An optimization model for metabolic pathways

This article is available open access through the publisher’s website through the link below. Copyright @ The Author 2009.Motivation: Different mathematical methods have emerged in the post-genomic era to determine metabolic pathways. These methods can be divided into stoichiometric methods and path finding methods. In this paper we detail a novel optimization model, based upon integer linear programming, to determine metabolic pathways. Our model links reaction stoichiometry with path finding in a single approach. We test the ability of our model to determine 40 annotated Escherichia coli metabolic pathways. We show that our model is able to determine 36 of these 40 pathways in a computationally effective manner. Contact: [email protected] Supplementary information: Supplementary data are available at Bioinformatics online (http://bioinformatics.oxfordjournals.org/cgi/content/full/btp441/DC1)

Progress in Measurements of the Gravitational Bending of Radio Waves Using the VLBA

We have used the Very Long Baseline Array (VLBA) at 43, 23 and 15 GHz to measure the solar gravitational deflection of radio waves among four radio sources during an 18-day period in October 2005. Using phase-referenced radio interferometry to fit the measured phase delay to the propagation equation of the parameterized post-Newtonian (PPN) formalism, we have determined the deflection parameter gamma = 0.9998 +/- 0.0003$ (68% confidence level), in agreement with General Relativity. The results come mainly from 43 GHz observations where the refraction effects of the solar corona were negligible beyond 3 degrees from the sun. The purpose of this experiment is three-fold: to improve on the previous results in the gravitational bending experiments near the solar limb; to examine and evaluate the accuracy limits of terrestrial VLBI techniques; and to determine the prospects and outcomes of future experiments. Our conclusion is that a series of improved designed experiments with the VLBA could increase the presented accuracy by at least a factor of 4.Comment: 22 pages, 3 figure

The catalogue of positions of optically bright extragalactic radio sources OBRS-1

It is expected that the European Space Agency mission Gaia will make possible to determine coordinates in the optical domain of more than 500000 quasars. In 2006, a radio astrometry project was launched with the overall goal to make comparison of coordinate systems derived from future space-born astrometry instruments with the coordinate system constructed from analysis of the global very long baseline interferometry (VLBI) more robust. Investigation of their rotation, zonal errors, and the non-alignment of the radio and optical positions caused by both radio and optical structures are important for validation of both techniques. In order to support these studies, the densification of the list of compact extragalactic objects that are bright in both radio and optical ranges is desirable. A set of 105 objects from the list of 398 compact extragalactic radio sources with declination > -10 deg was observed with the VLBA+EVN with the primary goal of producing their images with milliarcsecond resolution. These sources are brighter than 18 magnitude at V band, and they were previously detected at the European VLBI network. In this paper coordinates of observed sources have been derived with milliarcsecond accuracies from analysis of these VLBI observations following the method of absolute astrometry. The catalogue of positions of 105 target sources is presented. The accuracies of sources coordinates are in the range of 0.3 to 7 mas, with the median 1.1 mas.Comment: 6 pages, 1 figure, accepted by the Astronomical Journal, ID: AJ-10606. Electronic table 2 with the catalogue is available in the source code of this submissio

A Method for Providing High-volume Interprofessional Simulation Encounters in Physical and Occupational Therapy Education Programs

With an increasing emphasis on interprofessional education within the allied health professions, simulation has potential for being a useful teaching modality for providing collaborative learning experiences for occupational and physical therapist students. However, there are many challenges associated with conducting simulations with large numbers of students. We describe the design, planning, cost, and support staff time required for conducting an interprofessional simulation of the intensive care setting, including a methodology for maximizing resources and student opportunities for participation for 64 physical and occupational therapy students over a 4-hour time period. Qualitative analyses of student experiences are also presented

Age and mass studies for young star clusters in M31 from SEDs-fit

In this paper, we present photometry for young star clusters in M31, which are selected from Caldwell et al. These star clusters have been observed as part of the Beijing--Arizona--Taiwan--Connecticut (BATC) Multicolor Sky Survey from 1995 February to 2008 March. The BATC images including these star clusters are taken with 15 intermediate-band filters covering 3000--10000 \AA. Combined with photometry in the {\sl GALEX} far- and near-ultraviolet, broad-band $UBVRI$, SDSS $ugriz$, and infrared $JHK_{\rm s}$ of Two Micron All Sky Survey, we obtain their accurate spectral energy distributions (SEDs) from 1538-20000 \AA. We derive these star clusters' ages and masses by comparing their SEDs with stellar population synthesis models. Our results are in good agreement with previous determinations. The mean value of age and mass of young clusters ($<2$ Gyr) is about 385 Myr and $2\times 10^4 {M_\odot}$, respectively. There are two distinct peaks in the age distribution, a highest peak at age $\sim$ 60 Myr and a secondary peak around 250 Myr, while the mass distribution shows a single peak around $10^4 {M_\odot}$. A few young star clusters have two-body relaxation times greater than their ages, indicating that those clusters have not been well dynamically relaxed and therefore have not established the thermal equilibrium. There are several regions showing aggregations of young star clusters around the 10 kpc ring and the outer ring, indicating that the distribution of the young star clusters is well correlated with M31's star-forming regions. The young massive star clusters (age $\leq 100$ Myr and mass $\geq 10^4 {M_\odot}$) show apparent concentration around the ring splitting region, suggesting a recent passage of a satellite galaxy (M32) through M31 disk.Comment: Accepted for Publication in AJ, 15 pages, 14 figures and 4 table

Precise absolute astrometry from the VLBA imaging and polarimetry survey at 5 GHz

We present in this paper accurate positions of 857 sources derived from the astrometric analysis of 16 eleven-hour experiments from the Very Long Baseline Array imaging and polarimetry survey at 5 GHz (VIPS). Among observed sources, positions of 430 objects were not determined before at a milliarcsecond level of accuracy. For 95% of the sources the uncertainty of their positions range from 0.3 to 0.9 mas, with the median value of 0.5 mas. This estimate of accuracy is substantiated by the comparison of positions of 386 sources that were previously observed in astrometric programs simultaneously at 2.3/8.6 GHz. Surprisingly, the ionosphere contribution to group delay was adequately modeled with the use of the total electron contents maps derived from GPS observations and only marginally affected estimates of source coordinates.Comment: Accepted for publication by the Astronomical Journal. 7 pages, 2 tables, 4 figures. Submission contains an ascii file with the catalogue. You can get the catalogue by downloading the source of this paper and extracting file table2.tx

Age and structure parameters of a remote M31 globular cluster B514 based on HST, 2MASS, GALEX and BATC observations

B514 is a remote M31 globular cluster which locating at a projected distance of R_p~55 kpc. Deep observations with the Advanced Camera for Surveys (ACS) on the Hubble Space Telescope (HST) are used to provide the accurate integrated light and star counts of B514. By coupling analysis of the distribution of the integrated light with star counts, we are able to reliably follow the profile of the cluster out to ~40". Based on the combined profile, we study in detail its surface brightness distribution in F606W and F814W filters, and determine its structural parameters by fitting a single-mass isotropic King model. The results showed that, the surface brightness distribution departs from the best-fit King model for r>10". B514 is quite flatted in the inner region, and has a larger half-light radius than majority of normal globular clusters of the same luminosity. It is interesting that, in the M_V versus log R_h plane, B514 lies nearly on the threshold for ordinary globular clusters as defined by Mackey & van den Bergh. In addition, B514 was observed as part of the Beijing-Arizona-Taiwan-Connecticut (BATC) Multicolor Sky Survey, using 13 intermediate-band filters covering a wavelength range of 3000--8500 \AA. Based on aperture photometry, we obtain its SEDs as defined by the 13 BATC filters. We determine the cluster's age and mass by comparing its SEDs (from 2267 to 20000{\AA}, comprising photometric data in the near-ultraviolet of GALEX, 5 SDSS bands, 13 BATC intermediate-band, and 2MASS near-infrared JHKs} filters) with theoretical stellar population synthesis models, resulting in age of $11.5\pm3.5$ Gyr. This age confirms the previous suggestion that B514 is an old GC in M31. B514 has a mass of $0.96-1.08 \times 10^6 \rm M_sun$, and is a medium-mass globular cluster in M31.Comment: Accepted for Publication in AJ, 18 pages, 6 figures and 9 table

A SAURON study of dwarf elliptical galaxies in the Virgo Cluster: kinematics and stellar populations

Dwarf elliptical galaxies (dEs) are the most common galaxy type in nearby galaxy clusters; even so, many of their basic properties have yet to be quantified. Here we present the results of our study of 4 Virgo dwarf ellipticals obtained with the SAURON integral field unit on the William Herschel Telescope (La Palma, Spain). While traditional long-slit observations are likely to miss more complicated kinematic features, with SAURON we are able to study both kinematics and stellar populations in two dimensions, obtaining a much more detailed view of the mass distribution and star formation histories. What is visible even in such a small sample is that dEs are not a uniform group, not only morphologically, but also as far as their kinematic and stellar population properties are concerned. We find the presence of substructures, varying degrees of flattening and of rotation, as well as differences in age and metallicity gradients. We confirm that two of our galaxies are significantly flattened, yet non-rotating objects, which makes them likely triaxial systems. The comparison between the dwarf and the giant groups shows that dEs could be a low-mass extension of Es in the sense that they do seem to follow the same trends with mass. However, dEs as progenitors of Es seem less likely as we have seen that dEs have much lower abundance ratios.Comment: 8 pages, 6 figures; to appear in the proceedings of the JENAM 2010 Symposium on Dwarf Galaxies (Lisbon, September 9-10, 2010); minor edits and references adde

Characterizing Operations Preserving Separability Measures via Linear Preserver Problems

We use classical results from the theory of linear preserver problems to characterize operators that send the set of pure states with Schmidt rank no greater than k back into itself, extending known results characterizing operators that send separable pure states to separable pure states. We also provide a new proof of an analogous statement in the multipartite setting. We use these results to develop a bipartite version of a classical result about the structure of maps that preserve rank-1 operators and then characterize the isometries for two families of norms that have recently been studied in quantum information theory. We see in particular that for k at least 2 the operator norms induced by states with Schmidt rank k are invariant only under local unitaries, the swap operator and the transpose map. However, in the k = 1 case there is an additional isometry: the partial transpose map.Comment: 16 pages, typos corrected, references added, proof of Theorem 4.3 simplified and clarifie

Sub one per cent mass fractions of young stars in red massive galaxies

Early-type galaxies are considered to be the end products of massive galaxy formation1. Optical spectroscopic studies reveal that massive early-type galaxies formed the bulk of their stars over short timescales (≲≲1 Gyr) and at high redshift (z ≳≳ 2), followed by passive evolution to the present2. However, their optical spectra are unable to constrain small episodes of recent star formation, since they are dominated by old stars. Fortunately, this problem can be tackled in the ultraviolet range. While recent studies that make use of ultraviolet absorption lines have suggested the presence of young stars in a few early-type galaxies3, the age and mass fractions of young stars and their dependence on galaxy mass are unknown. Here we report a detailed study of these young stellar populations, from high-quality stacked spectra of 28,663 galaxies from the BOSS survey4, analysing optical and ultraviolet absorption lines simultaneously. We find that residual star formation is ubiquitous in massive early-type galaxies, measuring average mass fractions of 0.5% in young stars in the last 2 Gyr of their evolution. This fraction shows a decreasing trend with galaxy stellar mass, consistent with a downsizing scenario5. We also find that synthetic galaxies from state-of-the-art cosmological numerical simulations6 substantially overproduce both intermediate and young stellar populations. Therefore, our results pose stringent constraints on numerical simulations of galaxy formation6,7