Cosmic Swarms: A search for Supermassive Black Holes in the LISA data stream with a Hybrid Evolutionary Algorithm

We describe a hybrid evolutionary algorithm that can simultaneously search for multiple supermassive black hole binary (SMBHB) inspirals in LISA data. The algorithm mixes evolutionary computation, Metropolis-Hastings methods and Nested Sampling. The inspiral of SMBHBs presents an interesting problem for gravitational wave data analysis since, due to the LISA response function, the sources have a bi-modal sky solution. We show here that it is possible not only to detect multiple SMBHBs in the data stream, but also to investigate simultaneously all the various modes of the global solution. In all cases, the algorithm returns parameter determinations within $5\sigma$ (as estimated from the Fisher Matrix) of the true answer, for both the actual and antipodal sky solutions.Comment: submitted to Classical & Quantum Gravity. 19 pages, 4 figure

Recent Advances in Graph Partitioning

We survey recent trends in practical algorithms for balanced graph partitioning together with applications and future research directions

ProtNN: Fast and Accurate Nearest Neighbor Protein Function Prediction based on Graph Embedding in Structural and Topological Space

Studying the function of proteins is important for understanding the molecular mechanisms of life. The number of publicly available protein structures has increasingly become extremely large. Still, the determination of the function of a protein structure remains a difficult, costly, and time consuming task. The difficulties are often due to the essential role of spatial and topological structures in the determination of protein functions in living cells. In this paper, we propose ProtNN, a novel approach for protein function prediction. Given an unannotated protein structure and a set of annotated proteins, ProtNN finds the nearest neighbor annotated structures based on protein-graph pairwise similarities. Given a query protein, ProtNN finds the nearest neighbor reference proteins based on a graph representation model and a pairwise similarity between vector embedding of both query and reference protein-graphs in structural and topological spaces. ProtNN assigns to the query protein the function with the highest number of votes across the set of k nearest neighbor reference proteins, where k is a user-defined parameter. Experimental evaluation demonstrates that ProtNN is able to accurately classify several datasets in an extremely fast runtime compared to state-of-the-art approaches. We further show that ProtNN is able to scale up to a whole PDB dataset in a single-process mode with no parallelization, with a gain of thousands order of magnitude of runtime compared to state-of-the-art approaches

Relevance of Negative Links in Graph Partitioning: A Case Study Using Votes From the European Parliament

In this paper, we want to study the informative value of negative links in signed complex networks. For this purpose, we extract and analyze a collection of signed networks representing voting sessions of the European Parliament (EP). We first process some data collected by the VoteWatch Europe Website for the whole 7 th term (2009-2014), by considering voting similarities between Members of the EP to define weighted signed links. We then apply a selection of community detection algorithms, designed to process only positive links, to these data. We also apply Parallel Iterative Local Search (Parallel ILS), an algorithm recently proposed to identify balanced partitions in signed networks. Our results show that, contrary to the conclusions of a previous study focusing on other data, the partitions detected by ignoring or considering the negative links are indeed remarkably different for these networks. The relevance of negative links for graph partitioning therefore is an open question which should be further explored.Comment: in 2nd European Network Intelligence Conference (ENIC), Sep 2015, Karlskrona, Swede