Cross-interval histogram analysis of neuronal activity on multi-electrode arrays

Cross-neuron-interval histogram (CNIH) analysis has been performed in order to study correlated activity and connectivity between pairs of neurons in a spontaneously active developing cultured network of rat cortical cells. Thirty-eight histograms could be analyzed using two parameters, one for the shape and one for the average number per interval bin. The histogram shape varied gradually between flat and clearly peaked around zero interval, indicating no/abundant connectivity and direct connection pathways, respectively

Interaction and observation: categorical semantics of reactive systems trough dialgebras

We use dialgebras, generalising both algebras and coalgebras, as a complement of the standard coalgebraic framework, aimed at describing the semantics of an interactive system by the means of reaction rules. In this model, interaction is built-in, and semantic equivalence arises from it, instead of being determined by a (possibly difficult) understanding of the side effects of a component in isolation. Behavioural equivalence in dialgebras is determined by how a given process interacts with the others, and the obtained observations. We develop a technique to inter-define categories of dialgebras of different functors, that in particular permits us to compare a standard coalgebraic semantics and its dialgebraic counterpart. We exemplify the framework using the CCS and the pi-calculus. Remarkably, the dialgebra giving semantics to the pi-calculus does not require the use of presheaf categories

The Quiet-Sun Photosphere and Chromosphere

The overall structure and the fine structure of the solar photosphere outside active regions are largely understood, except possibly important roles of a turbulent near-surface dynamo at its bottom, internal gravity waves at its top, and small-scale vorticity. Classical 1D static radiation-escape modelling has been replaced by 3D time-dependent MHD simulations that come closer to reality. The solar chromosphere, in contrast, remains ill-understood although its pivotal role in coronal mass and energy loading makes it a principal research area. Its fine structure defines its overall structure, so that hard-to-observe and hard-to-model small-scale dynamical processes are the key to understanding. However, both chromospheric observation and chromospheric simulation presently mature towards the required sophistication. The open-field features seem of greater interest than the easier-to-see closed-field features.Comment: Accepted for special issue "Astrophysical Processes on the Sun" of Phil. Trans. Royal Soc. A, ed. C. Parnell. Note: clicking on the year in a citation opens the corresponding ADS abstract page in the browse

All-sky Relative Opacity Mapping Using Night Time Panoramic Images

An all-sky cloud monitoring system that generates relative opacity maps over many of the world's premier astronomical observatories is described. Photometric measurements of numerous background stars are combined with simultaneous sky brightness measurements to differentiate thin clouds from sky glow sources such as air glow and zodiacal light. The system takes a continuous pipeline of all-sky images, and compares them to canonical images taken on other nights at the same sidereal time. Data interpolation then yields transmission maps covering almost the entire sky. An implementation of this system is currently operating through the Night Sky Live network of CONCAM3s located at Cerro Pachon (Chile), Mauna Kea (Hawaii), Haleakala (Hawaii), SALT (South Africa) and the Canary Islands (Northwestern Africa).Comment: Accepted for publication in PAS

DOT tomography of the solar atmosphere. IV. Magnetic patches in internetwork areas

We use G-band and Ca II H image sequences from the Dutch Open Telescope (DOT) to study magnetic elements that appear as bright points in internetwork parts of the quiet solar photosphere and chromosphere. We find that many of these bright points appear recurrently with varying intensity and horizontal motion within longer-lived magnetic patches. We develop an algorithm for detection of the patches and find that all patches identified last much longer than the granulation. The patches outline cell patterns on mesogranular scales, indicating that magnetic flux tubes are advected by granular flows to mesogranular boundaries. Statistical analysis of the emergence and disappearance of the patches points to an average patch lifetime as long as 530+-50 min (about nine hours), which suggests that the magnetic elements constituting strong internetwork fields are not generated by a local turbulent dynamo.Comment: 8 pages, 6 figure

On coalgebras with internal moves

In the first part of the paper we recall the coalgebraic approach to handling the so-called invisible transitions that appear in different state-based systems semantics. We claim that these transitions are always part of the unit of a certain monad. Hence, coalgebras with internal moves are exactly coalgebras over a monadic type. The rest of the paper is devoted to supporting our claim by studying two important behavioural equivalences for state-based systems with internal moves, namely: weak bisimulation and trace semantics. We continue our research on weak bisimulations for coalgebras over order enriched monads. The key notions used in this paper and proposed by us in our previous work are the notions of an order saturation monad and a saturator. A saturator operator can be intuitively understood as a reflexive, transitive closure operator. There are two approaches towards defining saturators for coalgebras with internal moves. Here, we give necessary conditions for them to yield the same notion of weak bisimulation. Finally, we propose a definition of trace semantics for coalgebras with silent moves via a uniform fixed point operator. We compare strong and weak bisimilation together with trace semantics for coalgebras with internal steps.Comment: Article: 23 pages, Appendix: 3 page

Application of Aptamers Improves CRISPR-Based Live Imaging of Plant Telomeres

Development of live imaging techniques for providing information how chromatin is organized in living cells is pivotal to decipher the regulation of biological processes. Here, we demonstrate the improvement of a live imaging technique based on CRISPR/Cas9. In this approach, the sgRNA scaffold is fused to RNA aptamers including MS2 and PP7. When the dead Cas9 (dCas9) is co-expressed with chimeric sgRNA, the fluorescent coat protein-tagged for MS2 and PP7 aptamers (tdMCP-FP and tdPCP-FP) are recruited to the targeted sequence. Compared to previous work with dCas9:GFP, we show that the quality of telomere labeling was improved in transiently transformed Nicotiana benthamiana using aptamer-based CRISPR-imaging constructs. Labeling is influenced by the copy number of aptamers and less by the promoter types. The same constructs were not applicable for labeling of repeats in stably transformed plants and roots. The constant interaction of the RNP complex with its target DNA might interfere with cellular processes

Severe tracheal and bronchial collapse in adults with type II mucopolysaccharidosis

Background: Mucopolysaccharidosis type II (MPSII) patients frequently suffer from dyspnoea caused by restrictive airway disease due to skeletal abnormalities as well as glycosaminoglycans (GAG) accumulation at different levels of the airway, including the trachea. In this study we describe the extent of the tracheal and bronchial narrowing, the changes in airway diameter during respiration and the effects of these obstructions on respiratory function in adult MPSII patients. Methods: Five adult MPSII patients (mean age 40 years) were included. Pulmonary function tests and in- and expiratory chest CT scans were obtained. Cross-sectional areas of trachea and main bronchi were measured at end-inspiration and -expiration and percentage collapse was calculated. Results: There was diffuse narrowing of the entire intra-thoracic trachea and main bronchi and severe expiratory collapse of the trachea in all patients. At 1 cm above the aortic arch the median % collapse of the trachea was 68 (range 60 to 77 %), at the level of the aortic arch 64 (range 21-93 %), for the main bronchi this was 58 (range 26-66 %) on the left and 44 (range 9-76 %) on the right side. The pulmonary function tests showed that this airway collapse results in obstructive airway disease in all patients, which was severe (forced expiratory volume <50 % of predicted) in four out of five patients. Conclusion: In adult MPS II patients, central airways diameters are strikingly reduced and upon expiration there is extensive collapse of the trachea and main bronchi. This central airways obstruction explains the severe respiratory symptoms in MPSII patients