Practical algorithms for transposition-invariant string-matching

We consider the problems of (1) longest common subsequence (LCS) of two given strings in the case where the first may be shifted by some constant (that is, transposed) to match the second, and (2) transposition-invariant text searching using indel distance. These problems have applications in music comparison and retrieval. We introduce two novel techniques to solve these problems efficiently. The first is based on the branch and bound method, the second on bit-parallelism. Our branch and bound algorithm computes the longest common transposition-invariant subsequence (LCTS) in time O((m²+loglogσ)logσ) in the best case and O((m²+logσ)σ) in the worst case, where m and σ, respectively, are the length of the strings and the size of the alphabet. On the other hand, we show that the same problem can be solved by using bit-parallelism and thus obtain a speedup of O(w/logm) over the classical algorithms, where the computer word has w bits. The advantage of this latter algorithm over the present bit-parallel ones is that it allows the use of more complex distances, including general integer weights. Since our branch and bound method is very flexible, it can be further improved by combining it with other efficient algorithms such as our novel bit-parallel algorithm. We experiment on several combination possibilities and discuss which are the best settings for each of those combinations. Our algorithms are easily extended to other musically relevant cases, such as δ-matching and polyphony (where there are several parallel texts to be considered). We also show how our bit-parallel algorithm is adapted to text searching and illustrate its effectiveness in complex cases where the only known competing method is the use of brute force.     

Acousto-optic mode coupling of partially coherent light in two-mode optical fibers

An acoustic pulse propagating on a two-mode fiber can act as a beam splitter in a scanning interferometer. When this device is employed in white-light interferometry, the effects of distributed coupling and dispersive interferometer arms need to be considered. A theory suitable for treating acousto-optic interaction of partially coherent light in a moving interaction region was developed. It was found that differential optical dispersion should be negligible and the acoustic pulse length short. Also the coherence time should be short but long compared to the intermodal group delay difference over a pulse length. Experiments with long acoustic pulses were performed, and fairly good agreement with theory was obtained.     

Reconstruction of an acoustically sound-soft obstacle from one incident field and the far-field pattern

The problem considered is that of determining the shape of aplane acoustically sound-soft obstacle from the knowledge ofthe far-field pattern for one time-harmonic incident field.An iterative procedure is proposed based on two boundary integralsrepresenting the incident field and the far-field pattern, respectively.Numerical examples are included which show that the proceduregives accurate numerical approximations in relatively few iterations.     

Determination of myo-inositol in a flow-injection system with co-immobilized enzyme reactors and amperometric detection

A selective and sensitive flow-injection system for the determination of myo-inositol (hexahydroxycyclohexane) is described. Inositol dehydrogenase, IDH, lactate dehydrogenase, LDH, and lactate oxidase, LOD, are co-immobilized on porous glass and used in a packed-bed enzyme reactor. myo-Inositol reacts to produce an equivalent amount of hydrogen peroxide, which oxidizes hexacyanoferrate(II) to hexacyanoferrate(III) in a second reactor containing immobilized peroxidase. The hexacyanoferrate(III) is then detected amperometrically at 0 mV vs. SCE in a flow-through detector. The system responds linearly to injected samples of myo-inositol (25 μl) in the concentration range 1–300 μM. The maximum throughput was 90 samples per hour. The IDH/LDH/LOD reactor was stable for at least 5 weeks.     

Intramolecular dimers: a new design strategy for fluorescence-quenched probes

Fluorogenic probes dual-labeled with reporter and quencher dyes use a change in fluorescence to monitor biochemical events (e.g., substrate binding or enzyme digestion). Such events change the reporter-quencher distance, which affects fluorescence. Recently, it is has been shown that static quenching through intramolecular dimers is an important mechanism that can sometimes be more efficient than F?rster resonance energy transfer (FRET).     

α-Halo sulfides in the alkylation of 2-pyrimidinones

When α-halo sulfides are reacted with ambident 2-pyrimidinones, the major product is due to N-alkylation, the minor product to O-alkylation. N-Alkylation is favoured by the presence of a tertiary amine in a solvent of low dielectric constant and also by a change of the α-halo sulfide substituent from chlorine to iodine. Complete selectivity can be achieved. The course of the reaction is rationalized in terms of the HSAB-principle.