Biomedical subjects

Siyuan Liu

Publications and source records attributed to Siyuan Liu.

5 recordsLinked to original sources

PubMed2006

Dependence on saturation of average minimum resolution in two-dimensional statistical-overlap theory: peak overlap in saturated two-dimensional separations.

A theory is proposed for the dependence on saturation of the average minimum resolution R(*) in point-process statistical-overlap theory for two-dimensional separations. Peak maxima are modelled by clusters of overlapping circles in hexagonal arrangements similar to close-packed layers. Such clusters exist only for specific circle numbers, but equations are derived that facilitate prediction of equivalent cluster properties for any number of circles. A metric is proposed for the average minimum resolution that separates two such clusters into two maxima. From this metric, the average minimum resolution of the two nearest-neighbor single-component peaks (SCPs)--one in each cluster--is calculated. Its value varies with the number of SCPs in both clusters. These resolutions are weighted by the probability that the two clusters contain the postulated numbers of SCPs and summed to give R(*), which decreases with increasing saturation. The dependence of R(*) on saturation is combined with a theory correcting the probability of overlap in a reduced square for boundary effects. The numbers of maxima in simulations of 75, 150, and 300 randomly distributed bi-Gaussians having exponential heights and aspect ratios of 1, 30, and 60 are compared to predictions. Excellent agreement between maxima numbers and theory is found at low and high saturation. Good estimates of the numbers of bi-Gaussians in simulations are calculated by fitting theory to numbers of maxima using least-squares regression. The theory is applied to mimicked GC x GCs of 93 compounds having many correlated retention times, with predictions that agree fairly well with maxima numbers.

Chromatography↗

PubMed2006

Resolution enhancement in MRI.

We consider the problem of super-resolution reconstruction (SRR) in MRI. Subpixel-shifted MR images were taken in several fields of view (FOVs) to reconstruct a high-resolution image. A novel algorithm is presented. The algorithm can be applied locally and guarantees perfect reconstruction in the absence of noise. Results that demonstrate resolution improvement are given for phantom studies (mathematical model) as well as for MRI studies of a phantom carried out with a GE clinical scanner. The method raises questions that are discussed in the last section of the paper. Open questions should be answered in order to apply this method for clinical purposes.

Algorithms↗

PubMed2005

Verification of statistical-overlap theory in micellar electrokinetic chromatography.

The limited peak capacity of neutral compounds in micellar electrokinetic chromatography (MEKC) causes peak overlap in a simple 38-compound sample that is predicted by statistical-overlap theory (SOT). The low-concentration sample was prepared in-house from several compound classes to span the entire migration-time range and was resolved partially in a pH=7 phosphate buffer containing 50 mM sodium dodecyl sulfate. Peaks, singlets, doublets, and other multiplets were identified on the basis of known migration times and were counted at 13 voltages spanning 4 - 26 kV. These numbers agreed well with predictions of a simple SOT based on the assumption of an inhomogeneous Poisson distribution of migration times. Because the dispersion theory of MEKC is simple, the standard deviations of single-component peaks were modeled theoretically. As part of a new way to implement SOT, probability distributions of the numbers of peaks, singlets, and so on, were computed by Monte Carlo simulation. These distributions contain all theoretical information on peak multiplicity predictable by SOT and were used to evaluate the agreement between experiment and theory. The peak capacity of MEKC was calculated numerically and substituted into the simplest equations in SOT, affirming that peak overlap arises from limited peak capacity.

Chromatography, Micellar Electrokinetic Capillary↗

PubMed2004

17O magnetic resonance imaging of the human brain.

Here we show the first example of in vivo oxygen-17 (17O) magnetic resonance imaging of the human in natural abundance. Two-dimensional fast multi-planar gradient recalled 90 deg echo (FMPGR/90) pulse sequence and three-dimensional projection reconstruction pulse sequence methods were used.

Brain↗

PubMed2003

Dimerization of SOX9 is required for chondrogenesis, but not for sex determination.

The SRY-related SOX9 gene is involved in both chondrogenesis and the early steps of mammalian sex determination. Mutations in the human SOX9 gene cause campomelic dysplasia, a severe skeletal malformation syndrome associated with male-to-female sex reversal in most, but not all, XY individuals. Here we show that SOX9 contains a dimerization domain, and binds co-operatively as a dimer in the presence of the DNA enhancer element in genes involved in chondrocyte differentiation, such as Col11a2 and Col9a2, but binds as a monomer to the regulatory region of the sex-determining gene SF1. Frameshift SOX9 mutations truncate its two activation domains, while all missense mutations reported to date lie in the high mobility group (HMG) DNA-binding domain. We identify a missense mutation (A76E), the first outside the HMG domain, in an XY patient presenting with campomelic dysplasia but without sex reversal. This mutation disrupts the dimerization capability of SOX9, interfering with both the DNA binding and consequent transactivation of both the Col11a2 and Col9a2 enhancers. Consistent with the patient's phenotype, the A76E mutation does not affect DNA binding and activation of the SF1 enhancer. DNA-dependent cooperative dimerization could represent a novel mechanism to achieve tissue-specific regulation of gene expression by a SOX transcription factor. These results establish that SOX9 cooperative dimerization is required for chondrogenesis but not for sex determination and may explain why campomelic dysplasia need not be associated with XY sex reversal.

Bone and Bones↗