Predicting weighted unobserved nodes in a regulatory network using answer set programming [PDF]
BMC Bioinformatics, 2023 Background The impact of a perturbation, over-expression, or repression of a key node on an organism, can be modelled based on a regulatory and/or metabolic network.
Sophie Le Bars +3 more
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Designing miRNA-Based Synthetic Cell Classifier Circuits Using Answer Set Programming [PDF]
Frontiers in Bioengineering and Biotechnology, 2018 Cell classifier circuits are synthetic biological circuits capable of distinguishing between different cell states depending on specific cellular markers and engendering a state-specific response.
Katinka Becker +4 more
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Repairing Boolean logical models from time-series data using Answer Set Programming [PDF]
Algorithms for Molecular Biology, 2019 Background Boolean models of biological signalling-regulatory networks are increasingly used to formally describe and understand complex biological processes. These models may become inconsistent as new data become available and need to be repaired.
Alexandre Lemos +2 more
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Discriminate the response of Acute Myeloid Leukemia patients to treatment by using proteomics data and Answer Set Programming [PDF]
BMC Bioinformatics, 2018 Background During the last years, several approaches were applied on biomedical data to detect disease specific proteins and genes in order to better target drugs.
Lokmane Chebouba +3 more
doaj +2 more sources
Identification of bifurcation transitions in biological regulatory networks using Answer-Set Programming [PDF]
Algorithms for Molecular Biology, 2017 Background Numerous cellular differentiation processes can be captured using discrete qualitative models of biological regulatory networks. These models describe the temporal evolution of the state of the network subject to different competing ...
Louis Fippo Fitime +3 more
doaj +2 more sources
Using answer set programming to integrate RNA expression with signalling pathway information to infer how mutations affect ageing. [PDF]
PLoS ONE, 2012 A challenge of systems biology is to integrate incomplete knowledge on pathways with existing experimental data sets and relate these to measured phenotypes.
Irene Papatheodorou +5 more
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On the Semantics of Hybrid ASP Systems Based on Clingo
Algorithms, 2023 Over the last decades, the development of Answer Set Programming (ASP) has brought about an expressive modeling language powered by highly performant systems.
Pedro Cabalar +3 more
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Evolutionary System Design with Answer Set Programming
Algorithms, 2023 We address the problem of evolutionary system design (ESD) by means of answer set programming modulo difference constraints (AMT). The goal of this design approach is to synthesize new product variants or generations from existing products.
Christian Haubelt +4 more
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Smoke Test Planning using Answer Set Programming.
International Journal of Interactive Multimedia and Artificial Intelligence, 2021 Smoke testing is an important method to increase stability and reliability of hardware- gramming, Testing depending systems. Due to concurrent access to the same physical resource and the impracticality of the use of virtualization, smoke testing ...
Tobias Philipp +2 more
doaj +1 more source
A Compact Answer Set Programming Encoding of Multi-Agent Pathfinding
IEEE Access, 2021 Multi-agent pathfinding (MAPF) is the problem of finding $k$ non-colliding paths connecting $k$ given initial positions with $k$ given goal positions on a given map.
Rodrigo N. Gomez +2 more
doaj +1 more source