McGenus specifications

Information


Unique identifier OMICS_09267
Name McGenus
Interface Web user interface
Restrictions to use None
Input data RNA sequence
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Cristian Micheletti <>

Publication for McGenus

McGenus in publications

 (3)
PMCID: 5336357
PMID: 28186489
DOI: 10.7554/eLife.22883.019

[…] (n = 86) contained rip 1* in the absence of mg2+. this suggests that mg2+ enhanced cooperativity among some of the tss structural elements., mfold was used to predict δg’s of the tss hairpins () and mcgenus was used to predict δg’s of the pseudoknots (). the predicted δg’s (in kcals/mole) were h4a: −6.9; h4b: −9.2; h5: −21.8; h4a/ψ3: −8.3; and h4b/ψ2: −11.0. since the dynamic unfolding behaviors […]

PMCID: 5001617
PMID: 27378784
DOI: 10.1093/nar/gkw593

[…] using the create-background-model tool available from the regulatory sequence analysis tools (rsat) suite (http://rsat.ulb.ac.be/rsat/) (,)., from the complete set of fcbs sites (n = 34 218), the mcgenus algorithm () was used to predict pseudoknot formation and predicted folds were filtered to include kissing complex pseudoknots. for the permutation, an equal number of random sites […]

PMCID: 4829277
PMID: 26828280
DOI: 10.1080/15476286.2015.1132069

[…] have a significantly smaller graph diameter, a proxy for three-dimensional size, than their reshuffled versions. this point is reinforced by the analysis of the minimum energy structures returned by mcgenus. specifically, it is found that the predicted non-planar graphs of the reshuffled variants have a topological complexity, as measured by the graph genus, that is more than an order […]


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McGenus institution(s)
Institut de Physique Théorique, CEA Saclay, CNRS URA 2306, Gif-sur-Yvette, France; SISSA, Scuola Internazionale Superiore di Studi Avanzati and CNR-IOM Democritos, Trieste, Italy

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