10,902 research outputs found
Dealing with goal models complexity using topological metrics and algorithms
The inherent complexity of business goal-models is a challenge for organizations that has to analyze and maintaining them. Several approaches are developed to reduce the complexity into manageable limits, either by providing support to the modularization or designing metrics to monitor the complexity levels. These approaches are designed to identify an unusual complexity comparing it among models. In the present work, we expose two approaches based on structural characteristics of goal-model, which do not require these comparisons. The first one ranksthe importance of goalsto identify a manageable set of them that can be considered as a priority; the second one modularizes the model to reduce the effort to understand, analyze and maintain the model.Peer ReviewedPostprint (published version
Representability of algebraic topology for biomolecules in machine learning based scoring and virtual screening
This work introduces a number of algebraic topology approaches, such as
multicomponent persistent homology, multi-level persistent homology and
electrostatic persistence for the representation, characterization, and
description of small molecules and biomolecular complexes. Multicomponent
persistent homology retains critical chemical and biological information during
the topological simplification of biomolecular geometric complexity.
Multi-level persistent homology enables a tailored topological description of
inter- and/or intra-molecular interactions of interest. Electrostatic
persistence incorporates partial charge information into topological
invariants. These topological methods are paired with Wasserstein distance to
characterize similarities between molecules and are further integrated with a
variety of machine learning algorithms, including k-nearest neighbors, ensemble
of trees, and deep convolutional neural networks, to manifest their descriptive
and predictive powers for chemical and biological problems. Extensive numerical
experiments involving more than 4,000 protein-ligand complexes from the PDBBind
database and near 100,000 ligands and decoys in the DUD database are performed
to test respectively the scoring power and the virtual screening power of the
proposed topological approaches. It is demonstrated that the present approaches
outperform the modern machine learning based methods in protein-ligand binding
affinity predictions and ligand-decoy discrimination
Graph analysis of functional brain networks: practical issues in translational neuroscience
The brain can be regarded as a network: a connected system where nodes, or
units, represent different specialized regions and links, or connections,
represent communication pathways. From a functional perspective communication
is coded by temporal dependence between the activities of different brain
areas. In the last decade, the abstract representation of the brain as a graph
has allowed to visualize functional brain networks and describe their
non-trivial topological properties in a compact and objective way. Nowadays,
the use of graph analysis in translational neuroscience has become essential to
quantify brain dysfunctions in terms of aberrant reconfiguration of functional
brain networks. Despite its evident impact, graph analysis of functional brain
networks is not a simple toolbox that can be blindly applied to brain signals.
On the one hand, it requires a know-how of all the methodological steps of the
processing pipeline that manipulates the input brain signals and extract the
functional network properties. On the other hand, a knowledge of the neural
phenomenon under study is required to perform physiological-relevant analysis.
The aim of this review is to provide practical indications to make sense of
brain network analysis and contrast counterproductive attitudes
Human Motion Trajectory Prediction: A Survey
With growing numbers of intelligent autonomous systems in human environments,
the ability of such systems to perceive, understand and anticipate human
behavior becomes increasingly important. Specifically, predicting future
positions of dynamic agents and planning considering such predictions are key
tasks for self-driving vehicles, service robots and advanced surveillance
systems. This paper provides a survey of human motion trajectory prediction. We
review, analyze and structure a large selection of work from different
communities and propose a taxonomy that categorizes existing methods based on
the motion modeling approach and level of contextual information used. We
provide an overview of the existing datasets and performance metrics. We
discuss limitations of the state of the art and outline directions for further
research.Comment: Submitted to the International Journal of Robotics Research (IJRR),
37 page
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