Qualitative modelling and analysis of regulations in multi-cellular systems using Petri nets and topological collections

In this paper, we aim at modelling and analyzing the regulation processes in multi-cellular biological systems, in particular tissues. The modelling framework is based on interconnected logical regulatory networks a la Rene Thomas equipped with information about their spatial relationships. The semantics of such models is expressed through colored Petri nets to implement regulation rules, combined with topological collections to implement the spatial information. Some constraints are put on the the representation of spatial information in order to preserve the possibility of an enumerative and exhaustive state space exploration. This paper presents the modelling framework, its semantics, as well as a prototype implementation that allowed preliminary experimentation on some applications.Comment: In Proceedings MeCBIC 2010, arXiv:1011.005

WLIMES, The Wandering LIMES: Towards a Theoretical Framework for Wandering Logic Intelligence Memory Evolutive Systems

This paper compares two complementary theories, Simeonov’s Wandering Logic Intelligence and Ehresmann’s & Vanbremeersch’s Memory Evolutive Systems, in view of developing a common framework for the study of multiscale complex systems such as living systems. It begins by a brief summary of WLI and MES, then analyzes their resemblances and differences. Finally, the article provides an outlook for a future research

o.OM: Structured-Functional Communication between Computer Music Systems using OSC and Odot

International audienceO.—odot—is a portable media programming framework based on the OSC data encoding. It embeds a small expression language which allows writing and executing programs in OSC structures. The integration of programming and declarative functional descriptions within data transfer protocols enables structured and expressive communication in media systems: program snippets can be distributed in OSC messages, which evaluate to further OSC messages in the different communicating software. We present experiments using this framework in the OpenMusic computer-aided composition environment , and illustrate via case studies some advantages of such integrated system

Multiscale Bone Remodelling with Spatial P Systems

Many biological phenomena are inherently multiscale, i.e. they are characterized by interactions involving different spatial and temporal scales simultaneously. Though several approaches have been proposed to provide "multilayer" models, only Complex Automata, derived from Cellular Automata, naturally embed spatial information and realize multiscaling with well-established inter-scale integration schemas. Spatial P systems, a variant of P systems in which a more geometric concept of space has been added, have several characteristics in common with Cellular Automata. We propose such a formalism as a basis to rephrase the Complex Automata multiscaling approach and, in this perspective, provide a 2-scale Spatial P system describing bone remodelling. The proposed model not only results to be highly faithful and expressive in a multiscale scenario, but also highlights the need of a deep and formal expressiveness study involving Complex Automata, Spatial P systems and other promising multiscale approaches, such as our shape-based one already resulted to be highly faithful.Comment: In Proceedings MeCBIC 2010, arXiv:1011.005

Fermi observations of TeV-selected AGN

We report on observations of TeV-selected AGN made during the first 5.5 months of observations with the Large Area Telescope (LAT) on-board the Fermi Gamma-ray Space Telescope (Fermi). In total, 96 AGN were selected for study, each being either (i) a source detected at TeV energies (28 sources) or (ii) an object that has been studied with TeV instruments and for which an upper-limit has been reported (68 objects). The Fermi observations show clear detections of 38 of these TeV-selected objects, of which 21 are joint GeV-TeV sources and 29 were not in the third EGRET catalog. For each of the 38 Fermi-detected sources, spectra and light curves are presented. Most can be described with a power law of spectral index harder than 2.0, with a spectral break generally required to accommodate the TeV measurements. Based on an extrapolation of the Fermi spectrum, we identify sources, not previously detected at TeV energies, which are promising targets for TeV instruments. Evidence for systematic evolution of the $\gamma$-ray spectrum with redshift is presented and discussed in the context of interaction with the EBL.Comment: 51 pages, 6 figures, accepted for The Astronomical Journa

The major upgrade of the MAGIC telescopes, Part II: A performance study using observations of the Crab Nebula

MAGIC is a system of two Imaging Atmospheric Cherenkov Telescopes located in the Canary island of La Palma, Spain. During summer 2011 and 2012 it underwent a series of upgrades, involving the exchange of the MAGIC-I camera and its trigger system, as well as the upgrade of the readout system of both telescopes. We use observations of the Crab Nebula taken at low and medium zenith angles to assess the key performance parameters of the MAGIC stereo system. For low zenith angle observations, the standard trigger threshold of the MAGIC telescopes is ~50GeV. The integral sensitivity for point-like sources with Crab Nebula-like spectrum above 220GeV is (0.66+/-0.03)% of Crab Nebula flux in 50 h of observations. The angular resolution, defined as the sigma of a 2-dimensional Gaussian distribution, at those energies is < 0.07 degree, while the energy resolution is 16%. We also re-evaluate the effect of the systematic uncertainty on the data taken with the MAGIC telescopes after the upgrade. We estimate that the systematic uncertainties can be divided in the following components: < 15% in energy scale, 11-18% in flux normalization and +/-0.15 for the energy spectrum power-law slope.Comment: 21 pages, 25 figures, accepted for publication in Astroparticle Physic

MAGIC Upper Limits for two Milagro-detected, Bright Fermi Sources in the Region of SNR G65.1+0.6

We report on the observation of the region around supernova remnant G65.1+0.6 with the stand-alone MAGIC-I telescope. This region hosts the two bright GeV gamma-ray sources 1FGL J1954.3+2836 and 1FGL J1958.6+2845. They are identified as GeV pulsars and both have a possible counterpart detected at about 35 TeV by the Milagro observatory. MAGIC collected 25.5 hours of good quality data, and found no significant emission in the range around 1 TeV. We therefore report differential flux upper limits, assuming the emission to be point-like (<0.1 deg) or within a radius of 0.3 deg. In the point-like scenario, the flux limits around 1 TeV are at the level of 3 % and 2 % of the Crab Nebula flux, for the two sources respectively. This implies that the Milagro emission is either extended over a much larger area than our point spread function, or it must be peaked at energies beyond 1 TeV, resulting in a photon index harder than 2.2 in the TeV band.Comment: 8 pages, 3 figures, 1 tabl

PSR J1907+0602: A Radio-Faint Gamma-Ray Pulsar Powering a Bright TeV Pulsar Wind Nebula

We present multiwavelength studies of the 106.6 ms gamma-ray pulsar PSR J1907+06 near the TeV source MGRO J1908+06. Timing observations with Fermi result in a precise position determination for the pulsar of R.A. = 19h07m547(2), decl. = +06:02:16(2) placing the pulsar firmly within the TeV source extent, suggesting the TeV source is the pulsar wind nebula of PSR J1907+0602. Pulsed gamma-ray emission is clearly visible at energies from 100 MeV to above 10 GeV. The phase-averaged power-law index in the energy range E > 0.1 GeV is = 1.76 \pm 0.05 with an exponential cutoff energy E_{c} = 3.6 \pm 0.5 GeV. We present the energy-dependent gamma-ray pulsed light curve as well as limits on off-pulse emission associated with the TeV source. We also report the detection of very faint (flux density of ~3.4 microJy) radio pulsations with the Arecibo telescope at 1.5 GHz having a dispersion measure DM = 82.1 \pm 1.1 cm^{-3}pc. This indicates a distance of 3.2 \pm 0.6 kpc and a pseudo-luminosity of L_{1400} ~ 0.035 mJy kpc^2. A Chandra ACIS observation revealed an absorbed, possibly extended, compact <(4 arcsec) X-ray source with significant non-thermal emission at R.A. = 19h07m54.76, decl. = +06:02:14.6 with a flux of 2.3^{+0.6}_{-1.4} X 10^{-14} erg cm^{-2} s^{-1}. From archival ASCA observations, we place upper limits on any arcminute scale 2--10 keV X-ray emission of ~ 1 X 10^{-13} erg cm^{-2} s^{-1}. The implied distance to the pulsar is compatible with that of the supernova remnant G40.5-0.5, located on the far side of the TeV nebula from PSR J1907+0602, and the S74 molecular cloud on the nearer side which we discuss as potential birth sites

Fermi LAT observations of the Geminga pulsar

We report on the \textit{Fermi}-LAT observations of the Geminga pulsar, the second brightest non-variable GeV source in the $\gamma$-ray sky and the first example of a radio-quiet $\gamma$-ray pulsar. The observations cover one year, from the launch of the $Fermi$ satellite through 2009 June 15. A data sample of over 60,000 photons enabled us to build a timing solution based solely on $\gamma$ rays. Timing analysis shows two prominent peaks, separated by $\Delta \phi$ = 0.497 $\pm$ 0.004 in phase, which narrow with increasing energy. Pulsed $\gamma$ rays are observed beyond 18 GeV, precluding emission below 2.7 stellar radii because of magnetic absorption. The phase-averaged spectrum was fitted with a power law with exponential cut-off of spectral index $\Gamma$ = (1.30 $\pm$ 0.01 $\pm$ 0.04), cut-off energy $E_{0}$ = (2.46 $\pm$ 0.04 $\pm$ 0.17) GeV and an integral photon flux above 0.1 GeV of (4.14 $\pm$ 0.02 $\pm$ 0.32) $\times$ 10$^{-6}$ cm$^{-2}$ s$^{-1}$. The first uncertainties are statistical and the second are systematic. The phase-resolved spectroscopy shows a clear evolution of the spectral parameters, with the spectral index reaching a minimum value just before the leading peak and the cut-off energy having maxima around the peaks. Phase-resolved spectroscopy reveals that pulsar emission is present at all rotational phases. The spectral shape, broad pulse profile, and maximum photon energy favor the outer magnetospheric emission scenarios.Comment: 32 pages, 12 figures, 3 tables. Accepted for publication in The Astrophysical Journal. Corresponding authors: Denis Dumora ([email protected]), Fabio Gargano ([email protected]), Massimiliano Razzano ([email protected]

Fermi-LAT Discovery of Extended Gamma-ray Emission in the Direction of Supernova Remnant W51C

The discovery of bright gamma-ray emission coincident with supernova remnant (SNR) W51C is reported using the Large Area Telescope (LAT) on board the Fermi Gamma-ray Space Telescope. W51C is a middle-aged remnant (~10^4 yr) with intense radio synchrotron emission in its shell and known to be interacting with a molecular cloud. The gamma-ray emission is spatially extended, broadly consistent with the radio and X-ray extent of SNR W51C. The energy spectrum in the 0.2-50 GeV band exhibits steepening toward high energies. The luminosity is greater than 1x10^{36} erg/s given the distance constraint of D>5.5 kpc, which makes this object one of the most luminous gamma-ray sources in our Galaxy. The observed gamma-rays can be explained reasonably by a combination of efficient acceleration of nuclear cosmic rays at supernova shocks and shock-cloud interactions. The decay of neutral pi-mesons produced in hadronic collisions provides a plausible explanation for the gamma-ray emission. The product of the average gas density and the total energy content of the accelerated protons amounts to 5x10^{51}(D/6kpc)^2 erg/cm^3. Electron density constraints from the radio and X-ray bands render it difficult to explain the LAT signal as due to inverse Compton scattering. The Fermi LAT source coincident with SNR W51C sheds new light on the origin of Galactic cosmic rays.Comment: 17 pages, 4 figures, 1 table. Accepted for ApJ Letters. Contact authors: Y. Uchiyama, S. Funk., H. Tajima, T. Tanak