Simone Spolaor recipient of EUSFLAT 2020 best PhD thesis award
My former PhD student, Simone Spolaor, was awarded by EUSFLAT for the best 2020 PhD thesis on fuzzy logic. Prof. Daniela Besozzi (Simone’s main advisor) and me are incredibly proud of this achievement. Simone’s thesis, titled “Fuzzy Logic for the modeling and simulation of complex systems”, is an investigation about moving back and forth from …
New paper on PLOS Computational Biology
GPUs are basically multi-core co-processors performing vectorial computation applying the so-called SIMD paradigm, i.e., the very same computation (implemented as a kernel) is performed across different data. The computation can be, for instance, a biochemical simulation. In this case, the simulation is defined coarse-grained and it is the case of cupSODA or cuTauLeaping. However, the …
New paper on Scientific Reports
Self-assembling peptides can be useful for clinical applications, for instance as scaffolds based on beta-sheets motifs. The dynamic evolution and self-assemly of peptide systems can be investigated in silico by using molecular dynamics. In particular, coarse-grained simulation exploiting MARTINI force fields can strongly reduce the overall running time and still provide useful information. In a …
Simpful v 2.1.5
We recently published the Release 2.1.5 of Simpful, our python tool for fuzzy modeling and reasoning. The new release supports the following improvements: Mamdani reasoning (which implies the support for output fuzzy sets); new pre-baked fuzzy sets (Triangular, Trapezoid) which integrate the already existing objects (e.g., Sigmoid, Gaussian). Of course, Simpful still supports the design …
Two new journal papers
Recently, we got two papers accepted for pubblication. The first one was the followup of our CIBCB 2019 paper, published on IEEE Journal of Biomedical and Health Informatics. The paper describes the last developments of our ProCell tool for cell proliferation analysis, whose GUI was completely overhauled by designer Luca Zanini and whose simulation core …
New paper about Dynamic Fuzzy Modeling accepted on Bioinformatics
Many years ago we started a cooperation with the Department of Biotechnology and Biosciences of the University of Milano-Bicocca. The goal was to govern programmed cell death on K-ras cancer cells under conditions of glucose starvation. Glucose is directly related to metabolism, i.e., glycolysis and TCA cycle in mitochondria, which in turn determine the production …
ProCell’s redesign
Designer Luca Zanini created a completely renewed GUI and user experience for ProCell. This is how the new interface looks like: The new interface of ProCell (which now reached version 1.6.0) has an elegant dark skin and has got an improved usability thanks to additional functionalities, a more rational use of colors and a new …
Best Paper Award at IEEE CIBCB’19
In early July, I presented our joint research with the European Institute of Oncology (IEO) at the 2019 IEEE Conference on Computational Intelligence in Computational Biology and Bioinformatics (CIBCB 2019). The paper, titled “ProCell: Investigating cell proliferation with Swarm Intelligence”, focuses on the investigation of AML blasts by means of ProCell, the stochastic modeling and …
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