Results 91 to 100 of about 993,526 (301)
PLoS Computational BiologyThe divergence in folding pathways between RNA co-transcriptional folding (CTF) and free folding (FF) is crucial for understanding dynamic functional regulation of RNAs.
Peng Tao, Yunda Si, Jie Xia, Yi Xiao
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From structure prediction to genomic screens for novel non-coding RNAs. [PDF]
PLoS Computational Biology, 2011 Non-coding RNAs (ncRNAs) are receiving more and more attention not only as an abundant class of genes, but also as regulatory structural elements (some located in mRNAs). A key feature of RNA function is its structure.
Jan Gorodkin, Ivo L Hofacker
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A context‐dependent modulatory role for eIF6 in acquired resistance to vemurafenib in melanoma
FEBS Letters, EarlyView.Acquired resistance to vemurafenib upregulates the translation factor eIF6 in melanoma cells. Silencing eIF6 in resistant cells reduces proliferation and partially restores drug sensitivity, whereas its overexpression increases sensitivity across melanoma lines regardless of BRAF status, via modulation of mTOR, S6K, and MAPK signaling.
George Kyriakopoulos +9 more
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A simple, practical and complete
Algorithms for Molecular Biology, 2010 Background The problem of computationally predicting the secondary structure (or folding) of RNA molecules was first introduced more than thirty years ago and yet continues to be an area of active research and development.
Gusfield Dan, Frid Yelena
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Membrane composition and thermodynamic identity as boundaries of life for synthetic cell research
FEBS Letters, EarlyView.What makes a cell a cell? The boundary of a living cell is not just a wall. Read as a Markov blanket, the membrane separates internal from external states, generating identity and non‐equilibrium order. Can this identity be rebuilt from scratch in a synthetic cell?
Caterina Presutti, Bert Poolman
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Tumour–host interactions in Drosophila: mechanisms in the tumour micro‐ and macroenvironment
Molecular Oncology, EarlyView.This review examines how tumour–host crosstalk takes place at multiple levels of biological organisation, from local cell competition and immune crosstalk to organism‐wide metabolic and physiological collapse. Here, we integrate findings from Drosophila melanogaster studies that reveal conserved mechanisms through which tumours hijack host systems to ...
José Teles‐Reis, Tor Erik Rusten
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Generalized quandle polynomials and their applications to stuquandles, stuck links, and RNA folding
Open MathematicsWe introduce a generalization of the quandle polynomial. We prove that our polynomial is an invariant of stuquandles. Furthermore, we use the invariant of stuquandles to define a polynomial invariant of stuck links. As a byproduct, we obtain a polynomial
Bondarenko Ekaterina +3 more
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Frnakenstein: multiple target inverse RNA folding
BMC Bioinformatics, 2012 Background RNA secondary structure prediction, or folding, is a classic problem in bioinformatics: given a sequence of nucleotides, the aim is to predict the base pairs formed in its three dimensional conformation.
Lyngsø Rune B +5 more
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RNA G-quadruplex structures exist and function in vivo in plants
Genome Biology, 2020 Background Guanine-rich sequences are able to form complex RNA structures termed RNA G-quadruplexes in vitro. Because of their high stability, RNA G-quadruplexes are proposed to exist in vivo and are suggested to be associated with important biological ...
Xiaofei Yang +10 more
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Compact Intermediates in RNA Folding [PDF]
Annual Review of Biophysics, 2010 Large noncoding RNAs fold into their biologically functional structures via compact yet disordered intermediates, which couple the stable secondary structure of the RNA with the emerging tertiary fold. The specificity of the collapse transition, which coincides with the assembly of helical domains, depends on RNA sequence and counterions.
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