A census of human RNA-binding proteins

By S. Gerstberger, M. Hafner, Thomas Tuschl. Nature reviews genetics, 2014

1,872 citations recorded by the source corpus.

Post-transcriptional gene regulation (PTGR) concerns processes involved in the maturation, transport, stability and translation of coding and non-coding RNAs. RNA-binding proteins (RBPs) and ribonucleoproteins coordinate RNA processing and PTGR. The introduction of large-scale quantitative methods, such as next-generation sequencing and modern protein mass spectrometry, has renewed interest in the investigation of PTGR and the protein factors involved at a systems-biology level. Here, we present a census of 1,542 manually curated RBPs that we have analysed for their interactions with different classes of RNA, their evolutionary conservation, their abundance and their tissue-specific expression. Our analysis is a critical step towards the comprehensive characterization of proteins involved in human RNA metabolism.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/0eff5ff1cef114a55726b65ce4d5be7f92cc5a9f

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Citations in the corpus

exoRBase: a database of circRNA, lncRNA and mRNA in human blood exosomes (2017, background): “We defined the tissue specificity score as the difference between the logarithm of the total number of tissues and the Shannon entropy of the expression values for a gene (24).”
Sampling native-like structures of RNA-protein complexes through Rosetta folding and docking (2018, neutral): “…et al., 2002; Gutmann et al., 2003), 1WPU (1WPV) (Kumarevel et al., 2005), 1WSU (1LVA) (Selmer and Su, 2002; Yoshizawa et al., 2005), 2ASB (1K0R) (Beuth et al., 2005; Gopal et al., 2001), 2BH2 (1UWV) (Lee et al., 2004, 2005), 2QUX (2QUD) (Chao et al., 2008), and 3BX2 (3BWT) (Miller et al., 2008).”
Blind tests of RNA–protein binding affinity prediction (2019, methodology): “In cellular contexts, RNA is frequently bound to a multitude of different proteins, and therefore accurate RNA structure prediction for these contexts requires including relevant protein binding energetics (1).”
Obstacles and opportunities in the functional analysis of extracellular vesicle RNA – an ISEV position paper (2017, background): “As an example of this approach, a list of known curated RBPs [169] could be compiled based on”