Anti-aliasing weighting functions for single-slice helical CT

Spatially variant longitudinal aliasing plagues most volumes reconstructed from single-slice helical computed tomography data, and its presence can degrade resolution and distort image structures. We have recently developed a Fourier-based approach to longitudinal interpolation in helical computed tomography that can, for scans performed at pitch 1 or lower, essentially eliminate this longitudinal aliasing by exploiting a generalization of the Whittaker-Shannon sampling theorem whose conditions are satisfied by the interlaced pairs of direct and complementary longitudinal samples. However, the algorithm is computationally intensive and cannot be pipelined. In this paper, we address this shortcoming by deriving two spatial-domain, projection-data weighting functions that approximate the application of the Fourier-based approach, and preserve its aliasing suppression properties to some degree, while allowing for a pipelined implementation. The first approach, which we call simply 180AA, for anti-aliasing, is a direct spatial-domain approximation of the 180FT approach. The second approach, which we call 180BSP, is based on an approximate generalized interpolation approach making use of B-splines. Studies of aliasing and resolution properties in reconstructions from simulated data indicate that while the 180AA and 180BSP approaches do not perfectly replicate the favorable aliasing suppression and resolution properties of the 180FT approach, they do represent an improvement over the clinically standard 180LI approach on these fronts.     

Salmonella spp. shedding by alberta beef cattle and the detection of Salmonella spp. in ground beef

Breeder cows, cattle recently arrived at feedlots, and cattle about to be shipped for slaughter were tested for Salmonella spp. No Salmonella spp. were detected in fecal samples from breeding cows. Nineteen of 1,000 (1.9%) fecal samples from recently arrived feedlot cattle were positive for Salmonella spp. compared to only 2 of 1,000 (0.2%) fecal samples taken within 2 weeks of slaughter. The positive fecal samples were collected in 5 of 50 (10%) "recent arrival" pens tested and in 1 of 50 (2%) pens tested within 2 weeks of slaughter. The serotypes isolated were Salmonella Agona, Salmonella Enteritidis, Salmonella Typhimurium DT104, and Salmonella 4,5,12:i:-. Ground beef samples purchased from retail outlets throughout Alberta were processed for Salmonella spp. Thirteen of 1,002 (1.3%) samples were positive for Salmonella spp. The serotypes isolated from ground beef were Salmonella Anatum, Salmonella Heidelberg, Salmonella Montevideo, Salmonella Typhimurium, Salmonella Typhimurium var. Copenhagen, and Salmonella Rough-O:i:1,2. The antibiotic resistance and pulsed-field electrophoresis gel macrorestriction patterns of all isolates were compared.     

ARL1 and membrane traffic in Saccharomyces cerevisiae

To examine the functions of the Arf-like protein, Arl1p, in Saccharomyces cerevisiae, a null allele, arl1delta::HIS3, was constructed in two strains. In one background only, loss of ARL1 resulted in temperature-sensitive (ts) growth (suppressed on high-osmolarity media). Allelic variation at the SSD1 locus accounted for differences between strains. Strains lacking ARL1 exhibited several defects in membrane traffic. First, arl1delta strains secreted less protein as measured by TCA-precipitable radioactivity found in the media of [(35)S]-labelled cells. A portion of newly synthesized carboxypeptidase Y (CPY) was secreted rather than correctly targeted to the vacuole. Uptake of the fluid-phase marker, lucifer yellow, was reduced. All these phenotypes were exacerbated in an ssd1 background. The ts phenotype of the arl1deltassd1 strain was suppressed by YPT1, the yeast Rab1a homologue, suggesting that ARL1 and YPT1 have partially overlapping functions. These findings demonstrate that ARL1 encodes a regulator of membrane traffic.     

Polysaccharides as excipients for colon-specific coatings. Permeability and swelling properties of casted films

Oligosaccharides such as inulin (In) and polysaccharides such as galactomannans, combined with polymethacrylates on isolated films for film coatings, were obtained from aqueous-based solvents and investigated as potential vehicles for colonic drug delivery. These compositions, which are susceptible to fermentation by colonic microflora, constitute promising excipients for the development of new colon-specific therapeutic systems. The characteristics of several compositions have been demonstrated in permeability and swelling studies on isolated films composed of a polymethacrylate associated with In or galactomannans of mesquite seed gum (MSG). Results reported prove a dependency of the properties of mixed films on the polymethacrylate-polysaccharide concentration ratio and on the composition of the dissolution media. An increase in permeability through the mixed films was observed in a simulated colonic environment for the following compositions: Eudragit®RS30D-MSG 70 : 30 w/w; Eudragit® RS30D-In 90 : 10 w/w; Eudragit®RS30D-In 76 : 24 w/w.     

High-speed high-resolution gas-phase Raman spectroscopy

A new Raman spectrometer has been developed that can produce a complete high-resolution gas-phase vibrational spectrum during the time period of a single laser pulse. Conventional gas-phase Raman spectroscopy uses a single narrow-band laser to produce signals that are weak, requiring relatively long collection times. This spectrometer uses a degenerate OPO as a broad-band source that covers a continuous range of >3000 cm(-1). When a beam from this broad-band source is added to a narrow-band laser beam, the intensity of the Raman signal is amplified by the nonlinear optical effect. The resulting instrument can generate spectra with high-spectral (<1 cm(-1)), spatial (<0.05 mm2), and temporal resolution (<1 s).     

High-accuracy position and orientation measurement of extended two-dimensional surfaces by a phase-sensitive vision method

We introduced recently phase measurements usually performed in interferometry to the domain of image processing and intelligent vision [IEEE Trans. Instrum. Meas. 49, 867 (2000)]. Our purpose is to sense with a high accuracy the position, orientation, and displacement of two-dimensional (2D) surfaces observed by a static vision system. We report on significant improvements of the method. Experimental measurements reveal a peak-valley noise of approximately 10(-2) CCD pixel, corresponding approximately to a 10(-3) period of the phase reference pattern. Then the observation of 10 microm scaled features enables an accuracy of a few nm in the position sensing of the phase reference pattern for the extended 2D measurement range.     

Effects of aerosol scattering phase function formulation on point-spread-function calculations

The quality of the image produced by an outdoor optical system is affected by the presence of atmospheric aerosols between object and receiver. The properties of the point-spread function that result from aerosol particles were calculated by a new Monte Carlo code called MEDIA (an acronym for Modélisation des Effets de Diffusion Inhérents à l'Atmosphère). The influence of the scattering phase function's angular dependence on the irradiance of the focal plane of a detector was studied. Calculations were performed by use of Mie theory and of the Henyey-Greenstein formulation for the same asymmetry parameter and various detector optical characteristics and atmospheric conditions. Major variations were observed for strong forward-peaked scattering phase functions and a large detector field of view.     

Protein identification by MALDI-TOF-MS peptide mapping: a new strategy

A new strategy for identifying proteins by MALDI-TOF-MS peptide mapping is reported. In contrast to current approaches, the strategy does not rely on a good relative or absolute mass accuracy as the criterion that discriminates false positive results. The protein sequence database is first searched for all proteins that match a minimum five of the submitted masses within the maximum expected relative errors when the default or externally determined calibration constants are used, for instance, +/-500 ppm. Typically, this search retrieves many thousand candidate sequences. Assuming initially that each of these is the correct protein, the relative errors of the matching peptide masses are calculated for each candidate sequence. Linear regression analysis is then performed of the calculated relative errors as a function of m/z for each candidate sequence, and the standard deviation to the regression is used to distinguish the correct sequence among the candidates. We show that this parameter is independent of whether the mass spectrometric data were internally or externally calibrated. The result is a search engine that renders internal spectrum calibration unnecessary and adapts to the quality of the raw data without user interference. This is made possible by a dynamic scoring algorithm, which takes into account the number of matching peptide masses, the percentage of the protein's sequence covered by these peptides and, as new parameter, the determined standard deviation. The lower the standard deviation, the less cleavage peptides are required for identification and vice versa. Performance of the new strategy is demonstrated and discussed. All necessary computing has been implemented in a computer program, free access to which is provided in the Internet.     

Multiple ion isolation applications in FT-ICR MS: exact-mass MSn internal calibration and purification/interrogation of protein-drug complexes

Two new applications using multiple ion isolations in the cell of a Fourier transform-ion cyclotron resonance mass spectrometer equipped with an electrospray ionization source are described. A procedure that uses multiple ion isolations of an analyte and calibrants for internal calibration at each stage in a MSn experiment, under high-resolution exact-mass conditions, for structural characterization/elucidation of angiotensin I and rapamycin is illustrated. Fragment ion mass accuracies < 1.0 ppm are demonstrated and routinely achieved. Purification of a mixture is illustrated by isolating multiple charge states of a protein-drug complex from residual protein for further MSn studies to elucidate the site of covalent drug bonding using IRMPD for a mixture of epidermal growth factor receptor (EGFr) protein and EGFr-drug complex. The procedure developed for multiple ion isolations is referred to as multi-CHEF, multiple correlated harmonic excitation fields, in which tailored waveforms are used to notch out multiple mass regions of a spectrum with minimal off-resonance excitation.