Simulation model for shapiro time delay and light deflection experiments

The time delay experiment proposed by I.I. Shapiro in 1964 and conducted in the seventies was the most precise experiment of general relativity until that time. Further experimentation has improved the accuracy level of both the time delay and the light deflection experiments. A simulation model is proposed that involves only a simple mass and time transformation factor involving velocity of light. The light deflection and the time delay experiments are numerically simulated using this model that does not use the general relativistic equations. The computed values presented in this paper compare well with recent levels of accuracy of their respective experimental results.     

Schur complement preconditioners for anisotropic problems

We present two new variants of Schur complement domain decompositionpreconditioners suitable for 2D anisotropic problems. Thesevariants are based on adaptations of the probing idea, describedby Chan et al (1992 Fifth Int. Symp. on Domain DecompositionMethods for Partial Differential Equations, Philadelphia: SIAM,pp 236-249), used in conjunction with a coarse grid approximationas introduced by Bramble et al (1986 Math. Comput. 47, 103-134).The new methods are specifically designed for situations wherethe coupling between neighbouring interfaces is stronger thanthe coupling within an interface. Taking into account this strongcoupling, one variant uses a multicolour probing technique toavoid distortion in the probe approximations that appear whenusing the method proposed by Chan et al. The second techniqueuses additional probe matrices to approximate not only the couplingwithin the interfaces but also the coupling between interfacepoints across the subdomains. This latter procedure looks somewhatlike an alternating line relaxation method for anisotropic problems,see Brandt (1977 Math. Comput.. 31, 333-390). To assess therelevance of the new preconditioners, we compare their numericalbehaviour with well known robust preconditioners such as thebalanced Neumann-Neumann method proposed by Mandel (1993 Commun.Numer. Methods Eng.. 9, 233-241).     

评《马氏决策过程》

（《马氏决策过程》,侯振挺、郭先平著,长沙,湖南科技出版社,1997,中文版,386页,定价：28元）马尔可夫决策过程是概率论的运筹学的理论研究和实际应用中极其重要的领域之一．随着中国和国际上对马尔可夫决策过程（MarkovDecisionProcesses,简记为MDP）研究的新进展,许     

Simulation model for anomalous precession of the perihelion of mercury's orbit

The ‘anomalous perihelion precession’ of Mercury, announced by Le Verrier in 1859, was a highly controversial topic for more than half a century and invoked many alternative theories until 1916, when Einstein presented his theory of general relativity as an alternative theory of gravitation and showed perihelion precession to be one of its potential manifestations. As perihelion precession was a directly derived result of the full General Theory and not just the Equivalence Principle, Einstein viewed it as the most critical test of his theory. This paper presents the computed value of the anomalous perihelion precession of Mercury's orbit using a new relativistic simulation model that employs a simple transformation factor for mass and time, proposed in an earlier paper. This computed value compares well with the prediction of general relativity and is, also, in complete agreement with the observed value within its range of uncertainty. No general relativistic equations have been used for computing the results presented in this paper.     

Web server to identify similarity of amino acid motifs to compounds (SAAMCO)

Protein-protein interactions are fundamental in mediating biological processes including metabolism, cell growth, and signaling. To be able to selectively inhibit or induce protein activity or complex formation is a key feature in controlling disease. For those situations in which protein-protein interactions derive substantial affinity from short linear peptide sequences, or motifs, we can develop search algorithms for peptidomimetic compounds that resemble the short peptide's structure but are not compromised by poor pharmacological properties. SAAMCO is a Web service ( http://bioware.ucd.ie/ approximately saamco) that facilitates the screening of motifs with known structures against bioactive compound databases. It is built on an algorithm that defines compound similarity based on the presence of appropriate amino acid side chain fragments and a favorable Root Mean Squared Deviation (RMSD) between compound and motif structure. The methodology is efficient as the available compound databases are preprocessed and fast regular expression searches filter potential matches before time-intensive 3D superposition is performed. The required input information is minimal, and the compound databases have been selected to maximize the availability of information on biological activity. "Hits" are accompanied with a visualization window and links to source database entries. Motif matching can be defined on partial or full similarity which will increase or reduce respectively the number of potential mimetic compounds. The Web server provides the functionality for rapid screening of known or putative interaction motifs against prepared compound libraries using a novel search algorithm. The tabulated results can be analyzed by linking to appropriate databases and by visualization.     

Simultaneous quantitation of IC87114, roflumilast and its active metabolite roflumilast N‐oxide in plasma by LC‐MS/MS: application for a pharmacokinetic study

A sensitive and reliable high‐performance liquid chromatography–mass spectrometry (LC–MS/MS) was developed and validated for simultaneous quantification IC87114, roflumilast (RFM), and its active metabolite roflumilast N‐oxide (RFN) using tolbutamide as an internal standard. The analytes were extracted by using liquid–liquid extraction and separated on a reverse phase C₁₈ column (50 mm × 3 mm i.d., 4.6 µ) using methanol: 2 mM ammonium acetate buffer, pH 4.0 as mobile phase at a flow rate 1 mL/min in gradient mode. Selective reaction monitoring was performed using the transitions m/z 398.3 > 145.9, 403.1 >186.9, 419.1 > 187.0 and 271.1 > 155.0 to quantify quantification IC87114, RFM, RFN and tolbutamide, respectively. The method was validated over the concentration range of 0.1–60 ng.mL^?1 for RFM and RFN and 6 to 2980 ng.mL^?1 for IC87114. Intra‐ and inter‐day accuracy and precision of validated method were within the acceptable limits of <15% at all concentrations. Coefficients of correlation (r²) for the calibration curves were >0.99 for all analytes. The quantitation method was successfully applied for simultaneous estimation of IC87114, RFM and RFN in a pharmacokinetic drug–drug interaction study in Wistar rats. Copyright © 2012 John Wiley & Sons, Ltd.     

Working group report: Heavy-ion physics and quark-gluon plasma

This is the report of Heavy Ion Physics and Quark-Gluon Plasma at WHEPP-09 which was part of Working Group-4. Discussion and work on some aspects of quark-gluon plasma believed to have created in heavy-ion collisions and in early Universe are reported.     

Discussion on a possible neutrino detector located in India

We have identified some important and worthwhile physics opportunities with a possible neutrino detector located in India. Particular emphasis is placed on the geographical advantage with a stress on the complimentary aspects with respect to other neutrino detectors already in operation.     

Identification of potential small molecule peptidomimetics similar to motifs in proteins

Protein-protein interactions are central to most biological processes and represent a large and important class of targets for human therapeutics. Small molecules containing peptide substituents may mimic regions of interacting proteins and inhibit their interactions. We set out to develop efficient methods to screen for similarities between known peptide structures within proteins and small molecules. We developed a method to rank peptide-compound similarities, that is restricted to small linear motifs in proteins, and to compounds containing amino acid substituents. Application to a search of the PubChem database (5.4 million compounds) using all short motifs on accessible surface areas in a nonredundant set of 11 488 peptides from the protein structure database PDB demonstrated the feasibility of the method for high throughput comparisons and the availability of compounds with comparable substituents: over 6 million compound-peptide pairs shared at least three amino acid substituents, approximately 100 000 of which had an rmsd score of less than 1 A. A Z-score function was developed that compares matches of a compound to different instances of the peptide motif in PDB, providing an appropriate scoring function for comparison among peptide-compound similarities involving different numbers of atoms (while simultaneously enriching for similarities that are likely to be more specific for the protein of interest). We applied the method to searches of known short protein motifs against the National Cancer Institute Developmental Therapeutic Program compound database, identifying a known true positive.