COFOLD: an RNA secondary structure prediction method that takes co-transcriptional folding into account

Existing state-of-the-art methods that take a single RNA sequence and predict the corresponding RNA secondary structure are thermodynamic methods. These aim to predict the most stable RNA structure. There exists by now ample experimental and theoretical evidence that the process of structure formation matters and that sequences in vivo fold while they are being transcribed. None of the thermodynamic methods, however, consider the process of structure formation. Here, we present a conceptually new method for predicting RNA secondary structure, called CoFold, that takes effects of co-transcriptional folding explicitly into account. Our method significantly improves the state-of-art in terms of prediction accuracy, especially for long sequences of >1000 nt in length

Elastic Scattering of 200 MeV Polarized Protons from 9-Be and 16-O

This work was supported by the National Science Foundation Grant NSF PHY 78-22774 A02 & A03 and by Indiana Universit

Transient RNA structure features are evolutionarily conserved and can be computationally predicted

Functional RNA structures tend to be conserved during evolution. This finding is, for example, exploited by comparative methods for RNA secondary structure prediction that currently provide the state-of-art in terms of prediction accuracy. We here provide strong evidence that homologous RNA genes not only fold into similar final RNA structures, but that their folding pathways also share common transient structural features that have been evolutionarily conserved. For this, we compile and investigate a non-redundant data set of 32 sequences with known transient and final RNA secondary structures and devise a dedicated computational analysis pipeline

The Importance of Time Congruity in the Organisation.

In 1991 Kaufman, Lane, and Lindquist proposed that time congruity in terms of an individual's time preferences and the time use methods of an organisation would lead to satisfactory performance and enhancement of quality of work and general life. The research reported here presents a study which uses commensurate person and job measures of time personality in an organisational setting to assess the effects of time congruity on one aspect of work life, job-related affective well-being. Results show that time personality and time congruity were found to have direct effects on well-being and the influence of time congruity was found to be mediated through time personality, thus contributing to the person–job (P–J) fit literature which suggests that direct effects are often more important than indirect effects. The study also provides some practical examples of ways to address some of the previously cited methodological issues in P–J fit research

The Weiss conjecture on admissibility of observation operators for contraction semigroups

We prove the conjecture of George Weiss for contraction semigroups on Hilbert spaces, giving a characterization of infinite-time admissible observation functionals for a contraction semigroup, namely that such a functional C is infinite-time admissible if and only if there is an M > 0 such that parallel to IC(sI - A)(-1)parallel to less than or equal to M/root Re s for all s in the open right half-plane. Here A denotes the infinitesimal generator of the semigroup. The result provides a simultaneous generalization of several celebrated results from the theory of Hardy spaces involving Carleson measures and Hankel operators

Dust detection by the wave instrument on STEREO: nanoparticles picked up by the solar wind?

The STEREO/WAVES instrument has detected a very large number of intense voltage pulses. We suggest that these events are produced by impact ionisation of nanoparticles striking the spacecraft at a velocity of the order of magnitude of the solar wind speed. Nanoparticles, which are half-way between micron-sized dust and atomic ions, have such a large charge-to-mass ratio that the electric field induced by the solar wind magnetic field accelerates them very efficiently. Since the voltage produced by dust impacts increases very fast with speed, such nanoparticles produce signals as high as do much larger grains of smaller speeds. The flux of 10-nm radius grains inferred in this way is compatible with the interplanetary dust flux model. The present results may represent the first detection of fast nanoparticles in interplanetary space near Earth orbit.Comment: In press in Solar Physics, 13 pages, 5 figure

The Optical Model Analysis of 200 MeV p + 16-O Elastic Scattering

This work was supported by the National Science Foundation Grant NSF PHY 81-14339 and by Indiana Universit