradation machine in eukaryotes.
The exosome has a central role in several aspects of RNA biogenesis, including RNA …

[HTML][HTML] Distinctive patterns of transcription and RNA processing for human lincRNAs

M Schlackow, T Nojima, T Gomes, A Dhir… - Molecular cell, 2017 - cell.com
Numerous long intervening noncoding RNAs (lincRNAs) are generated from the mammalian
genome by RNA polymerase II (Pol II) transcription. Although multiple functions have been …

Targeting RNA for processing or destruction by the eukaryotic RNA exosome and its cofactors

JC Zinder, CD Lima - Genes & development, 2017 - genesdev.cshlp.org
The eukaryotic RNA exosome is an essential and conserved protein complex that can
degrade or process RNA substrates in the 3′-to-5′ direction. Since its discovery nearly …

[HTML][HTML] Genome-wide distribution of RNA-DNA hybrids identifies RNase H targets in tRNA genes, retrotransposons and mitochondria

A El Hage, S Webb, A Kerr, D Tollervey - PLoS genetics, 2014 - journals.plos.org
During transcription, the nascent RNA can invade the DNA template, forming extended RNA-
DNA duplexes (R-loops). Here we employ ChIP-seq in strains expressing or lacking RNase …

RNA decay machines: the exosome

A Chlebowski, M Lubas, TH Jensen… - Biochimica et Biophysica …, 2013 - Elsevier
The multisubunit RNA exosome complex is a major ribonuclease of eukaryotic cells that
participates in the processing, quality control and degradation of virtually all classes of RNA …

[HTML][HTML] A transcriptome-wide atlas of RNP composition reveals diverse classes of mRNAs and lncRNAs

AC Tuck, D Tollervey - Cell, 2013 - cell.com
Eukaryotic genomes generate a heterogeneous ensemble of mRNAs and long noncoding
RNAs (lncRNAs). LncRNAs and mRNAs are both transcribed by Pol II and acquire 5′ caps …

[HTML][HTML] Extensive degradation of RNA precursors by the exosome in wild-type cells

RK Gudipati, Z Xu, A Lebreton, B Séraphin… - Molecular cell, 2012 - cell.com
The exosome is a complex involved in the maturation of rRNA and sn-snoRNA, in the
degradation of short-lived noncoding RNAs, and in the quality control of RNAs produced in …