Big Data, Big Knowledge: Big Data for Personalized Healthcare.

The idea that the purely phenomenological knowledge that we can extract by analyzing large amounts of data can be useful in healthcare seems to contradict the desire of VPH researchers to build detailed mechanistic models for individual patients. But in practice no model is ever entirely phenomenological or entirely mechanistic. We propose in this position paper that big data analytics can be successfully combined with VPH technologies to produce robust and effective in silico medicine solutions. In order to do this, big data technologies must be further developed to cope with some specific requirements that emerge from this application. Such requirements are: working with sensitive data; analytics of complex and heterogeneous data spaces, including nontextual information; distributed data management under security and performance constraints; specialized analytics to integrate bioinformatics and systems biology information with clinical observations at tissue, organ and organisms scales; and specialized analytics to define the "physiological envelope" during the daily life of each patient. These domain-specific requirements suggest a need for targeted funding, in which big data technologies for in silico medicine becomes the research priority

Plasmodium yoelii infection of BALB/c mice results in expansion rather than induction of CD4+ Foxp3+ regulatory T cells

Recently, we demonstrated elevated numbers of CD4(+) Foxp3(+) regulatory T (Treg) cells in Plasmodium yoelii‐infected mice contributing to the regulation of anti‐malarial immune response. However, it remains unclear whether this increase in Treg cells is due to thymus‐derived Treg cell expansion or induction of Treg cells in the periphery. Here, we show that the frequency of Foxp3(+) Treg cells expressing neuropilin‐1 (Nrp‐1) decreased at early time‐points during P. yoelii infection, whereas percentages of Helios(+) Foxp3(+) Treg cells remained unchanged. Both Foxp3(+) Nrp‐1(+) and Foxp3(+) Nrp‐1(−) Treg cells from P. yoelii‐infected mice exhibited a similar T‐cell receptor Vβ chain usage and methylation pattern in the Treg‐specific demethylation region within the foxp3 locus. Strikingly, we did not observe induction of Foxp3 expression in Foxp3(−) T cells adoptively transferred to P. yoelii‐infected mice. Hence, our results suggest that P. yoelii infection triggered expansion of naturally occurring Treg cells rather than de novo induction of Foxp3(+) Treg cells

A method to measure the mirror reflectivity of a prime focus telescope

We have developed a method to measure the mirror reflectivity of telescopes. While it is relatively easy to measure the local reflectivity of the mirror material, it is not so straightforward to measure the amount of light that it focuses in a spot of a given diameter. Our method is based on the use of a CCD camera that is fixed on the mirror dish structure and observes simultaneously part of the telescope's focal plane and the sky region around its optical axis. A white diffuse reflecting disk of known reflectivity is fixed in the telescopes focal plane. During a typical reflectivity measurement the telescope is directed to a selected star. The CCD camera can see two images of the selected star, one directly and another one as a spot focused by the mirror on the white disk. The ratio of the reflected starlight integrated by the CCD from the white disk to the directly measured one provides a precise result of the product of (mirror area x mirror reflectivity)

The Epitheliome: agent-based modelling of the social behaviour of cells

We have developed a new computational modelling paradigm for predicting the emergent behaviour resulting from the interaction of cells in epithelial tissue. As proof-of-concept, an agent-based model, in which there is a one-to-one correspondence between biological cells and software agents, has been coupled to a simple physical model. Behaviour of the computational model is compared with the growth characteristics of epithelial cells in monolayer culture, using growth media with low and physiological calcium concentrations. Results show a qualitative fit between the growth characteristics produced by the simulation and the in vitro cell models

Tomographic imaging and scanning thermal microscopy: thermal impedance tomography

The application of tomographic imaging techniques developed for medical applications to the data provided by the scanning thermal microscope will give access to true three-dimensional information on the thermal properties of materials on a mm length scale. In principle, the technique involves calculating and inverting a sensitivity matrix for a uniform isotropic material, collecting ordered data at several modulation frequencies, and multiplying the inverse of the matrix with the data vector. In practice, inversion of the matrix in impractical, and a novel iterative technique is used. Examples from both simulated and real data are given

Development of HPD Clusters for MAGIC-II

MAGIC-II is the second imaging atmospheric Cherenkov telescope of the MAGIC observatory, which has recently been inaugurated on Canary island of La Palma. We are currently developing a new camera based on clusters of hybrid photon detectors (HPD) for the upgrade of MAGIC-II. The photon detectors feature a GaAsP photocathode and an avalanche diode as electron bombarded anodes with internal gain, and were supplied by Hamamatsu Photonics K.K. (R9792U-40). The HPD camera with high quantum efficiency will increase the MAGIC-II sensitivity and lower the energy threshold. The basic performance of the HPDs has been measured and a prototype of an HPD cluster has been developed to be mounted on MAGIC-II. Here we report on the status of the HPD cluster and the project of eventually using HPD clusters in the central area of the MAGIC-II camera.Comment: Contribution to the 31st ICRC, Lodz, Poland, July 200

Expansion of the ligand knowledge base for chelating P,P-donor ligands (LKB-PP)

[Image: see text] We have expanded the ligand knowledge base for bidentate P,P- and P,N-donor ligands (LKB-PP, Organometallics2008, 27, 1372–1383) by 208 ligands and introduced an additional steric descriptor (nHe(8)). This expanded knowledge base now captures information on 334 bidentate ligands and has been processed with principal component analysis (PCA) of the descriptors to produce a detailed map of bidentate ligand space, which better captures ligand variation and has been used for the analysis of ligand properties

Autonomous multi-dimensional slicing for large-scale distributed systems

Slicing is a distributed systems primitive that allows to autonomously partition a large set of nodes based on node-local attributes. Slicing is decisive for automatically provisioning system resources for different services, based on their requirements or importance. One of the main limitations of existing slicing protocols is that only single dimension attributes are considered for partitioning. In practical settings, it is often necessary to consider best compromises for an ensemble of metrics. In this paper we propose an extension of the slicing primitive that allows multi-attribute distributed systems slicing. Our protocol employs a gossip-based approach that does not require centralized knowledge and allows self-organization. It leverages the notion of domination between nodes, forming a partial order between multi-dimensional points, in a similar way to SkyLine queries for databases. We evaluate and demonstrate the interest of our approach using large-scale simulations.This work received support from the Portuguese Foundation for Science and Technology under grant SFRH/BD/71476/2010