The previous chapters have recalled our various theoretical approaches using chaotic dynamical sy... more The previous chapters have recalled our various theoretical approaches using chaotic dynamical systems for pseudorandom number generations (PRNGs). They have been theoretically studied and hardware implementations have been designed. We now recall various software algorithms that can be proposed using these chaotic dynamical systems, and we evaluate their statistical behaviors using the three well-known batteries of tests in TestU01 already presented in this book.
The dataset concerns all chloroplast complete sequences for Coffea genus. Sequences were annotate... more The dataset concerns all chloroplast complete sequences for Coffea genus. Sequences were annotated with the Genbank format (*.gb).
Underwater Collaborative Body Sensor Network (UCBSN) is an important application of Underwater Wi... more Underwater Collaborative Body Sensor Network (UCBSN) is an important application of Underwater Wireless Sensor Networks (UWSNs). It allows monitoring the performance and status of group of persons in underwater environments to take appropriate actions. In this article, an optimal cluster‐based routing scheme that was previously validated for BSNs and terrestrial CBSN is adapted to the underwater environment and proposed to address UCBSNs challenges. The main aim of the proposed scheme is to ensure reliable transmission of data, while reducing the network delay and the energy consumption of nodes, through optimizing the three steps of the routing process. The performance of the proposed scheme is compared to other existing algorithms in terms of delay, BER, energy consumption, and percentage of dropped packets.
2016 IEEE Intl Conference on Computational Science and Engineering (CSE) and IEEE Intl Conference on Embedded and Ubiquitous Computing (EUC) and 15th Intl Symposium on Distributed Computing and Applications for Business Engineering (DCABES), Aug 1, 2016
Spoligotyping, a graphical partial display of the CRISPR locus that can be produced in vitro or i... more Spoligotyping, a graphical partial display of the CRISPR locus that can be produced in vitro or in silico, is an important tool for analyzing the diversity of given Mycobacterium tuberculosis complex (MTC) isolates. As other CRISPR loci, this locus is made up of an alternation between direct repeats and spacers, and flanked by cas genes. Unveiling the genetic mechanisms of its evolution requires to have a fairly large amount of fully reconstructed loci among all MTC lineages. In this article, we point out and resolve the problem of CRISPR reconstruction based on short read sequences. We first show that more than 1/3 of the currently assembled genomes available for this complex contain a CRISPR locus erroneously reconstructed, and errors can be very significant. Second, we present a new computational method allowing this locus to be reconstructed extensively and reliably in silico using short read sequencing runs. Third, using this method, we describe new structural characteristics o...
2020 11th International Conference on Information and Communication Systems (ICICS)
Forecasting future incidents to the next hours is of great importance for fire brigades, which al... more Forecasting future incidents to the next hours is of great importance for fire brigades, which allows improving their response time to interventions, one direct cause to guarantee proper attendance to victims. Moreover, for many departments around the world, it exists problems such as the high increment of interventions through the years, which requires more personnel and machinery resources. However, due to budget limitations fire brigades have to face this increment with the same resources. Therefore, the objective of this paper is to implement and compare three boosting methods in the specific task of predicting the number of firemen interventions in the next hour. A dataset with specific temporal information of interventions from 2006–2018 was provided by the department fire and rescue SDIS25 in Doubs-France. Great efforts were concentrated on arranging and collecting more data (e.g., meteorological data, road traffic conditions). As it is presented in this work, they were prepro-cessed and learned in a supervised way. As shown in results, such methods are mature enough to provide a good solution with an acceptable margin of error for real-life implementations.
Since the late ‘60s, various genome evolutionary models have been proposed to predict the evoluti... more Since the late ‘60s, various genome evolutionary models have been proposed to predict the evolution of a DNA sequence as the generations pass. Essentially, two main categories of such models can be found in the literature. The first one, based on nucleotides evolution, uses a mutation matrix of size 4×4. It encompasses for instance the well-known models of Jukes and Cantor, Kimura, and Tamura. In the second category, exclusively studied by Bahi and Michel, the evolution of trinucleotides is studied through a matrix of size 64 × 64. By essence, all of these models relate the evolution of DNA sequences to the computation of the successive powers of a mutation matrix. To make this computation possible, particular forms for the mutation matrix are assumed, which are not compatible with mutation rates that have been recently obtained experimentally on gene ura3 of the Yeast Saccharomyces cerevisiae. Using this experimental study, authors of this paper have deduced a simple mutation matri...
2016 IEEE Intl Conference on Computational Science and Engineering (CSE) and IEEE Intl Conference on Embedded and Ubiquitous Computing (EUC) and 15th Intl Symposium on Distributed Computing and Applications for Business Engineering (DCABES), 2016
In cryptography, block ciphers are the most fundamental elements in many symmetric-key encryption... more In cryptography, block ciphers are the most fundamental elements in many symmetric-key encryption systems. The Cipher Block Chaining, denoted CBC, presents one of the most famous mode of operation that uses a block cipher to provide confidentiality or authenticity. In this research work, we intend to summarize our results that have been detailed in our previous series of articles. The goal of this series has been to obtain a complete topological study of the CBC block cipher mode of operation after proving his chaotic behavior according to the reputed definition of Devaney.
Secreted proteins are key players in fungal physiology and cell protection against external stres... more Secreted proteins are key players in fungal physiology and cell protection against external stressing agents and antifungals. OSIP1 (Oak Stress Induced Protein 1) is a fungal-specific protein with unknown function. By using Podospora anserina and Phanerochaete chrysosporium as models, we combined both in vivo functional approaches and biophysical characterization of OSIP1 recombinant protein. The P. anserina OSIP1Δ mutant showed an increased sensitivity to the antifungal caspofungin compared to the wild type. This correlated with the production of a weakened extracellular exopolysaccharide/protein matrix (ECM). Since the recombinant OSIP1 from P. chrysosporium self-assembled as fibers and was capable of gelation, it is likely that OSIP1 is linked to ECM formation that acts as a physical barrier preventing drug toxicity. Moreover, compared to the wild type, the OSIP1Δ mutant was more sensitive to oak extractives including chaotropic phenols and benzenes. It exhibited a strongly modif...
The previous chapters have recalled our various theoretical approaches using chaotic dynamical sy... more The previous chapters have recalled our various theoretical approaches using chaotic dynamical systems for pseudorandom number generations (PRNGs). They have been theoretically studied and hardware implementations have been designed. We now recall various software algorithms that can be proposed using these chaotic dynamical systems, and we evaluate their statistical behaviors using the three well-known batteries of tests in TestU01 already presented in this book.
The dataset concerns all chloroplast complete sequences for Coffea genus. Sequences were annotate... more The dataset concerns all chloroplast complete sequences for Coffea genus. Sequences were annotated with the Genbank format (*.gb).
Underwater Collaborative Body Sensor Network (UCBSN) is an important application of Underwater Wi... more Underwater Collaborative Body Sensor Network (UCBSN) is an important application of Underwater Wireless Sensor Networks (UWSNs). It allows monitoring the performance and status of group of persons in underwater environments to take appropriate actions. In this article, an optimal cluster‐based routing scheme that was previously validated for BSNs and terrestrial CBSN is adapted to the underwater environment and proposed to address UCBSNs challenges. The main aim of the proposed scheme is to ensure reliable transmission of data, while reducing the network delay and the energy consumption of nodes, through optimizing the three steps of the routing process. The performance of the proposed scheme is compared to other existing algorithms in terms of delay, BER, energy consumption, and percentage of dropped packets.
2016 IEEE Intl Conference on Computational Science and Engineering (CSE) and IEEE Intl Conference on Embedded and Ubiquitous Computing (EUC) and 15th Intl Symposium on Distributed Computing and Applications for Business Engineering (DCABES), Aug 1, 2016
Spoligotyping, a graphical partial display of the CRISPR locus that can be produced in vitro or i... more Spoligotyping, a graphical partial display of the CRISPR locus that can be produced in vitro or in silico, is an important tool for analyzing the diversity of given Mycobacterium tuberculosis complex (MTC) isolates. As other CRISPR loci, this locus is made up of an alternation between direct repeats and spacers, and flanked by cas genes. Unveiling the genetic mechanisms of its evolution requires to have a fairly large amount of fully reconstructed loci among all MTC lineages. In this article, we point out and resolve the problem of CRISPR reconstruction based on short read sequences. We first show that more than 1/3 of the currently assembled genomes available for this complex contain a CRISPR locus erroneously reconstructed, and errors can be very significant. Second, we present a new computational method allowing this locus to be reconstructed extensively and reliably in silico using short read sequencing runs. Third, using this method, we describe new structural characteristics o...
2020 11th International Conference on Information and Communication Systems (ICICS)
Forecasting future incidents to the next hours is of great importance for fire brigades, which al... more Forecasting future incidents to the next hours is of great importance for fire brigades, which allows improving their response time to interventions, one direct cause to guarantee proper attendance to victims. Moreover, for many departments around the world, it exists problems such as the high increment of interventions through the years, which requires more personnel and machinery resources. However, due to budget limitations fire brigades have to face this increment with the same resources. Therefore, the objective of this paper is to implement and compare three boosting methods in the specific task of predicting the number of firemen interventions in the next hour. A dataset with specific temporal information of interventions from 2006–2018 was provided by the department fire and rescue SDIS25 in Doubs-France. Great efforts were concentrated on arranging and collecting more data (e.g., meteorological data, road traffic conditions). As it is presented in this work, they were prepro-cessed and learned in a supervised way. As shown in results, such methods are mature enough to provide a good solution with an acceptable margin of error for real-life implementations.
Since the late ‘60s, various genome evolutionary models have been proposed to predict the evoluti... more Since the late ‘60s, various genome evolutionary models have been proposed to predict the evolution of a DNA sequence as the generations pass. Essentially, two main categories of such models can be found in the literature. The first one, based on nucleotides evolution, uses a mutation matrix of size 4×4. It encompasses for instance the well-known models of Jukes and Cantor, Kimura, and Tamura. In the second category, exclusively studied by Bahi and Michel, the evolution of trinucleotides is studied through a matrix of size 64 × 64. By essence, all of these models relate the evolution of DNA sequences to the computation of the successive powers of a mutation matrix. To make this computation possible, particular forms for the mutation matrix are assumed, which are not compatible with mutation rates that have been recently obtained experimentally on gene ura3 of the Yeast Saccharomyces cerevisiae. Using this experimental study, authors of this paper have deduced a simple mutation matri...
2016 IEEE Intl Conference on Computational Science and Engineering (CSE) and IEEE Intl Conference on Embedded and Ubiquitous Computing (EUC) and 15th Intl Symposium on Distributed Computing and Applications for Business Engineering (DCABES), 2016
In cryptography, block ciphers are the most fundamental elements in many symmetric-key encryption... more In cryptography, block ciphers are the most fundamental elements in many symmetric-key encryption systems. The Cipher Block Chaining, denoted CBC, presents one of the most famous mode of operation that uses a block cipher to provide confidentiality or authenticity. In this research work, we intend to summarize our results that have been detailed in our previous series of articles. The goal of this series has been to obtain a complete topological study of the CBC block cipher mode of operation after proving his chaotic behavior according to the reputed definition of Devaney.
Secreted proteins are key players in fungal physiology and cell protection against external stres... more Secreted proteins are key players in fungal physiology and cell protection against external stressing agents and antifungals. OSIP1 (Oak Stress Induced Protein 1) is a fungal-specific protein with unknown function. By using Podospora anserina and Phanerochaete chrysosporium as models, we combined both in vivo functional approaches and biophysical characterization of OSIP1 recombinant protein. The P. anserina OSIP1Δ mutant showed an increased sensitivity to the antifungal caspofungin compared to the wild type. This correlated with the production of a weakened extracellular exopolysaccharide/protein matrix (ECM). Since the recombinant OSIP1 from P. chrysosporium self-assembled as fibers and was capable of gelation, it is likely that OSIP1 is linked to ECM formation that acts as a physical barrier preventing drug toxicity. Moreover, compared to the wild type, the OSIP1Δ mutant was more sensitive to oak extractives including chaotropic phenols and benzenes. It exhibited a strongly modif...
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