Multi-mode absorption spectroscopy, MUMAS, using wavelength modulation and cavity enhancement techniques

Multi-mode absorption spectroscopy, MUMAS, has been combined with the techniques of wavelength modulation spectroscopy, WMS, and cavity enhanced absorption spectroscopy, CEAS, to record multiple molecular transitions using a single laser and a single detector. MUMAS signals were recorded using a multi-mode diode laser of the A-band $b^{1}\varSigma _{g}^{+}\leftarrow X^{3}\varSigma _{g}^{-}Multi-mode absorption spectroscopy, MUMAS, has been combined with the techniques of wavelength modulation spectroscopy, WMS, and cavity enhanced absorption spectroscopy, CEAS, to record multiple molecular transitions using a single laser and a single detector. MUMAS signals were recorded using a multi-mode diode laser of the A-band b¹\varSigma _g⁺? X³\varSigma _g^-b^{1}\varSigma _{g}^{+}\leftarrow X^{3}\varSigma _{g}^{-} of molecular oxygen at 760 nm. Direct MUMAS and WMS-MUMAS signals were recorded using a White cell for air and pure oxygen for pressures in the range 0 to 1 bar. CEAS-MUMAS signals were recorded with and without WMS in an open enhancement cavity containing laboratory air. Enhancement of the signal-to-noise ratio has been obtained demonstrating the potential for increased detection sensitivity for gas-sensing applications of MUMAS.     

Site control of InAs quantum dot nucleation by ex situ electron-beam lithographic patterning of GaAs substrates

Conventional electron-beam lithographic patterning of GaAs substrates followed by reactive-ion etching of small holes has been successfully used to control the nucleation of InAs dots. We have observed >50% single dot occupancy for holes wide and deep and show that the dot occupancy and dot size can be varied by changing the size of the holes. Luminescence from an array of these site-controlled dots has been demonstrated. Thus this use of substrate patterning is a viable technique to controllably place single dots at pre-determined positions in devices.     

Postselective two-photon interference from a continuous nonclassical stream of photons emitted by a quantum dot

We report an electrically driven semiconductor single-photon source capable of emitting photons with a coherence time of up to 400 ps under fixed bias. It is shown that increasing the injection current causes the coherence time to reduce, and this effect is well explained by the fast modulation of a fluctuating environment. Hong-Ou-Mandel-type two-photon interference using a Mach-Zehnder interferometer is demonstrated using this source to test the indistinguishability of individual photons by postselecting events where two photons collide at a beam splitter. Finally, we consider how improvements in our detection system can be used to achieve a higher interference visibility.     

Anticrossing of spin-split subbands in quasi-one-dimensional wires

In quantum Hall systems, both anticrossings and magnetic phase transitions can occur when opposite-spin Landau levels coincide. Our results indicate that both processes are also possible in quasi-1D quantum wires in an in-plane B field, Bparallel. Crossings of opposite-spin 1D subbands resemble magnetic phase transitions at zero dc source-drain bias, but display anticrossings at high dc bias. Our data also imply that the well-known 0.7 structure may evolve into a spin-hybridized state in finite dc bias.     

Recent progress and future directions in protein-protein docking

This article gives an overview of recent progress in protein-protein docking and it identifies several directions for future research. Recent results from the CAPRI blind docking experiments show that docking algorithms are steadily improving in both reliability and accuracy. Current docking algorithms employ a range of efficient search and scoring strategies, including e.g. fast Fourier transform correlations, geometric hashing, and Monte Carlo techniques. These approaches can often produce a relatively small list of up to a few thousand orientations, amongst which a near-native binding mode is often observed. However, despite the use of improved scoring functions which typically include models of desolvation, hydrophobicity, and electrostatics, current algorithms still have difficulty in identifying the correct solution from the list of false positives, or decoys. Nonetheless, significant progress is being made through better use of bioinformatics, biochemical, and biophysical information such as e.g. sequence conservation analysis, protein interaction databases, alanine scanning, and NMR residual dipolar coupling restraints to help identify key binding residues. Promising new approaches to incorporate models of protein flexibility during docking are being developed, including the use of molecular dynamics snapshots, rotameric and off-rotamer searches, internal coordinate mechanics, and principal component analysis based techniques. Some investigators now use explicit solvent models in their docking protocols. Many of these approaches can be computationally intensive, although new silicon chip technologies such as programmable graphics processor units are beginning to offer competitive alternatives to conventional high performance computer systems. As cryo-EM techniques improve apace, docking NMR and X-ray protein structures into low resolution EM density maps is helping to bridge the resolution gap between these complementary techniques. The use of symmetry and fragment assembly constraints are also helping to make possible docking-based predictions of large multimeric protein complexes. In the near future, the closer integration of docking algorithms with protein interface prediction software, structural databases, and sequence analysis techniques should help produce better predictions of protein interaction networks and more accurate structural models of the fundamental molecular interactions within the cell.     

Time-resolved detection of the CF3 photofragment using chirped QCL radiation

This paper demonstrates how a quantum cascade laser (QCL) in its intrapulse mode can provide a simple method for probing the products of a photolysis event. The system studied is the 266 nm photodissociation of CF3I with the CF3 fragments subsequently detected using radiation at approximately 1253 cm(-1) generated by a pulsed QCL. The tuning range provided by the frequency down-chirp of the QCL operated in its intrapulse mode allows a approximately 1 cm(-1) segment of the CF3 nu3 band to be measured following each photolysis laser pulse. Identification of features within this spectral region allows the CF3 ( v = 0) number density to be calculated as a function of pump-probe delay, and consequently the processes which populate and deplete this quantum state may be examined. Rate constants for the population cascade from higher vibrational levels into the v = 0 state, k 1, and for the recombination of the CF3 radicals to form C2F6, k2, are measured. The returned values of k1 = (2.3 +/- 0.34) x 10(-12) cm(3) molecule(-1) s(-1) and k2 = (3.9 +/- 0.34) x 10(-12) cm(3) molecule(-1) s(-1) are found to be in good agreement with reported literature values.     

Boronic acid-based bipyridinium salts as tunable receptors for monosaccharides and alpha-hydroxycarboxylates

Several novel diboronic acid-substituted bipyridinium salts were prepared and, using a fluorescent reporter dye, were tested for their ability to selectively bind various monosaccharides and alpha-hydroxycarboxylates in an aqueous medium. The fluorescence sensing mechanism relies on the formation of a ground-state charge-transfer complex between the dye and bipyridinium. An X-ray crystal structure of this complex is described herein. Glucose selectivity over fructose and galactose was achieved by designing the bipyridinium-based receptors to be capable of attaining a 1:1 receptor/substrate stoichiometry via cooperative diboronic acid binding.     

The use of Raman spectroscopy to provide an estimation of the gross biochemistry associated with urological pathologies

Near-infrared Raman spectroscopy, an optical technique that is able to interrogate biological tissues, has been used to study bladder and prostate tissues, with the objective being to provide a first approximation of gross biochemical changes associated with the process of carcinogenesis. Prostate samples for this study were obtained by taking a chip at TURP, and bladder samples from a biopsy taken at TURBT and TURP, following ethical approval. Spectra were taken from purchased biochemical constituents and different pathologies within the bladder and the prostate. We were then able to determine the biochemical basis for these pathologies by utilising an ordinary least-squares fit. We have shown for the first time that we are able to utilise Raman spectroscopy in determining the biochemical basis for the different pathologies within the bladder and prostate gland. In this way we can achieve a better understanding of disease processes such as carcinogenesis. This could have major implications in the future of the diagnosis of disease within the bladder and the prostate gland.     

Speed dependent rotational angular momentum polarization of the O2 (a 1Deltag) fragment following ozone photolysis in the wavelength range 248-265 nm

The translational anisotropy and rotational angular momentum polarization of a selection of rotational states of the O2 (a 1Deltag; v=0) photofragment formed from ozone photolysis at 248, 260, and 265 nm have been determined using the technique of resonance enhanced multiphoton ionization in combination with time of flight mass spectrometry. At 248 nm, the dissociation is well described as impulsive in nature with all rotational states exhibiting similarly large, near-limiting values for the bipolar moments describing their angular momentum alignment and orientation. At 265 nm, however, the angular momentum polarization parameters determined for consecutive odd and even rotational states exhibit clear differences. Studies at the intermediate wavelength of 260 nm strongly suggest that such a difference in the angular momentum polarization is speed dependent and this proposal is consistent with the angular momentum polarization parameters extracted and reported previously for longer photolysis wavelengths [G. Hancock et al., Phys. Chem. Chem. Phys. 5, 5386 (2003); S. J. Horrocks et al., J. Chem. Phys. 126, 044308 (2007)]. The alternation of angular momentum polarization for successive odd and even J states may be a consequence of the different mechanisms leading to the formation of the two O2 (a 1Deltag) Lambda doublets. Specifically, the involvement of out of plane parent rotational motion is proposed as the origin for the observed depolarization for the Delta- relative to the Delta+ state.