Research overview.
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Sergiu Ivanov
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cv.tex
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cv.tex
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@ -632,6 +632,150 @@ the digital services of Thales Group.
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\begin{refsection}[bib/sivanov-dblp.bib,bib/sivanov-extra.bib]
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\section{Research overview}
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\label{sec:research}
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The structuring objective of my research is \emph{striking a Deal with
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Life}: establishing a theoretical framework and sketching out
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practical approaches for \emph{mutually beneficial interactions} with
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living systems. Practically, my work falls into the following 2 broad
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categories:
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\begin{enumerate}
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\item deepening the knowledge about complex biological systems and
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suggesting improvements for health-related applications,
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\item setting up formal frameworks for thinking about and better
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understanding the grand processes of Life.
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\end{enumerate}
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The following sections provide the keywords situating the domains and
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approaches I apply in my work, together with the
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corresponding publications.
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\subsection{Bioinformatics}
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\label{sec:bioinformatics}
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\begin{itemize}
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\item network controllability, theoretical cell fate reprogramming,
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therapy inference
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\cite{doi:https://doi.org/10.1002/9781119716600.ch10,
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DBLP:journals/tcs/AlhazovFFGI23,
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DBLP:journals/corr/abs-2208-14723,
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DBLP:journals/tcs/PardoID21,
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DBLP:conf/cmsb/PardoID19%
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},
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Jérémie \textsc{Pardo} and Louison \textsc{Crépin}'s PhD theses,
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Vincent \textsc{Ferrari-Dominguez}'s internship
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\item biological modelling
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\cite{DBLP:journals/tcs/AzimiG0MPP16,
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DBLP:journals/tcs/AzimiGIP15,
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DBLP:journals/jmemcom/IvanovP20,
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DBLP:conf/birthday/0001RAP18%
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}
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\item a promising collaboration on multi-agent modelling of rheumatoid
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arthritis with Anna \textsc{Niarakis} which fell victim to the
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Covid19 pandemic (Yacine \textsc{Hadjar} and Imad \textsc{Bouzgou}'s
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internship in 2020)
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\end{itemize}
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\subsection{Theoretical biology}
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\label{sec:theoretical-biology}
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\begin{itemize}
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\item complexity increase during evolution
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\cite{C:AB20,
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DBLP:conf/complexnetworks/Segretain0TG20,
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DBLP:conf/complexnetworks/VuongCIGT17%
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}
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\item robustness, evolvability, and viability
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\cite{DBLP:conf/bibe/SegretainTG021}: Rémy \textsc{Défossez} and
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Ai-Ling \textsc{Nguyen-Bonnet}'s internships
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\item origins of life: Aurélien \textsc{Larchères}, Maxime
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\textsc{Wang}, Saïd \textsc{Ider}, and Clément \textsc{Hege}'s
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internships, ongoing collaboration with Nicolas \textsc{Glade}
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\item atavistic theory of cancer: Workshop on the Atavistic Theory of
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Cancer ATAC2022, ongoing collaboration with Nicolas \textsc{Glade}
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and Angélique \textsc{Stéphanou}
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\end{itemize}
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\subsection{Theoretical computer science and natural computing}
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\label{sec:tcs}
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\begin{itemize}
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\item membrane (P) systems, multiset rewriting, register machines
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\cite{DBLP:journals/tcs/AlhazovFIV23,
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DBLP:journals/tcs/AlhazovFIO22,
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DBLP:journals/ijfcs/AlhazovFIV22,
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DBLP:journals/jmemcom/AlhazovF021,
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DBLP:journals/jmemcom/AlhazovFI21,
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DBLP:journals/jmemcom/AlhazovFIV21,
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DBLP:journals/tcs/AlhazovFI20,
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DBLP:journals/tcs/AlhazovFIPS20,
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DBLP:journals/jmemcom/VerlanFAIP20,
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DBLP:journals/nc/AlhazovFI19,
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DBLP:journals/nc/AlhazovFIOV18,
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AlhazovFIO2015,
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DBLP:journals/fuin/AlhazovF014,
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DBLP:journals/ijcm/Ivanov13,
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DBLP:journals/csjm/Ivanov12,
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DBLP:journals/ijncr/IvanovARG11,
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DBLP:journals/csjm/AlhazovCIR10,
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DBLP:conf/ncma/AlhazovF019,
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DBLP:conf/uc/AlhazovF018,
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DBLP:conf/birthday/AlhazovF0OV18,
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DBLP:conf/membrane/AlhazovFIV18,
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DBLP:conf/membrane/AlhazovF017,
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DBLP:journals/corr/abs-1708-06458,
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DBLP:conf/membrane/AlhazovAF016,
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DBLP:conf/membrane/AlhazovBF0PZ16,
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DBLP:conf/uc/Freund0S15,
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DBLP:conf/membrane/Freund0V15,
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DBLP:conf/membrane/Ivanov14,
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DBLP:conf/membrane/Ivanov11,
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DBLP:conf/membrane/AlhazovCIR10,
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DBLP:conf/membrane/AlhazovIR10%
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}
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\item string rewriting, regulated string rewriting
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\cite{DBLP:journals/jalc/AlhazovF0V22,
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DBLP:journals/fuin/AlhazovFIO21,
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DBLP:journals/nc/IvanovV21,
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DBLP:journals/fuin/IvanovV17,
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DBLP:journals/ijuc/FreundIS16,
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IvanovMarcus2015,
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DBLP:journals/fuin/0001V15,
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DBLP:conf/mcu/AlhazovFIV22,
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DBLP:conf/mcu/AlhazovF018,
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DBLP:conf/mcu/0001V15,
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DBLP:conf/membrane/IvanovV13%
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}
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\item discrete dynamical networks
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\cite{DBLP:journals/biosystems/DelaplaceI20,
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DBLP:journals/jalc/Alhazov0PV16,
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DBLP:journals/jalc/0001RV14,
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DBLP:conf/dcfs/0001PV14%
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}
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\item array grammars
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\cite{DBLP:journals/tcs/AlhazovFFISS17,
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DBLP:conf/uc/FernauFISS13,
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DBLP:journals/corr/FreundIOS13%
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}
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\end{itemize}
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\subsection{DNA computing}
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\label{sec:dna}
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\begin{itemize}
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\item DNA origami: ongoing collaboration across 3 other laboratories
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in Évry: Marco Antonio \textsc{Mendoza Parra} (SysFate, ISSB), Loïc
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\textsc{Hamon} (SABNP), and Guillaume \textsc{Lamour} (LAMBE)
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\item new Master's level course \emph{Computational DNA
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nanotechnology}
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\item theory of tile-based self-assembly: Noémie \textsc{Harmand},
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Idriss \textsc{Ben Saïd}, and Mustapha \textsc{Si Kaddour}'s
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internships, ongoing collaboration with Damien \textsc{Regnault}
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\end{itemize}
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\newpage
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\section{Publications}
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\label{sec:publications}
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