Reflectance reduction of InP wafers after high-temperature annealing.

Broadband reduction of light reflection from the surface of InP wafers after high-temperature annealing in air has been observed. In the transparency region of the material, the reflection drop is accompanied by increasing transmission of light through the wafer. The spectral position of a deep minimum of the reflection coefficient can be tuned, by varying the temperature and the time of annealing, in a wide spectral range from ultraviolet to infrared. The effect is due to formation of thermal oxide layers on the surfaces of the wafer with optical parameters favorable for antireflection.

Correlation effects in sequential energy branching: an exactly solvable model of Fano statistics.

Correlation effects in the fluctuation of the number of particles in the process of energy branching by sequential impact ionizations are studied using an exactly soluble model of random parking on a line. The Fano factor F calculated in an uncorrelated final-state "shot-glass" model does not give an accurate answer even with the exact gap-distribution statistics. Allowing for the nearest-neighbor correlation effects gives a correction to F that brings F very close to its exact value. We discuss the implications of our results for energy resolution of semiconductor gamma detectors, where the value of F is of the essence. We argue that F is controlled by correlations in the cascade energy branching process and hence the widely used final-state model estimates are not reliable--especially in the practically relevant cases when the energy branching is terminated by competition between impact ionization and phonon emission.

Fluctuations of the partial filling factors in competitive random sequential adsorption from binary mixtures.

Competitive random sequential adsorption on a line from a binary mix of incident particles is studied using both an analytic recursive approach and Monte Carlo simulations. We find a strong correlation between the small and the large particle distributions so that while both partial contributions to the fill factor fluctuate widely, the variance of the total fill factor remains relatively small. The variances of partial contributions themselves are quite different between the smaller and the larger particles, with the larger particle distribution being more correlated. The disparity in fluctuations of partial fill factors increases with the particle size ratio. The additional variance in the partial contribution of a smaller particle originates from the fluctuations in the size of gaps between larger particles. We discuss the implications of our results to semiconductor high-energy gamma detectors where the detector energy resolution is controlled by correlations in the cascade energy branching process.

Random sequential adsorption of shrinking or expanding particles.

We present a model of one-dimensional irreversible adsorption in which particles once adsorbed immediately shrink to a smaller size or expand to a larger size. Exact solutions for the fill factor and the particle number variance as a function of the size change are obtained. Results are compared with approximate analytical solutions.

Excitation-emission fluorimeter based on linear interference filters.

We describe the design, properties, and performance of an excitation-emission (EE) fluorimeter that enables spectral characterization of an object simultaneously with respect to both its excitation and its emission properties. Such devices require two wavelength-selecting elements, one in the optical path of the excitation broadband light to obtain tunable excitation and the other to analyze the resulting fluorescence. Existing EE instruments are usually implemented with two monochromators. The key feature of our EE fluorimeter is that it employs lightweight and compact linear interference filters (LIFs) as the wavelength-selection elements. The spectral tuning of both the excitation and the detection LIFs is achieved by their mechanical shift relative to each other by use of two computer-controlled linear step motors. The performance of the LIF-based EE fluorimeter is demonstrated with the fluorescent spectra of various dyes and their mixtures.

Formation of a resistive region at the anode end in DNA capillary electrophoresis.

We have studied the formation of a resistive region in the capillary during DNA separation. This effect is caused by an unequal change in the mobilities of cations and anions at the interface between the running buffer solution and the capillary. We studied the motion of the resistive region boundary by sequential removal of portions of the affected capillary end. We found that in the process of developing the resistive region the distribution of the electric fields in the capillary changes from uniform to extremely nonuniform, with a very high field (above 1 MV/cm) in the resistive region and a reduced field (80 V/cm) in the rest of the capillary. Though theoretically a resistive region may appear either at the anode (detection) or the cathode (injection) end of the capillary, all previous publications report the formation of the resistive region at the cathode side. In our experiments, however, the anomalous region is formed at the anode. Thus, the separated DNA peaks move towards the slowly progressing resistive region. Our results indicate that the DNA is stopped at the boundary and does not enter the region. When the resistive region is clipped off the peak motion resumes. This suggests that there exists a potential barrier at the resistive layer boundary that prevents the drift of the peaks towards the anode. The formation of the resistive region interferes with a normal separation process causing a gradual decrease of the capillary current and the deceleration and eventual quenching of the peak motion. For the ABI chemistry, we experimented with adding polymers to the electrode buffer to equate the transference numbers for anions and cations, and found the conditions at which this effect is completely eliminated.

Dynamic range of fluorescence detection and base-calling accuracy in DNA sequencer based on single-photon counting.

Recently, we developed a family of high-performance automated capillary DNA sequencing instruments based on a single-photon detection of fluorescently labeled DNA fragments. Our machines employ digital and broadband techniques, essential for achieving superior instrument sensitivity and dynamic range. In the present paper, we discuss limitations of the instrument's performance caused by the nonlinearity of single-photon detectors as well as methods for nonlinearity compensation which increase the detection dynamic range and base-calling accuracy.

A family of novel DNA sequencing instruments based on single-photon detection.

We have developed a family of high-performance capillary DNA sequencing instruments based on a novel multicolor fluorescent detection technology. This technology is based on two technical innovations: the multilaser excitation of fluorescence of labeled DNA fragments and the "color-blind" single-photon detection of modulated fluorescence. Our machines employ modern digital and broadband techniques that are essential for achieving superior instrument performance. We discuss the design and testing results for several versions of the automated single lane DNA sequencers, as well as our approach to scaling up to multilane instruments.