2019 Publications
- A MapReduce Based Tool for the Analysis and Discovery of Novel Therapeutic Targets: https://ieeexplore.ieee.org/document/8671609
- Gene expression and pathway bioinformatics analysis detect a potential predictive value of MAP3K8 in thyroid cancer progression: https://ieeexplore.ieee.org/document/8983036
- Exploiting Stochastic Petri Net formalism to capture the Relapsing Remitting Multiple Sclerosis variability under Daclizumab administration: https://ieeexplore.ieee.org/document/8983368
- A MapReduce tool for in-depth analysis of KEGG pathways: identification and visualization of therapeutic target candidates: https://ieeexplore.ieee.org/document/8982978
- Generation of digital patients for the simulation of tuberculosis with UISS-TB: https://ieeexplore.ieee.org/document/8983100
- Evaluation of the efficacy of RUTI and ID93/GLA-SE vaccines in tuberculosis treatment: in silico trial through UISS-TB simulator: https://ieeexplore.ieee.org/document/8983060
- Design and optimization of PEGylated nanoparticles intended for Berberine Chloride delivery: https://www.sciencedirect.com/science/article/abs/pii/S1773224719301248?via%3Dihub
- EpiMethEx: a tool for large-scale integrated analysis in methylation hotspots linked to genetic regulation: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2397-6
- Computational modeling reveals MAP3K8 as mediator of resistance to vemurafenib in thyroid cancer stem cells: https://academic.oup.com/bioinformatics/article/35/13/2267/5210872
- A computational approach based on the colored Petri net formalism for studying multiple sclerosis: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-3196-4
- Parallelisation strategies for agent based simulation of immune systems: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-3181-y
- Predicting the artificial immunity induced by RUTI® vaccine against tuberculosis using universal immune system simulator (UISS): https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-3045-5
- Toward computational modelling on immune system function: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-3239-x
2018 Publications
- Computational Immunogenetics: https://www.sciencedirect.com/science/article/abs/pii/B9780128096338204524?via%3Dihub
- Abstract 5305: DNA methylation and gene expression in melanoma: A large-scale integrated analysis: https://aacrjournals.org/cancerres/article/78/13_Supplement/5305/629864/Abstract-5305-DNA-methylation-and-gene-expression
- Combining Parallel Genetic Algorithms and Machine Learning to Improve the Research of Optimal Vaccination Protocols: https://ieeexplore.ieee.org/document/8374493
- BIOESOnet: A Tool for the Generation of Personalized Human Metabolic Pathways from 23andMe Exome Data: https://link.springer.com/chapter/10.1007/978-3-319-95933-7_42
- An agent based modeling approach for the analysis of tuberculosis – immune system dynamics: https://ieeexplore.ieee.org/document/8621355
- Estimating Daclizumab effects in Multiple Sclerosis using Stochastic Symmetric Nets: https://ieeexplore.ieee.org/document/8621259
- Parallel Pair-Wise Interaction for Multi-Agent Immune Systems Modelling: https://ieeexplore.ieee.org/document/8621404
- Agent based modeling of relapsing multiple sclerosis: a possible approach to predict treatment outcome: https://ieeexplore.ieee.org/document/8621109
- GPU Accelerated Analysis of Treg-Teff Cross Regulation in Relapsing-Remitting Multiple Sclerosis: https://link.springer.com/chapter/10.1007/978-3-030-10549-5_49
- In silico clinical trials: concepts and early adoptions: https://academic.oup.com/bib/article/20/5/1699/5032454
- Computational modeling reveals MAP3K8 as mediator of resistance to vemurafenib in thyroid cancer stem cells: https://academic.oup.com/bioinformatics/article/35/13/2267/5210872
- Computational modeling of brain pathologies: the case of multiple sclerosis: https://academic.oup.com/bib/article/19/2/318/2730057
2017 Publications
- Modeling PI3K/PDK1/Akt and MAPK Signaling Pathways Using Continuous Petri Nets: https://link.springer.com/chapter/10.1007/978-3-319-63312-1_15
- 2DIs: A SBML Compliant Web Platform for the Design and Modeling of Immune System Interactions: https://link.springer.com/chapter/10.1007/978-3-319-63312-1_13
- Introducing scale factor adjustments on agent-based simulations of the immune system: https://ieeexplore.ieee.org/document/8217878
- Optimization and analisys of vaccination schedules using simulated annealing and agent based models: https://ieeexplore.ieee.org/document/8217877
- Continuous Petri Nets and microRNA Analysis in Melanoma: https://ieeexplore.ieee.org/document/7997743
- Combining agent based-models and virtual screening techniques to predict the best citrus-derived vaccine adjuvants against human papilloma virus: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-017-1961-9
2016 Publications
- SHyFTA, a Stochastic Hybrid Fault Tree Automaton for the modelling and simulation of dynamic reliability problems: https://www.sciencedirect.com/science/article/abs/pii/S0957417415007502?via%3Dihub
- Computational Modeling of PI3K/AKT and MAPK Signaling Pathways in Melanoma Cancer: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0152104
- Computational modeling in melanoma for novel drug discovery: https://www.tandfonline.com/doi/full/10.1080/17460441.2016.1174688
- Formal analysis of the surgical pathway and development of a new software tool to assist surgeons in the decision making in primary breast surgery: https://www.sciencedirect.com/science/article/abs/pii/S0960977616300789?via%3Dihub
- A computational model to predict the immune system activation by citrus-derived vaccine adjuvants: https://academic.oup.com/bioinformatics/article/32/17/2672/2450741
- ODEs approaches in modeling fibrosis: Comment on “Towards a unified approach in the modeling of fibrosis: A review with research perspectives” by Martine Ben Amar and Carlo Bianca: https://www.sciencedirect.com/science/article/abs/pii/S1571064516300276?via%3Dihub
- A methodological approach for using high-level Petri Nets to model the immune system response: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1361-6
2015 Publications
- Targeting the Minimum Vertex Set Problem with an Enhanced Genetic Algorithm Improved with Local Search Strategies: https://link.springer.com/chapter/10.1007/978-3-319-22180-9_18
- Computational modelling approaches to vaccinology: https://www.sciencedirect.com/science/article/abs/pii/S1043661814001431?via%3Dihub
- Computational modeling of the expansion of human cord blood CD133+ hematopoietic stem/progenitor cells with different cytokine combinations: https://academic.oup.com/bioinformatics/article/31/15/2514/188142
- Agent based modeling of the effects of potential treatments over the blood–brain barrier in multiple sclerosis: https://www.sciencedirect.com/science/article/abs/pii/S0022175915300417?via%3Dihub
- Advances in Computational Immunology: https://www.hindawi.com/journals/jir/2015/170920/
2014 Publications
- OntoFast: Construct Ontology Rapidly: https://link.springer.com/chapter/10.1007/978-3-319-11716-4_21
- Relapsing-remitting multiple scleroris and the role of vitamin D: an agent based model: https://dl.acm.org/doi/10.1145/2649387.2660844
- In Silico Modeling of the Immune System: Cellular and Molecular Scale Approaches: https://www.hindawi.com/journals/bmri/2014/371809/
- Agent-Based Modeling of the Immune System: NetLogo, a Promising Framework: https://www.hindawi.com/journals/bmri/2014/907171/
- Modeling Biology Spanning Different Scales: An Open Challenge: https://www.hindawi.com/journals/bmri/2014/902545/
- Computational and Bioinformatics Techniques for Immunology: https://www.hindawi.com/journals/bmri/2014/263189/
- Induction of T-cell memory by a dendritic cell vaccine: a computational model: https://academic.oup.com/bioinformatics/article/30/13/1884/204656
2013 Publications
- iAtheroSim: atherosclerosis process simulator on smart devices: https://dl.acm.org/doi/10.1145/2506583.2512356
- Persistence analysis in a Kolmogorov-type model for cancer-immune system competition: https://pubs.aip.org/aip/acp/article-abstract/1558/1/1797/878682/Persistence-analysis-in-a-Kolmogorov-type-model?redirectedFrom=fulltext
- Computational Biology Modeling across Different Scales: https://www.scitepress.org/Link.aspx?doi=10.5220/0004405706170625
- Induction of T-cell memory by a dendritic cell vaccine: a computational model: https://academic.oup.com/bioinformatics/article/30/13/1884/204656
- Physio-Environmental Sensing and Live Modeling: https://www.i-jmr.org/2013/1/e3/
- The Dynamic-to-Static Conversion of Dynamic Fault Trees Using Stochastic Dependency Graphs and Stochastic Activity Networks: https://www.scirp.org/journal/paperinformation?paperid=27727
- Cancer Vaccines: State of the Art of the Computational Modeling Approaches: https://www.hindawi.com/journals/bmri/2013/106407/
- Mathematical modeling of biological systems: https://www.combine-group.org/wp-admin/post.php?post=367&action=edit
2012 Publications
- Computational Models as Novel Tools for Cancer Vaccines: https://www.springerprofessional.de/en/computational-models-as-novel-tools-for-cancer-vaccines/4669194
- Modeling Cancer Vaccines: https://ieeexplore.ieee.org/document/6245676
- Immune System Modeling and Related Pathologies: https://www.hindawi.com/journals/cmmm/2012/274702/
- Optimal vaccination schedule search using genetic algorithm over MPI technology: https://bmcmedinformdecismak.biomedcentral.com/articles/10.1186/1472-6947-12-129
- Mathematical modeling of the immune system recognition to mammary carcinoma antigen: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-13-S17-S21
- Mathematical and Computational Models in Tumor Immunology: https://www.mmnp-journal.org/articles/mmnp/abs/2012/03/mmnp201273p186/mmnp201273p186.html
- A Modeling Framework For Immune-related Diseases: https://www.mmnp-journal.org/articles/mmnp/abs/2012/03/mmnp201273p40/mmnp201273p40.html
- Combining cellular automata and lattice Boltzmann method to model multiscale avascular tumor growth coupled with nutrient diffusion and immune competition: https://www.sciencedirect.com/science/article/abs/pii/S0022175911003152?via%3Dihub
2011 Publications
- Sexual Risk Behavior for HIV and other sexual diseases in Burkina Faso and structure of a sexual contact network: https://www.researchgate.net/publication/274732515_Sexual_Risk_Behavior_for_HIV_and_other_sexual_diseases_in_Burkina_Faso_and_structure_of_a_sexual_contact_network
- GRID Computing and Computational Immunology: https://cdn.intechopen.com/pdfs/18999.pdf
- A Model of Cytotoxic T Antitumor Activation Stimulated by Pulsed Dendritic Cells: https://pubs.aip.org/aip/acp/article-abstract/1389/1/1236/872423/A-Model-of-Cytotoxic-T-Antitumor-Activation?redirectedFrom=fulltext
- Predicting Long-Term Vaccine Efficacy against Metastases Using Agents: https://link.springer.com/chapter/10.1007/978-3-642-24553-4_15
- SimB16: Modeling Induced Immune System Response against B16-Melanoma: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0026523
2010 Publications
- Universal immune system simulator framework (UISS): https://dl.acm.org/doi/10.1145/1854776.1854900
- The ImmunoGrid Simulator: How to Use It: https://link.springer.com/chapter/10.1007/978-3-642-14571-1_1
- Cancer Immunoprevention: What Can We Learn from in Silico Models?: https://link.springer.com/chapter/10.1007/978-3-642-14831-6_15
- GRIDUISS – A Grid Based Universal Immune System Simulator Framework: https://link.springer.com/chapter/10.1007/978-3-642-14922-1_36
- Modeling the competition between lung metastases and the immune system using agents: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-11-S7-S13
- Vaccine protocols optimization: In silico experiences: https://www.sciencedirect.com/science/article/abs/pii/S0734975009001797?via%3Dihub
- A novel paradigm for cell and molecule interaction ontology: from the CMM model to IMGT-ONTOLOGY: https://www.neueve.com/blogs/immunome-research/6-1-1
- In silico Modeling and In vivo Efficacy of Cancer-Preventive Vaccinations: https://aacrjournals.org/cancerres/article/70/20/7755/561088/In-silico-Modeling-and-In-vivo-Efficacy-of-Cancer
- ImmunoGrid: towards agent-based simulations of the human immune system at a natural scale†: https://royalsocietypublishing.org/doi/10.1098/rsta.2010.0067