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Optimization methods in chromatography and capillary electrophoresis.

Many methods have been developed in order to optimize the parameters of interest in either chromatography or capillary electrophoresis. In chemometric approaches experimental measurements are performed in such a way that all factors vary together. An objective function is utilized in which the analyst introduces the desired criteria (selectivity, resolution, time of analysis). Simplex methods and overlapping resolution maps are declining. Factorial designs and central composite designs are more and more popular in electrodriven capillary separations since the number of parameters to master is much larger than in either GC or LC. The use of artificial neural networks is increasing. The advantage of chemometrics tools is that no explicit models are required, conversely the number of experiments to perform may be high and boundaries of the domain are not straightforward to draw and the approach does more than is required. When models are available optimization is easier to perform by regression methods. Computer assisted methods in RPLC are readily available and work well but are still in infancy in CE. Linear solvation energy relationships seem a very valuable tool but estimates of coefficients still require many experiments.

Chromatography, Liquid↗

Using x-ray reflectivity to determine the structure of surfactant monolayers

Interactions among the multiple degrees of freedom of surfactant molecules cause fascinating richness in the structure of their monolayers. Beyond this scientific motivation for studying surfactant monolayers, the technological use of monolayers for interfacial control and molecular assembly demands a clear understanding of monolayer structure. X-ray and neutron reflectivity have become prime techniques for determining this structure. We present x-ray reflectivity data for a representative surfactant monolayer system and outline an objective procedure for obtaining the maximum amount of structural information possible. Our approach combines tight control of instrumental parameters, dynamically optimized Monte Carlo and simulated annealing to probe the chi(2) hypersurface, and a set of statistical criteria for accepting and rejecting fits. We justify our procedure through tests using simulated data. Results indicate that an ensemble of fits must be performed for each set of reflectivity data in order to survey the chi(2) hypersurface adequately. A single good fit may yield structural parameters which are quite misleading, yet physically plausible. Thus, one must never be satisfied with performing just a single fit. In cases for which multiple, statistically equivalent fits are obtained, the apparent ambiguity is substantially mitigated by averaging the parameters over the ensemble of good fits. We also introduce a method of dealing with cases for which a good fit may be extremely difficult to find. Our analysis procedures can be generalized to other monolayer or multilayer systems and are also applicable to neutron reflectivity.

Journal Article↗

Does transcranial magnetic stimulation improve the motor symptoms of Parkinson disease?

Repetitive transcranial magnetic stimulation (rTMS) has been used as a potential therapeutic tool in various neurological and psychiatric disorders. We reviewed the effects of rTMS as a treatment of Parkinson disease in this paper. The existing reports have been conflicting regarding the efficacy of the rTMS in PD. The controversy arises from the differences of the stimulation parameters and evaluation methods of the effects in those studies. Furthermore, placebo effects are common in trials of therapy for PD. The Japanese multi-center, double blinded, sham stimulation controlled trial showed an efficacy in both the rTMS-treated and control patients. The stimulation parameters used in this trial showed some efficacy; however, the degree of the effects were not significantly different from randomized, controlled patients. The result does not prove the efficacy of the rTMS; on the other hand, it does not rule out the efficacy. Further trials are necessary to reveal the therapeutic effect of rTMS in PD. Further studies should be performed aiming to reveal the optimal stimulation parameters.

Clinical Trials as Topic↗

Optimizing the quadruple-potential waveform for the pulsed amperometric detection of neomycin.

Determination of neomycin is important for quality control of the pharmaceutical preparation. A quadruple-potential waveform used for pulsed amperometric detection of neomycin was investigated. The waveform cleans the electrode by application of a potential more negative than the potential limit to avoid the formation of gold oxide during applying positive potential to clean gold electrode, thus decreasing the dissolution resulting recession of the gold working electrode within gold oxide formation/reduction cycles in the triple-potential waveform. Waveform parameters were optimized to maximize the signal-to-noise ratio (S/N). The detection limit of neomycin B is lower than 0.01 microg/ml. The linearity of framycetin (plotted as peak area of neomycin B) ranges from 0.05 to 100 microg/ml with correlation coefficient 0.9998. R.S.D. (n = 60) of the peak area of neomycin B is lower than 2%. The quadruple-potential waveform shows low detection limits and long-term reproducibility.

Chromatography, Liquid↗

Influence of task parameters on rotarod performance and sensitivity to ethanol in mice.

Motor performance in mice can be assessed with multiple apparatus and protocols. Use of the rotarod (a.k.a. rotorod, rota-rod, roto-rod, or accelerod) is very common, and it is often used with the apparent assumption by the experimenters that it is a straightforward and simple assay of coordination. The rotarod is sensitive to drugs that affect motor coordination, including ethanol. However, there are few systematic data assessing the range of "normal" performance in mice. There are also few data exploring optimal task parameters (e.g. the influence of different speeds of rotation). In these experiments, we show that both accelerating and fixed-speed rotarod (FSRR) performance vary under different test protocols and conditions, and that moderate to high doses of ethanol disrupt performance. Under certain conditions, low doses of ethanol were found to enhance performance on the accelerating rotarod (ARR). Therefore, it is not possible to characterize individual differences fully using a single set of test parameters. For example, because of the biphasic effect of ethanol on performance, at least two doses of the drug are necessary to explore individual sensitivity differences. We offer recommendations of parameters we believe to be generally suitable for exploring the performance of new genotypes using the rotarod. We suggest that other putative tests of "ataxia" are similarly complex, and that characterizing the contribution of genetic differences will require similar attention to the details of task apparatus and protocols. These data also underscore the need to employ multiple behavioral assays in order to model a complex domain such as "ataxia" or "coordination."

Acceleration↗

Anterior medial temporal lobe activation during encoding of words: FMRI methods to optimize sensitivity.

The existence of a rostrocaudal gradient of medial temporal lobe (MTL) activation during memory encoding has historically received support from positron emission tomography studies, but less so from functional MRI (FMRI) studies. More recently, FMRI studies have demonstrated that characteristics of the stimuli can affect the location of activation seen in the MTL when those stimuli are encoded. The current study tested the hypothesis that MTL activation during memory encoding is related to the modality of stimulus presentation. Subjects encoded auditorily or visually presented words in an FMRI novelty paradigm. Imaging and analysis parameters were optimized to minimize susceptibility artifact in the anterior MTL. Greater activation was observed in the anterior than posterior MTL for both modalities of stimulus presentation. The results indicate that anterior MTL activation occurred during encoding, independent of stimulus modality and provide support for the hypothesis that verbal-semantic memory processing occurs in anterior MTL. The authors suggest that technical factors are critical for observing the rostrocaudal gradient in MTL memory activation.

Acoustic Stimulation↗

Optimization of protein identification from digests as analyzed by capillary isoelectric focusing-mass spectrometry.

Capillary isoelectric focusing (CIEF) is a high-resolution separation technique for the analysis of peptides and protein digests. When coupled to ion trap-mass spectrometry (CIEF-MS) the unique separation mechanism is combined with a highly efficient detection system. In an earlier report, we described aspects of separation and interfacing in connection to the analysis of a digest of set of standard proteins. Now, we report on different aspects of the process of protein identification. Sequest software parameters were optimized by using a standard protein digest. These settings were used for the analysis of periplasmic proteins from Escherichia coli. Since in CIEF peptides are focused according to their pI values, the mobilization time of a particular peptide is dependent on its pI value. Based on this relation, the identification of some peptides was facilitated. Furthermore, the Sequest settings that were used could be evaluated. In total, 159 proteins were identified in a single run.

Amino Acid Sequence↗

Magnetic resonance imaging protocols for examination of the neurocranium at 3 T.

The increasing availability of high-field (3 T) MR scanners requires adapting and optimizing clinical imaging protocols to exploit the theoretically higher signal-to-noise ratio (SNR) of the higher field strength. Our aim was to establish reliable and stable protocols meeting the clinical demands for imaging the neurocranium at 3 T. Two hundred patients with a broad range of indications received an examination of the neurocranium with an appropriate assortment of imaging techniques at 3 T. Several imaging parameters were optimized. Keeping scan times comparable to those at 1.5 T we increased spatial resolution. Contrast-enhanced and non-enhanced T1-weighted imaging was best applying gradient-echo and inversion recovery (rather than spin-echo) techniques, respectively. For fluid-attenuated inversion recovery (FLAIR) imaging a TE of 120 ms yielded optimum contrast-to-noise ratio (CNR). High-resolution isotropic 3D data sets were acquired within reasonable scan times. Some artifacts were pronounced, but generally imaging profited from the higher SNR. We present a set of optimized examination protocols for neuroimaging at 3 T, which proved to be reliable in a clinical routine setting.

Adult↗

Theoretical study of convergent ultrasound hyperthermia for treating bone tumors.

This study investigates the optimal external parameters for using an ultrasound applicator for treating bone tumors. This system utilized spherically arranged applicators such as scanned focused ultrasound, and spherically focused multielement applicators. The power deposition pattern is modeled as geometric gain with exponential attenuation. The specific absorption rate ratio (SARR) criteria have been used to determine the proper heating domain of ultrasound driving frequency and therapeutic tumor diameter. The results demonstrate that the optimal driving frequency depends on tumor depth, ultrasound absorption of bone marrow, and diameter of bone, but it is independent of the acoustic window area and SARR. The treatable diameter of bone tumor increased when the absorption ratio of bone marrow to tumor, acoustic window of surface skin, and diameter of bone were elevated. However, the treatable diameter of bone tumor decreased when muscle thickness, SARR of bone tumor site to the surface skin, bone marrow, and bone declined. To deliver the ultrasound energy into the tumor site and to avoid the potential damage to the normal tissue as much as possible, the specific absorption rate (SAR) in the bone tumor site has to be three times higher than that in the surface skin, tumor/marrow, and marrow/bone interfaces. The temperature distributions can verify the SARR criteria in this model. This study provides the information for choosing the optimal operating frequency of the ultrasound transducer and the acoustic window on the skin surface, and for designing the ultrasound applicator for clinical implementation.

Biomedical Engineering↗

Optimization of conditions for labeling the 3' OH end of tRNA using T4 RNA ligase.

For several years most primary structure studies of ribonucleic acids have used the [32P] in vitro post-labeling techniques. We adapted our methods from the literature, and simplified them to make them accessible to any laboratory. These procedures are especially useful for preparation and purification of post labeling enzymes: T4 polynucleotide kinase, T4 RNA ligase and of gamma [32P] ATP. We developed a test tube method for 5' [32P] pCp preparation followed by tRNA labeling with T4 RNA ligase. The parameters for optimal labeling were determined. Labeling of 3.10(6) to 5.10(6) Cerenkov CPM per microgram tRNA are currently obtained.

Adenosine Triphosphate↗

EMF signals and ion/ligand binding kinetics: prediction of bioeffective waveform parameters.

The kinetics of an electromagnetic field (EMF) target pathway are used to estimate frequency windows for EMF bioeffects. Ion/ligand binding is characterized via first order kinetics from which a specific electrical impedance can be derived. The resistance/capacitance properties of the binding pathway impedance, determined by the kinetics of the rate-determining step, define the frequency range over which the target pathway is most sensitive to external EMF. Applied signals may thus be configured such that their spectral content closely matches that of the target, using evaluation of the signal to thermal noise ratio to optimize waveform parameters. Using the approach proposed in this study, a pulsed radio frequency (PRF) waveform, currently employed clinically for soft tissue repair, was returned by modulation of burst duration, producing significant bioeffects at substantially reduced signal amplitude. Application is made to Ca2+/Calmodulin-dependent myosin phosphorylation, for which the binding time constants may be estimated from reported kinetics, neurite outgrowth from embryonic chick dorsal root explants and bone repair in a fracture model. The results showed that the retuned signal produced increased phosphorylation rates, neurite outgrowth and biomechanical strength that were indistinguishable from those produced by the clinical signal, but with a tenfold reduction in peak signal amplitude, approximately 800-fold reduction in average amplitude and approximately 10(6)-fold reduction in average power.

Algorithms↗

[Magnetization transfer contrast (MTC): optimizing off-resonance and on-resonance frequency MTC methods at 0.5 and 1.5 T].

AIM: To compare technical parameters and clinically relevant aspects of on- and off-resonance MTC sequences in mid- and high-field MR systems. MATERIAL AND METHODS: Both on- and off-resonance techniques were combined with an FFE sequence using 0.5 and 1.5 Tesla superconducting systems. Parameters were systematically measured by scanning a cadaveric knee joint. Signal-to-noise ratios and MT ratios for fat, cartilage and reference solution (copper sulphate) were determined. Minimal TR and the energy absorption rate were also compared. RESULTS: The MT effect at 1.5 T was more pronounced. However, using optimized parameters, clinically adequate MT contrast was achieved with both techniques and both MT units. The most important parameters for the off-resonance method are pulse angle and off-centre frequency; for the on-resonance method, pulse angle and number of composite pulse elements. Energy absorption was below 2 W/kg. Minimal TR was prolonged by up to 400%. CONCLUSION: In order to produce MTC images, optimized parameters should be applied. Using optimized pulse parameters, adequate MTC imaging is achievable with mid- and high-field systems using on- and off-resonance techniques. To ensure comparability of MTC studies, the pulse parameters need to be given, and, ideally, standardized.

Arterial Occlusive Diseases↗

Theoretical studies of microfluidic dispensing processes.

The understanding of electrokinetic transport phenomena in microfluidic dispensers, an important component of biochips, is very important for designing and controlling biochips. A theoretical model to study the electrokinetic transport processes in microfluidic dispensers was developed in the work to study the controlling parameters for the dispensing process. The electrical field, the flow field, and the concentration field during dispensing processes were obtained by solving this theoretical model numerically. The effects of the electroosmotic mobility of the buffer solution, the diffusion coefficient and the electrophoretic mobility of the sample, the applied electrical field strength, and the channel size on the dispensing process are examined in this paper. The investigations show that optimal controlling parameter values can be found by using this model for dispensing any desired amount of the sample.

Journal Article↗

Automated external defibrillators: design considerations.

Biphasic defibrillation waveforms are now the standard of care in clinical use for defibrillation with implantable cardioverter-defibrillators (ICDs), due to the superior performance demonstrated over that of comparable monophasic waveforms. To better understand these significantly different outcomes, ICD research has developed cardiac cell response models to defibrillation. Waveform design criteria have been derived from these first principles and have been applied to monophasic and biphasic waveforms to optimize their parameters. These principles-based design criteria have produced significant improvements over the current art of waveforms. Monophasic defibrillation waveforms remain the standard of care in clinical use for transthoracic defibrillation. Waveform design has not yet been influenced by the important gains made in ICD research. The limitations of present transthoracic waveforms may be due in part to a lack of application of these design principles to determine optimal waveform characteristics. To overcome these limitations, design principles based on cell response have recently been developed for external defibrillation waveforms. The transthoracic model incorporates elements into a cell response model that extends it to external defibrillation. External waveform design principles demonstrate reductions in capacitance, voltage, duration, and delivered energy. Therefore, design principles based on cardiac electrophysiology may provide a means to significantly reduce the energy required for safe and efficacious external defibrillation. Footnotes, formulae, and figures augment this presentation in order to clarify the defibrillation waveform theory.

Animals↗

Rapid identification and determination of purity of flow-sorted plant chromosomes using C-PRINS.

BACKGROUND: Flow-sorted plant chromosomes are being increasingly used in plant genome analysis and mapping. Consequently, there is a need for a rapid method for identification of sorted chromosomes and for determination of their purity. We report on optimization of procedures for primed in situ DNA labeling (PRINS) and cycling-PRINS (C-PRINS) for fluorescent labeling of repetitive DNA sequences on sorted plant chromosomes suitable for their identification. METHODS: Chromosomes of barley, wheat, and field bean were sorted onto microscope slides, dried, and subjected to PRINS or C-PRINS with primers for GAA microsatellites (barley and wheat) or FokI repeat (field bean). The following parameters were optimized to achieve the highest specificity and intensity of fluorescent labeling: ratio of labeled versus unlabeled nucleotides, nucleotide concentration, and the number and concentration of primers. RESULTS: Under optimal conditions, C-PRINS resulted in strong and specific labeling of GAA microsatellites on sorted barley and wheat chromosomes and FokI repeats on sorted field bean chromosomes. The labeling patterns were characteristic for each chromosome and permitted their unequivocal identification as well as determination of purity after sorting, which ranged from 96% to 99%. A standard polymerase chain reaction (PCR) with chromosome-specific primers was not sensitive enough to detect low-frequency contamination. CONCLUSIONS: The results indicate that a single C-PRINS assay with primers that give chromosome-specific labeling pattern is sufficient not only to determine chromosome content of peaks on flow karyotype but also to determine the purity of sorted chromosome fractions. The whole procedure can be performed in less than 3 h on the next day after sorting. Numerous applications are expected in the area of plant flow cytogenetics.

Chromosomes↗

Laser vascular tissue fusion: development, current status, and future perspectives.

Tissue fusion has a number of vascular applications such as making sutureless blood vessel anastomoses and for securing the end points of endarterectomies and dissection planes. Precision of tissue apposition at the time of fusion has been found to be a critical parameter, affecting the rate of healing and tensile strength of tissue welds. Several laser wavelengths can be used to accomplish vascular and other soft tissue fusions. Potential advantages of laser fusion over suture techniques may include healing without foreign body reaction related to sutures and preserved mechanical properties at anastomoses. While preliminary experimental and clinical data are very promising, additional work is needed. This would include determining the mechanism and optimal laser parameters and wavelengths required for vascular tissue fusion. In addition, the characteristics needed to seal uniformly large-diameter arteries and to fashion welds that withstand systemic arterial pressures must be identified. Follow-ups of approximately three years suggest that strong initial primary seals will eliminate significant adverse effects.

Adult↗

Study of peptide conformation in terms of the ABEEM/MM method.

The ABEEM/MM model (atom-bond electronegativity equalization method fused into molecular mechanics) is applied to study of the polypeptide conformations. The Lennard-Jones and torsional parameters were optimized to be consistent with the ABEEM/MM fluctuating charge electrostatic potential. The hydrogen bond was specially treated with an electrostatic fitting function. Molecular dipole moments, dimerization energies, and hydrogen bond lengths of complexes are reasonably achieved by our model, compared to ab initio results. The ABEEM/MM fluctuating charge model reproduces both the peptide conformational energies and structures with satisfactory accuracy with low computer cost. The transferability is tested by applying the parameters of our model to the tetrapeptide of alanine and another four dipeptides. The overall RMS deviations in conformational energies and key dihedral angles for four di- or tetrapeptide, is 0.39 kcal/mol and 7.7 degrees . The current results agree well with those by the accurate ab initio method, and are comparable to those from the best existing force fields. The results make us believe that our fluctuating charge model can obtain more promising results in protein and macromolecular modeling with good accuracy but less computer cost.

Hydrogen Bonding↗

Maximum likelihood estimation of primary productivity coefficients.

Computing parameters of primary productivity models from empirical data encounters the difficulty that Liebig's law of minimum is involved. For many of the data points used to fit the model it may not be evident which factor is the respective limiting one; it may even be different from the independent variables used. The introduction of a suitable statistical data model, however, allows a Maximum Likelihood procedure to be applied which simultaneously optimizes the parameters and classifies the data. Moreover, the proposed procedure is quite insensitive to data points whose limiting factor is not contained in the actual set of independent variables. Applicability of the method is demonstrated using a set of productivity measurements compiled by H. Lieth in 1975; numerical results, of course, may be subject to change as more data become available.

Mathematics↗