Expanding Lipidome Coverage Using LC-MS/MS Data-Dependent Acquisition with Automated Exclusion List Generation

Untargeted omics analyses aim to comprehensively characterize biomolecules within a biological system. Changes in the presence or quantity of these biomolecules can indicate important biological perturbations, such as those caused by disease. With current technological advancements, the entire genome can now be sequenced; however, in the burgeoning fields of lipidomics, only a subset of lipids can be identified. The recent emergence of high resolution tandem mass spectrometry (HR-MS/MS), in combination with ultra-high performance liquid chromatography, has resulted in an increased coverage of the lipidome. Nevertheless, identifications from MS/MS are generally limited by the number of precursors that can be selected for fragmentation during chromatographic elution. Therefore, we developed the software IE-Omics to automate iterative exclusion (IE), where selected precursors using data-dependent topN analyses are excluded in sequential injections. In each sequential injection, unique precursors are fragmented until HR-MS/MS spectra of all ions above a user-defined intensity threshold are acquired. IE-Omics was applied to lipidomic analyses in Red Cross plasma and substantia nigra tissue. Coverage of the lipidome was drastically improved using IE. When applying IE-Omics to Red Cross plasma and substantia nigra lipid extracts in positive ion mode, 69% and 40% more molecular identifications were obtained, respectively. In addition, applying IE-Omics to a lipidomics workflow increased the coverage of trace species, including odd-chained and short-chained diacylglycerides and oxidized lipid species. By increasing the coverage of the lipidome, applying IE to a lipidomics workflow increases the probability of finding biomarkers and provides additional information for determining etiology of disease.

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Grafting onto Gelatin. II. Graft Copolymerization of Ethyl Acrylate and Methyl Methacrylate onto Gelatin in the Presence of Ce4+ as Redox Initiator

In order to initiate a comprehensive study of graft copolymerization of vinyl monomers onto soluble protein-gelatin, we have studied grafting of ethyl acrylate (EA) and methyl methacrylate (MMA) onto gelatin using eerie ammonium nitrate (CAN) and eerie ammonium sulfate (CAS) as the redox initiator in an aqueous medium. A small amount of mineral acid (HNO₃ with CAN and H2SO4 with CAS) was found to catalyze the graft copolymerization. Graft copolymerization reactions were carried out at different temperatures. Maximum grafting occurred at 65°C both with EA and MMA. Percentage grafting has been determined as function of 1) concentration of monomer (EA and MMA), 2) concentration of initiator (CAN and CAS), 3) concentration of acid (HNO3 and H2SO4), 4) time, and 5) temperature.     

Parametric study of cylindrical and spherical dust ion acoustic shock waves with two temperature electrons in dusty plasma relevant to Saturn's E ring

We have performed numerical analysis of the one-dimensional dynamics of the cylindrical/spherical dust ion acoustic shock waves in unmagnetized dusty plasma consisting of positive ions, immobile dust particles, and nonextensive distributed cold and hot electrons. A multiple-scale expansion method is used to derive Burgers Equation (BE) and modified Burgers equation (MBE) by including higher order nonlinearity. The basic characteristics of the shock waves have been analysed numerically and graphically for different physical parameters relevant to Saturn' E ring through 2D figures. The parametric dependence of dust ion acoustic shock waves on some plasma parameters nonextensive index, density, and temperature of cold and hot electrons, concentration of dust particles, thermal effects and kinematic viscosity of ions is explored. Furthermore, it is found that the nonplanar geometry effects have an important impact on the establishment of shock waves. The amplitude of the wave decreases faster as one departs away from the axis of the cylinder or centre of the sphere. Such decaying behaviour continues as time progresses. It is also found that an increasing dust concentration decreases the amplitude of the dust ion acoustic shock waves.     

Synthesis and Antimicrobial Screening of Some Novel Chromones and Pyrazoles with Incorporated Isoxazole Moieties

The title compounds 5a , 5b , 5c , 5d , 5e , 5f , 5g , 5h and 6a , 6b , 6c , 6d , 6e , 6f , 6g , 6h have been synthesized from β‐diketones and chromones, respectively, having 5‐methyl‐3‐phenylisoxazole moiety. Substituted 2‐acetylphenyl 5‐methyl‐3‐phenylisoxazole‐4‐carboxylate 3a , 3b , 3c , 3d , 3e , 3f , 3g , 3h were converted into 1‐(2‐hydroxyphenyl)‐3‐(5‐methyl‐3‐phenylisoxazole‐4‐yl)propane‐1,3‐dione 4a , 4b , 4c , 4d , 4e , 4f , 4g , 4h by Baker–Venketaraman transformation. Further, the cyclodehydration of diketone 4a , 4b , 4c , 4d , 4e , 4f , 4g , 4h with glacial acetic acid in conc. HCl at reflux gave corresponding substituted 2‐(5‐methyl‐3‐phenylisoxazole‐4‐yl)‐4H‐chromen‐4‐one 5a , 5b , 5c , 5d , 5e , 5f , 5g , 5h . The corresponding 5a , 5b , 5c , 5d , 5e , 5f , 5g , 5h react with hydrazine hydrate in presence of glacial acetic acid in ethanol at reflux to furnish 2‐(5‐5(5‐methyl‐3‐phenylisoxazole‐4‐yl)‐1H‐pyrazole‐3‐yl)phenol 6a , 6b , 6c , 6d , 6e , 6f , 6g , 6h . The structures of all newly synthesized compounds have been confirmed by IR, ¹H NMR, mass spectral data, as well as elemental analysis. The synthesized compounds have been screened for their antimicrobial activity. Some of the compounds show better antimicrobial activity as compared with the reference drugs Streptomycin, Ampicillin, Gentamycin, Cefixime, and Ketoconazole.     

A compact UHV package for microfabricated ion-trap arrays with direct electronic air-side access

We have demonstrated a new apparatus for operating microfabricated ion-trap arrays in a compact ultra-high-vacuum setup with excellent optical and electrical access. The approach uses conventional components, materials and techniques in a unique fashion. The microtrap chip is mounted on a modified ceramic leadless chip carrier, the conductors of which serve as the vacuum feedthrough. The chip carrier is indium-sealed to stainless-steel components to form vacuum seals, resulting in short electrical path lengths of ≤20 mm from the trap electrodes under vacuum to air side. The feedthrough contains conductors for the radio-frequency trap drive, as well as 42 conductors for DC electrodes. Vacuum pressures of ～1 × 10^?11 mbar are achieved, and ions have been confined and laser cooled in a microtrap chip. The apparatus enables accurate measurements of radio-frequency voltage amplitudes on the trap electrodes, yielding an excellent agreement between measured and modelled trap efficiencies. This feature is of significant use in establishing initial operation of new devices. The principle of the connectivity scheme presented here is applicable to larger ceramic chip carriers containing many more conductors.     

The school class allocation problem—maximising friendship requests subject to diversity requirements

Friendship groups are an important element in both the social and academic well-being of school students, particularly in their younger years. Each year, school management has to assign students to a particular class in their new grade in junior school, and in doing so make and break friendship preferences as other criteria need to be satisfied in order to ensure diversity. This ongoing administrative task is time consuming and does not always result in the most equitable allocation. Coupled with the lack of transparency of the process, this can lead to teacher and parent frustration. This paper formulates and solves a mathematical programming model for this problem and shows that better solutions can likely be found in a fraction of the time using software that is freely available.     

Synthesis, growth and characterization of a new derivative 4-ethoxy-N-methyl-4-stilbazolium besylate monohydrate single crystal

A new organic material 4-ethoxy-N-methyl-4-stilbazolium besylate monohydrate, a derivative in the stilbazolium family, known for efficient nonlinear optical materials, has been synthesized for the first time. Employing the slow evaporation technique, optically transparent good quality single crystals of size 15 mm×10 mm×5 mm were grown from methanol. The cell dimensions obtained by single crystal X-ray diffraction studies reveal that the crystal belongs to the monoclinic system. Functional groups of the grown crystal were identified from FTIR and NMR spectral analysis. UV−vis−NIR studies show that the crystal is transparent in the wavelength range 460-1100 nm. The thermal stability of the compound was determined by thermal analyses of the specimen.     

Investigation of data format conversions based on MZI-SOA

Employing a Mach-Zehnder Interferometer (MZI), this paper describes simulation demonstration of an all-optical scheme for data format conversion between non-return-to-zero (NRZ) and return-to-zero (RZ). Data format conversion between NRZ and RZ at 120 Gb/s has been simulated for the first time using an MZI. In addition, we have proposed for the first time data format conversion from NRZ to RZ by using a single SOA in an MZI.