20 Result(s)
within
Francisco J. Romero-Campero
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Article
Open AccessALGAEFUN with MARACAS, microALGAE FUNctional enrichment tool for MicroAlgae RnA-seq and Chip-seq AnalysiS
Microalgae are emerging as promising sustainable sources for biofuels, biostimulants in agriculture, soil bioremediation, feed and human nutrients. Nonetheless, the molecular mechanisms underpinning microalgae...
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Article
Open AccessH2AK121ub in Arabidopsis associates with a less accessible chromatin state at transcriptional regulation hotspots
Although it is well established that the Polycomb Group (PcG) complexes maintain gene repression through the incorporation of H2AK121ub and H3K27me3, little is known about the effect of these modifications on ...
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Article
Open AccessComparative transcriptomic analysis unveils interactions between the regulatory CarS protein and light response in Fusarium
The orange pigmentation of the agar cultures of many Fusarium species is due to the production of carotenoids, terpenoid pigments whose synthesis is stimulated by light. The genes of the carotenoid pathway and th...
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Article
Open AccessH2A monoubiquitination in Arabidopsis thaliana is generally independent of LHP1 and PRC2 activity
Polycomb group complexes PRC1 and PRC2 repress gene expression at the chromatin level in eukaryotes. The classic recruitment model of Polycomb group complexes in which PRC2-mediated H3K27 trimethylation recrui...
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Article
Open AccessChlamyNET: a Chlamydomonas gene co-expression network reveals global properties of the transcriptome and the early setup of key co-expression patterns in the green lineage
Chlamydomonas reinhardtii is the model organism that serves as a reference for studies in algal genomics and physiology. It is of special interest in the study of the evolution of regu...
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Chapter
Evolution of the Flowering Pathways
Flowering plants are some of the most successful organisms on Earth, particularly those used in agriculture due to the widespread distribution produced by farming activities. The correct moment of the year to ...
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Chapter and Conference Paper
Heterotic Computing Examples with Optics, Bacteria, and Chemicals
Unconventional computers can perform embodied computation that can directly exploit the natural dynamics of the substrate. But such in materio devices are often limited, special purpose machines. To be practicall...
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Chapter and Conference Paper
Membrane Computing (Tutorial)
The aim of the tutorial is to give a general overview of the Membrane Computing paradigm [2,5]. Membrane Computing is a quite active research field, initiated by Gh. Păun in 1998 [3]. It is a theoretical machi...
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Article
A computational study of liposome logic: towards cellular computing from the bottom up
In this paper we propose a new bottom-up approach to cellular computing, in which computational chemical processes are encapsulated within liposomes. This “liposome logic” approach (also called vesicle computi...
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Article
Deterministic and stochastic P systems for modelling cellular processes
This paper presents two approaches based on metabolic and stochastic P systems, together with their associated analysis methods, for modelling biological systems and illustrates their use through two case stud...
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Article
Open AccessEvolving cell models for systems and synthetic biology
This paper proposes a new methodology for the automated design of cell models for systems and synthetic biology. Our modelling framework is based on P systems, a discrete, stochastic and modular formal modelli...
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Chapter and Conference Paper
An Approach to the Engineering of Cellular Models Based on P Systems
Living cells assembled into colonies or tissues communicate using complex systems. These systems consist in the interaction between many molecular species distributed over many compartments. Among the different c...
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Chapter and Conference Paper
A Linear Solution for QSAT with Membrane Creation
The usefulness of P systems with membrane creation for solving NP problems has been previously proved (see [2, 3]), but, up to now, it was an open problem whether such P systems were able to solve PSPACE-complete...
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Chapter and Conference Paper
Towards a P Systems Pseudomonas Quorum Sensing Model
Pseudomonas aeruginosa is an opportunistic bacterium that exploits quorum sensing communication to synchronize individuals in a colony and this leads to an increase in the effectiveness of its virulence. In th...
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Chapter and Conference Paper
Modeling Signal Transduction Using P Systems
Cellular signalling pathways are fundamental to the control and regulation of cell behavior. Understanding of biosignalling network functions is crucial to the study of different diseases and to the design of ...
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Chapter and Conference Paper
A Modeling Approach Based on P Systems with Bounded Parallelism
This paper presents a general framework for modelling with membrane systems that is based on a computational paradigm where rules have associated a finite set of attributes and a corresponding function. Attrib...
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Chapter and Conference Paper
Towards Probabilistic Model Checking on P Systems Using PRISM
This paper presents the use of P systems and π-calculus to model interacting molecular entities and how they are translated into a probabilistic and symbolic model checker called PRISM.
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Chapter and Conference Paper
On the Power of Dissolution in P Systems with Active Membranes
In this paper we study membrane dissolution rules in the framework of P systems with active membranes but without using electrical charges. More precisely, we prove that the polynomial computational complexity...
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Chapter and Conference Paper
Attacking the Common Algorithmic Problem by Recognizer P Systems
Many NP-complete problems can be viewed as special cases of the Common Algorithmic Problem (CAP). In a precise sense, which will be defined in the paper, one may say that CAP has a property of local universality....
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Chapter and Conference Paper
P Systems with Active Membranes, Without Polarizations and Without Dissolution: A Characterization of P
We study the computational efficiency of recognizer P systems with active membranes without polarizations and without dissolution. The main result of the paper is the following: the polynomial computational co...
