Identifying protein complexes directly from high-throughput TAP data with Markov random fields

<p>Abstract</p> <p>Background</p> <p>Predicting protein complexes from experimental data remains a challenge due to limited resolution and stochastic errors of high-throughput methods. Current algorithms to reconstruct the complexes typically rely on a two-step process. First, they construct an interaction graph from the data, predominantly using heuristics, and subsequently cluster its vertices to identify protein complexes.</p> <p>Results</p> <p>We propose a model-based identification of protein complexes directly from the experimental observations. Our model of protein complexes based on Markov random fields explicitly incorporates false negative and false positive errors and exhibits a high robustness to noise. A model-based quality score for the resulting clusters allows us to identify reliable predictions in the complete data set. Comparisons with prior work on reference data sets shows favorable results, particularly for larger unfiltered data sets. Additional information on predictions, including the source code under the GNU Public License can be found at http://algorithmics.molgen.mpg.de/Static/Supplements/ProteinComplexes.</p> <p>Conclusion</p> <p>We can identify complexes in the data obtained from high-throughput experiments without prior elimination of proteins or weak interactions. The few parameters of our model, which does not rely on heuristics, can be estimated using maximum likelihood without a reference data set. This is particularly important for protein complex studies in organisms that do not have an established reference frame of known protein complexes.</p

Multi-risk assessment and management—a comparative study of the current state of affairs in chile and ecuador

In Chile and Ecuador, multiple hazards and dynamic processes in vulnerability pose a high risk. Spatial planning and emergency management can contribute to disaster risk management but they follow different goals. However, global goals, such as from UN-ISDR (United Nat

Social Interactive Human Video Synthesis

Abstract. In this paper, we propose a computational model for social interaction between three people in a conversation, and demonstrate results using human video motion synthesis. We utilised semi-supervised computer vision techniques to label social signals between the people, like laughing, head nod and gaze direction. Data mining is used to deduce frequently occurring patterns of social signals between a speaker and a listener in both interested and not interested social scenarios, and the mined confidence values are used as conditional probabilities to animate social responses. The human video motion synthesis is done using an appearance model to learn a multivariate probability distribution, combined with a transition matrix to derive the likelihood of motion given a pose configuration. Our system uses social labels to more accurately define motion transitions and build a texture motion graph. Traditional motion synthesis algorithms are best suited to large human movements like walking and running, where motion variations are large and prominent. Our method focuses on generating more subtle human movement like head nods. The user can then control who speaks and the interest level of the individual listeners resulting in social interactive conversational agents.