On the Number of Membranes in Unary P Systems

We consider P systems with a linear membrane structure working on objects over a unary alphabet using sets of rules resembling homomorphisms. Such a restricted variant of P systems allows for a unique minimal representation of the generated unary language and in that way for an effective solution of the equivalence problem. Moreover, we examine the descriptional complexity of unary P systems with respect to the number of membranes

Computing with cells: membrane systems - some complexity issues.

Membrane computing is a branch of natural computing which abstracts computing models from the structure and the functioning of the living cell. The main ingredients of membrane systems, called P systems, are (i) the membrane structure, which consists of a hierarchical arrangements of membranes which delimit compartments where (ii) multisets of symbols, called objects, evolve according to (iii) sets of rules which are localised and associated with compartments. By using the rules in a nondeterministic/deterministic maximally parallel manner, transitions between the system configurations can be obtained. A sequence of transitions is a computation of how the system is evolving. Various ways of controlling the transfer of objects from one membrane to another and applying the rules, as well as possibilities to dissolve, divide or create membranes have been studied. Membrane systems have a great potential for implementing massively concurrent systems in an efficient way that would allow us to solve currently intractable problems once future biotechnology gives way to a practical bio-realization. In this paper we survey some interesting and fundamental complexity issues such as universality vs. nonuniversality, determinism vs. nondeterminism, membrane and alphabet size hierarchies, characterizations of context-sensitive languages and other language classes and various notions of parallelism

Programs as Polypeptides

We describe a visual programming language for defining behaviors manifested by reified actors in a 2D virtual world that can be compiled into programs comprised of sequences of combinators that are themselves reified as actors. This makes it possible to build programs that build programs from components of a few fixed types delivered by diffusion using processes that resemble chemistry as much as computation.Comment: in European Conference on Artificial Life (ECAL '15), York, UK, 201

Modeling Brain Circuitry over a Wide Range of Scales

If we are ever to unravel the mysteries of brain function at its most fundamental level, we will need a precise understanding of how its component neurons connect to each other. Electron Microscopes (EM) can now provide the nanometer resolution that is needed to image synapses, and therefore connections, while Light Microscopes (LM) see at the micrometer resolution required to model the 3D structure of the dendritic network. Since both the topology and the connection strength are integral parts of the brain's wiring diagram, being able to combine these two modalities is critically important. In fact, these microscopes now routinely produce high-resolution imagery in such large quantities that the bottleneck becomes automated processing and interpretation, which is needed for such data to be exploited to its full potential. In this paper, we briefly review the Computer Vision techniques we have developed at EPFL to address this need. They include delineating dendritic arbors from LM imagery, segmenting organelles from EM, and combining the two into a consistent representation

Simulating counting oracles with cooperation

We prove that monodirectional shallow chargeless P systems with active membranes and minimal cooperation working in polynomial time precisely characterise P#P k , the complexity class of problems solved in polynomial time by deterministic Turing machines with a polynomial number of parallel queries to an oracle for a counting problem

Uniformity is weaker than semi-uniformity for some membrane systems

We investigate computing models that are presented as families of finite computing devices with a uniformity condition on the entire family. Examples of such models include Boolean circuits, membrane systems, DNA computers, chemical reaction networks and tile assembly systems, and there are many others. However, in such models there are actually two distinct kinds of uniformity condition. The first is the most common and well-understood, where each input length is mapped to a single computing device (e.g. a Boolean circuit) that computes on the finite set of inputs of that length. The second, called semi-uniformity, is where each input is mapped to a computing device for that input (e.g. a circuit with the input encoded as constants). The former notion is well-known and used in Boolean circuit complexity, while the latter notion is frequently found in literature on nature-inspired computation from the past 20 years or so. Are these two notions distinct? For many models it has been found that these notions are in fact the same, in the sense that the choice of uniformity or semi-uniformity leads to characterisations of the same complexity classes. In other related work, we showed that these notions are actually distinct for certain classes of Boolean circuits. Here, we give analogous results for membrane systems by showing that certain classes of uniform membrane systems are strictly weaker than the analogous semi-uniform classes. This solves a known open problem in the theory of membrane systems. We then go on to present results towards characterising the power of these semi-uniform and uniform membrane models in terms of NL and languages reducible to the unary languages in NL, respectively.Comment: 28 pages, 1 figur

Complete Problems for a Variant of P Systems with Active Membranes

We identify a family of decision problems that are hard for some complexity classes defined in terms of P systems with active membranes working in polynomial time. Furthermore, we prove the completeness of these problems in the case where the systems are equipped with a form of priority that linearly orders their rules. Finally, we highlight some possible connections with open problems related to the computational complexity of P systems with active membranes

Beyond KernelBoost

In this Technical Report we propose a set of improvements with respect to the KernelBoost classifier presented in [Becker et al., MICCAI 2013]. We start with a scheme inspired by Auto-Context, but that is suitable in situations where the lack of large training sets poses a potential problem of overfitting. The aim is to capture the interactions between neighboring image pixels to better regularize the boundaries of segmented regions. As in Auto-Context [Tu et al., PAMI 2009] the segmentation process is iterative and, at each iteration, the segmentation results for the previous iterations are taken into account in conjunction with the image itself. However, unlike in [Tu et al., PAMI 2009], we organize our recursion so that the classifiers can progressively focus on difficult-to-classify locations. This lets us exploit the power of the decision-tree paradigm while avoiding over-fitting. In the context of this architecture, KernelBoost represents a powerful building block due to its ability to learn on the score maps coming from previous iterations. We first introduce two important mechanisms to empower the KernelBoost classifier, namely pooling and the clustering of positive samples based on the appearance of the corresponding ground-truth. These operations significantly contribute to increase the effectiveness of the system on biomedical images, where texture plays a major role in the recognition of the different image components. We then present some other techniques that can be easily integrated in the KernelBoost framework to further improve the accuracy of the final segmentation. We show extensive results on different medical image datasets, including some multi-label tasks, on which our method is shown to outperform state-of-the-art approaches. The resulting segmentations display high accuracy, neat contours, and reduced noise