Diagnostics on LALR(k) conflicts based on a method for LR(k) Testing

A user of an LALR(k) parser generator system may have difficulties in understanding how a given LALR(k) conflict is generated. This is especially difficult if the conflict does not correspond to an LR(k) conflict.A practical method for giving informative diagnostics on LALR(k) conflicts is presented. The diagnostics distinguish between those LALR(k) conflicts that correspond to LR(k) conflicts and those that do not. As a side effect the user is thus informed whether or not his grammar is in fact LR(k) despite not being LALR(k).The method is based on an algorithm for testing LR(k)-ness using the LR(0) machine supplied with LALR(k) lookahead sets. This algorithm is presented and its correctness is proved.     

Self-Promoted N-Glycosylation: Extended Substrate Scope and Substituent Effects

A self-promoted glycosylation method for the stereoselective formation of β-glucosides from a substrate library of glycosyl trichloroacetimidate glycosyl donors and glycosyl acceptors is presented. The simple two-component reaction takes place at elevated temperatures, without the addition of any additives or catalysts. After a simple basic workup, N-glycosides were obtained in good yields and with high β-selectivity and hence this method allows for easy access to glycoconjugates under very mild conditions. The influences of neighboring group participation and substituents, in both the glycosyl donor and acceptor, were studied. Kinetic data were obtained from in situ IR and these were used for a Hammett study. A connection between the pK_a of the acceptor and reaction rate was found and new mechanistic insight in self-promoted glycosylations gained.     

Nanoconfinement-enhanced conformational response of single DNA molecules to changes in ionic environment

We show that the ionic environment plays a critical role in determining the configurational properties of DNA confined in silica nanochannels. The extension of DNA in the nanochannels increases as the ionic strength is reduced, almost tripling over two decades in ionic strength for channels around 100 x 100 nm in dimension. Surprisingly, we find that the variation of the persistence length alone with ionic strength is not enough to explain our results. The effect is due mainly to increasing self-avoidance created by the reduced screening of electrostatic interactions at low ionic strength. To quantify the increase in self-avoidance, we introduce a new parameter into the de Gennes theory: an effective DNA width that gives the increase in the excluded volume due to electrostatic repulsion.     

The divide-expand-consolidate family of coupled cluster methods: numerical illustrations using second order Møller-Plesset perturbation theory

Previously, we have introduced the linear scaling coupled cluster (CC) divide-expand-consolidate (DEC) method, using an occupied space partitioning of the standard correlation energy. In this article, we show that the correlation energy may alternatively be expressed using a virtual space partitioning, and that the Lagrangian correlation energy may be partitioned using elements from both the occupied and virtual partitioning schemes. The partitionings of the correlation energy leads to atomic site and pair interaction energies which are term-wise invariant with respect to an orthogonal transformation among the occupied or the virtual orbitals. Evaluating the atomic site and pair interaction energies using local orbitals leads to a linear scaling algorithm and a distinction between Coulomb hole and dispersion energy contributions to the correlation energy. Further, a detailed error analysis is performed illustrating the error control imposed on all components of the energy by the chosen energy threshold. This error control is ultimately used to show how to reduce the computational cost for evaluating dispersion energy contributions in DEC.     

Auditory brainstem responses to chirps delivered by different insert earphones

The frequency response and sensitivity of the ER-3A and ER-2 insert earphones are measured in the occluded-ear simulator using three ear canal extensions. Compared to the other two extensions, the DB 0370 (Bru?el & Kj?r), which is recommended by the international standards, introduces a significant resonance peak around 4500 Hz. The ER-3A has an amplitude response like a band-pass filter (1400 Hz, 6 dB/octave -4000 Hz, -36 dB/octave), and a group delay with "ripples" of up to ±0.5 ms, while the ER-2 has an amplitude response, and a group delay which are flat and smooth up to above 10000 Hz. Both earphones are used to record auditory brainstem responses, ABRs, from 22 normal-hearing ears in response to two chirps and a click at levels from 20 to 80 dB nHL. While the click-ABRs are slightly larger for ER-2 than for ER-3A, the chirp-ABRs are much larger for ER-2 than for ER-3A at levels below 60 dB nHL. With a simulated amplitude response of the ER-3A and the smooth group delay of the ER-2 it is shown that the increased chirp-ABR amplitude with the ER-2 is caused by its broader amplitude response and not by its smoother group delay.     

Determining Yields in High Solids Enzymatic Hydrolysis of Biomass

As technologies for utilizing biomass for fuel and chemical production continue to improve, enzymatic hydrolysis can be run at still higher solids concentrations. For hydrolyses that initially contain little or no free water (10-40% total solids, w/w), the saccharification of insoluble polymers into soluble sugars involves changes of volume, density, and proportion of insoluble solids. This poses a new challenge when determining the degree of hydrolysis (conversion yield). Experiments have shown that calculating the yield from the resulting sugar concentration in the supernatant of the slurry and using the assumed initial volume leads to significant overestimations of the yield. By measuring the proportion of insoluble solids in the slurry as well as the sugar concentration and specific gravity of the aqueous phase, it is possible to precisely calculate the degree of conversion. The discrepancies between the different ways of calculating yields are demonstrated along with a nonlaborious method for approximating yields in high solids hydrolysis.     

Photoreactivity of biologically active compounds. XIX: Excited states and free radicals from the antimalarial drug primaquine

The formation and reactivity of excited states and free radicals from primaquine, a drug used in the treatment of malaria, was studied in order to evaluate the primary photochemical reaction mechanisms. The excited primaquine triplet was not detected, but is likely to be formed with a short lifetime (<50 ns) and with a triplet energy <250 kJ/mol as the drug is an efficient quencher of the fenbufen triplet and the biphenyl triplet, and forms ${}^1{\text{O}}_2$ by laser flash photolysis $({}^{\text{PQ}}{\Phi }_{\mathrm{\Delta }}=0.025)$. Primaquine (PQ) exists as the monocation $({\text{PQH}}^{+})$ in aqueous solution at physiological pH. ${\text{PQH}}^{+}$ photoionises by a biphotonic process and also forms the monoprotonated cation radical $({\text{PQH}}^{2+\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}})$ by one electron oxidation by ${\text{HO}}^{\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}$ (k_q = 6.6 × 10⁹ M^?1 s^?1) and ${\text{Br}}_2^{\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}-}$ (k_q = 4.7 × 10⁹ M^?1 s^?1) at physiological pH, detected as a long-lived transient decaying essentially by a second order process (k₂ = 7.4 × 10⁸ M^?1 s^?1). ${\text{PQH}}^{2+\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}$ is scavenged by O₂, although at a limited rate (k_q = 1.0 × 10⁶ M^?1 s^?1). The reduction potential (E°) of ${\text{PQH}}^{2+\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}/{\text{PQH}}^{+}$ is < +1015 mV, as measured versus tryptophan (${\text{TRP}}^{\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}/\text{TRPH}$). Primaquine also forms ${\text{PQH}}^{2+\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}$ at pH 2.4, by one electron oxidation by ${\text{Br}}_2^{\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}-}$ and proton loss (k_q = 2.7 × 10⁹ M^?1 s^?1). The non-protonated cation radical (${\text{PQ}}^{+\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}$) is formed during one electron oxidation with ${\text{Br}}_2^{\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}-}$ at alkaline conditions (k_q = 4.2 × 10⁹ M^?1 s^?1 at pH 10.8). The estimated pK_a-value of ${\text{PQH}}^{2+\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}/{\text{PQ}}^{+\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}$ is pK_a ～ 7–8. Primaquine is not a scavenger of ${\text{O}}_2^{\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}-}$ at physiological pH. Thus self-sensitization by ${\text{O}}_2^{\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}-}$ is eliminated as a degradation pathway in the photochemical reactions. Impurities in the raw material and photochemical degradation products initiate photosensitized degradation of primaquine in deuterium oxide, prevented by addition of the ${}^1{\text{O}}_2$ quencher sodium azide. Photosensitized degradation by formation of ${}^1{\text{O}}_2$ is thus important for the initial photochemical decomposition of primaquine, which also proceeds by free radical reactions. Formation of ${\text{PQH}}^{2+\text{<mglyph src="https://sdfestaticassets-us-east-1.sciencedirectassets.com/shared-assets/16/entities/rad"></mglyph>}}$ is expected to play an essential part in the photochemical degradation process in a neutral, aqueous medium.     

Computer-simulated amorphous structures (I). Quenching of a Lennard-Jones model system

The molecular dynamics technique was used to study the thermodynamic and structural properties of non-crystalline solid structures. The structures were obtained by quenching a model liquid consisting of 336 atoms arranged in a computational cell with periodic boundaries and with the atomic intereaction represented by the Lennard-Jones pair potential. The characteristics of the resulting non-crystalline atomic configurations were found to depend weakly on the applied quenching rate.