Biomedical subjects

Ge Wang

Publications and source records attributed to Ge Wang.

At least 37 records · Page 2Linked to original sources

PubMed2006

[Effects of specific microbial biocides on N transformation in soil with glucose amendment].

In an incubation test of soil with glucose amendment, two kinds of nitrogenous fertilizer and three kinds of specific microbial biocides were applied, and the contents of soil NH(4+)-N, NO3(-)-N, glucosamine and muramic acid were measured to differentiate the relative contribution and timing characteristics of soil microbes in nitrogen immobilization. The results showed that penicillin and streptomycin decreased the transformation rate of NH(4+)-N markedly, with more significant effects than actidione. The amount ratio of glucosamine to muramic acid after applying penicillin and streptomycin rapidly increased first, and tended to equilibrium then. With the application of actidione, the transformation rate of NO3(-)-N decreased continuously, and the synthesis of glucosamine was inhibited, while penicillin and streptomycin had no significant effects on them. At the early stage of incubation, bacteria could rapidly immobilize both NH(4+)-N and NO3(-)-N, with NH(4+)-N preferred, while at the later stage of incubation, fungi were the dominant contributor to nitrogen transformation, and had much stronger ability of utilizing NO3(-)-N than bacteria.

Anti-Bacterial Agents↗

PubMed2006

[Soil carbohydrates: their determination methods and indication functions].

Soil carbohydrates are the important component of soil organic matter, and play an important role in soil aggregation formation. Their hydrolysis methods involve sulfur acid (H2SO4), hydrochloric acid (HCl), and trifluoroacetic acid (TFA) hydrolysis, and their determination methods include colorimetry, gas-liquid chromatography (GLC) , high performance liquid chromatography (HPLC), and high performance anion-exchange chromatography with pulsed amperometric detection (HPAE-PAD). This paper summarized the methods of carbohydrates' hydrolysis, purification and detection, with focus on the derived methods of GLC, and briefly introduced the indication functions of carbohydrates in soil organic matter turnover.

Carbohydrates↗

PubMed2005

General formula for fan-beam computed tomography.

In this Letter, we derive a general reconstruction formula for fan-beam computed tomography (CT) utilizing the two-dimensional Dirac function, which is useful in CT imaging for moving objects.

Algorithms↗

PubMed2005

A differentiable Shepp-Logan phantom and its applications in exact cone-beam CT.

Recently, several exact cone-beam reconstruction algorithms, such as the generalized filtered-backprojection (FBP) and backprojection-filtration (BPF) methods, have been developed to solve the long object problem. Although the well-known 3D Shepp-Logan phantom (SLP) is often used to validate these algorithms, it is deficient due to the discontinuity of the SLP. In this paper, we first construct a differentiable polynomial function to approximate the unit rectangular function on [-1, 1]. Then, we use this function to obtain a differentiable ellipsoid phantom, whose x-ray transform is differentiable for any smooth scanning trajectory. Finally, we propose a differentiable Shepp-Logan phantom (DSLP) for numerical simulation of the exact cone-beam CT algorithms. Our numerical simulation shows that the reconstructed DSLP has a better image quality than the reconstructed SLP, and is complementary to the traditional SLP for evaluation of the exact cone-beam CT algorithms.

Algorithms↗

PubMed2005

Computational optical biopsy.

Optical molecular imaging is based on fluorescence or bioluminescence, and hindered by photon scattering in the tissue, especially in patient studies. Here we propose a computational optical biopsy (COB) approach to localize and quantify a light source deep inside a subject. In contrast to existing optical biopsy techniques, our scheme is to collect optical signals directly from a region of interest along one or multiple biopsy paths in a subject, and then compute features of an underlying light source distribution. In this paper, we formulate this inverse problem in the framework of diffusion approximation, demonstrate the solution uniqueness properties in two representative configurations, and obtain analytic solutions for reconstruction of both optical properties and source parameters.

Algorithms↗

PubMed2005

A backprojection-filtration algorithm for nonstandard spiral cone-beam CT with an n-PI-window.

For applications in bolus-chasing computed tomography (CT) angiography and electron-beam micro-CT, the backprojection-filtration (BPF) formula developed by Zou and Pan was recently generalized by Ye et al to reconstruct images from cone-beam data collected along a rather flexible scanning locus, including a nonstandard spiral. A major implication of the generalized BPF formula is that it can be applied for n-PI-window-based reconstruction in the nonstandard spiral scanning case. In this paper, we design an n-PI-window-based BPF algorithm, and report the numerical simulation results with the 3D Shepp-Logan phantom and Defrise disk phantom. The proposed BPF algorithm consists of three steps: cone-beam data differentiation, weighted backprojection and inverse Hilbert filtration. Our simulated results demonstrate the feasibility and merits of the proposed algorithm.

Algorithms↗

PubMed2005

Preparation and bactericidal property of MgO nanoparticles on gamma-Al2O3.

After being impregnated in the solution containing Mg(NO3)2 x 6H2O, gamma-Al2O3 was dried and calcined at 500 degrees C which results in the production of a bactericide, highly dispersed MgO loaded on the surface of gamma-Al2O3. The threshold value of the monolayer dispersion of MgO on gamma-Al2O3 is 14.97%, and MgO crystal formed when the load amount beyond this value. The samples with different load amount were characterized by X-ray Diffraction (XRD), Low-temperature N2 adsorption-desorption, Inductively Coupled Plasma (ICP) and High Resolution Scan Electronic Microscope (SEM). The results showed that these MgO microcrystals are highly dispersed and have regular size in the range of 4 to 10.8 nm. The specific surface, pore volume and pore size of the sample decreases with the increase of load amount. It is demonstrated that gamma-Al2O3 with highly dispersed MgO on the surface is efficient bactericide, and the one with 20% load amount of MgO can kill more than 99% bacteria and spore cells.

Aluminum Oxide↗

PubMed2005

Design, analysis and simulation for development of the first clinical micro-CT scanner.

In this article, we propose to develop the first clinical micro-CT (CMCT) system for human temporal bone imaging in vivo. This CMCT system consists of medical CT and micro-CT scanners either as separate components or in a combination, a cross-modality registration mechanism such as a facial surface scanner, and associated software. This system integrates the strengths of state-of-the-art medical CT and micro-CT techniques to achieve a spatial resolution that is much higher than currently available for inner ear imaging at acceptable dose levels. Our design, analysis, and simulation results demonstrate that the CMCT system is feasible for inner ear imaging and other clinical applications. For example, the CMCT system has the potential to improve the safety of guiding cochlear implant electrodes within the inner ear and assist the placement of inner ear microcatheters for delivery of gene modification therapy or administration of neurotrophic factors. Imaging of microarchitectures of the cancellous bone would be also an important application.

Animals↗

PubMed2005

Oxidative stress defense mechanisms to counter iron-promoted DNA damage in Helicobacter pylori.

Iron, a key element in Fenton chemistry, causes oxygen-related toxicity to cells of most living organisms. Helicobacter pylori is a microaerophilic bacterium that infects human gastric mucosa and causes a series of gastric diseases. Exposure of H. pylori cells to air for 2 h elevated the level of free iron by about 4-fold as measured by electron paramagnetic resonance spectroscopy. H. pylori cells accumulated more free iron as they approached stationary phase growth, and they concomitantly suffered more DNA damage as indicated by DNA fragmentation analysis. Relationships between the intracellular free iron level, specific oxidative stress enzymes, and DNA damage were identified, and new roles for three oxidative stress-combating enzymes in H. pylori are proposed. Mutant cells defective in either catalase (KatA), in superoxide dismutase (SodB) or in alkyl hydroperoxide reductase (AhpC) were more sensitive to oxidative stress conditions; and they accumulated more free (toxic) iron; and they suffered more DNA fragmentation compared to wild type cells. A significant proportion of cells of sodB, ahpC, or katA mutant strains developed into the stress-induced coccoid form or lysed; they also contained significantly higher amounts of 8-oxo-guanine associated with their DNA, compared to wild type cells.

Air↗

PubMed2005

Up-expression of NapA and other oxidative stress proteins is a compensatory response to loss of major Helicobacter pylori stress resistance factors.

Twenty-six Helicobacter pylori targeted mutant strains with deficiencies in oxidative stress combating proteins, including 12 double mutant strains were analyzed via physiological and proteomic approaches to distinguish the major expression changes caused by the mutations. Mutations were introduced into both a Mtz(S) and a Mtz(R) strain background. Most of the mutations caused increased growth sensitivity of the strains to oxygen, and they all exhibited clear compensatory up-expression of oxidative stress resistance proteins enabling survival of the bacterium. The most frequent up-expressed oxidative stress resistance factor (observed in 16 of the mutants) was the iron-sequestering protein NapA, linking iron sequestration with oxidative stress resistance. The up-expression of individual proteins in mutants ranged from 2 to 10 fold that of the wild type strain, even when incubated in a low O(2) environment. For example, a considerably higher level of catalase expression (4 fold of that in the wild-type strain) was observed in ahpC napA and ahpC sodB double mutants. A Fur mutant up-expressed ferritin (Pfr) protein 20-fold. In some mutant strains the bacterial DNA is protected from oxidative stress damage apparently via overexpression of oxidative stress-combating proteins such as NapA, catalase or MdaB (an NADPH quinone reductase). Our results show that H. pylori has a variety of ways to compensate for loss of major oxidative stress combating factors.

Acid Phosphatase↗

PubMed2005

A general exact reconstruction for cone-beam CT via backprojection-filtration.

In this paper, we prove a generalized backprojection-filtration formula for exact cone-beam image reconstruction with an arbitrary scanning locus. Our proof is independent of the shape of the scanning locus, as long as the object is contained in a region where there is a chord through any interior point. As special cases, this generalized formula can be applied with cone-beam scanning along nonstandard spiral and saddle curves, as well as in an n-PI window setting. The algorithmic implementation and numerical results are described to support the correctness of our general claim.

Algorithms↗

PubMed2005

Tomography-based 3-D anisotropic elastography using boundary measurements.

While ultrasound- and magnetic resonance-based elastography techniques have proved to be powerful biomedical imaging tools, most approaches assume isotropic material properties. In this paper, a general framework is developed for tomography-based anisotropic elastography. An anatomically well-motivated piece-wise homogeneous model is proposed to represent a class of biological objects consisting of different regions. With established tomography modality, static displacements are measured on the entire external and internal boundaries, and the force distribution is recorded on part of the external surface. A principle is proposed to identify the anisotropic elastic moduli of the constituent regions with the obtained boundary measurements. The reconstruction procedure is optimization-based with minimizing an objective function that measures the difference between the predicted and observed displacements. Analytic gradients of the objective function with respect to the elastic moduli are calculated using an adjoint method, and are utilized to significantly improve the numerical efficiency. Simulations are performed to identify the elastic moduli in a breast phantom consisting of soft tissue and a hard tumor. For isotropic phantom, one set of the boundary measurements enables unique reconstruction results for the tissue and tumor. For anisotropic phantom, however, multiple sets of the measurements corresponding to different deformation modes become necessary.

Algorithms↗

PubMed2005

The Helicobacter pylori MutS protein confers protection from oxidative DNA damage.

The human gastric pathogenic bacterium Helicobacter pylori lacks a MutSLH-like DNA mismatch repair system. Here, we have investigated the functional roles of a mutS homologue found in H. pylori, and show that it plays an important physiological role in repairing oxidative DNA damage. H. pylori mutS mutants are more sensitive than wild-type cells to oxidative stress induced by agents such as H2O2, paraquat or oxygen. Exposure of mutS cells to oxidative stress results in a significant ( approximately 10-fold) elevation of mutagenesis. Strikingly, most mutations in mutS cells under oxidative stress condition are G:C to T:A transversions, a signature of 8-oxoguanine (8-oxoG). Purified H. pylori MutS protein binds with a high specific affinity to double-stranded DNA (dsDNA) containing 8-oxoG as well as to DNA Holliday junction structures, but only weakly to dsDNA containing a G:A mismatch. Under oxidative stress conditions, mutS cells accumulate higher levels (approximately threefold) of 8-oxoG DNA lesions than wild-type cells. Finally, we observe that mutS mutant cells have reduced colonization capacity in comparison to wild-type cells in a mouse infection model.

Animals↗

PubMed2005

Filtered backprojection formula for exact image reconstruction from cone-beam data along a general scanning curve.

Recently, Katsevich proved a filtered backprojection formula for exact image reconstruction from cone-beam data along a helical scanning locus, which is an important breakthrough since 1991 when the spiral cone-beam scanning mode was proposed. In this paper, we prove a generalized Katsevich's formula for exact image reconstruction from cone-beam data collected along a rather flexible curve. We will also give a general condition on filtering directions. Based on this condition, we suggest a natural choice of filtering directions, which is more convenient than Katsevich's choice and can be applied to general scanning curves. In the derivation, we use analytical techniques instead of geometric arguments. As a result, we do not need the uniqueness of the PI lines. In fact, our formula can be used to reconstruct images on any chord as long as a scanning curve runs from one endpoint of the chord to the other endpoint. This can be considered as a generalization of Orlov's classical theorem. Specifically, our formula can be applied to (i) nonstandard spirals of variable radii and pitches (with PI- or n-PI-windows), and (ii) saddlelike curves.

Algorithms↗

PubMed2005

A unified framework for exact cone-beam reconstruction formulas.

In this paper, we present concise proofs of several recently developed exact cone-beam reconstruction methods in the Tuy inversion framework, including both filtered-backprojection and backprojection-filtration formulas in the cases of standard spiral, nonstandard spiral, and more general scanning loci. While a similar proof of the Katsevich formula was previously reported, we present a new proof of the Zou and Pan backprojection-filtration formula. Our proof combines both odd and even data extensions so that only the cone-beam transform itself is utilized in the backprojection-filtration inversion. More importantly, our formulation is valid for general smooth scanning curves, in agreement with an earlier paper from our group [Ye, Zhao, Yu, and Wang, Proc. SPIE 5535, 293-300 (Aug. 6 2004)]. As a consequence of that proof, we obtain a new inversion formula, which is in a two-dimensional filtering backprojection format. A possibility for generalization of the Katsevich filtered-backprojection reconstruction method is also discussed from the viewpoint of this framework.

Algorithms↗

PubMed2005

PI-line-based image reconstruction in helical cone-beam computed tomography with a variable pitch.

Current applications of helical cone-beam computed tomography (CT) involve primarily a constant pitch where the translating speed of the table and the rotation speed of the source-detector remain constant. However, situations do exist where it may be more desirable to use a helical scan with a variable translating speed of the table, leading a variable pitch. One of such applications could arise in helical cone-beam CT fluoroscopy for the determination of vascular structures through real-time imaging of contrast bolus arrival. Most of the existing reconstruction algorithms have been developed only for helical cone-beam CT with constant pitch, including the backprojection-filtration (BPF) and filtered-backprojection (FBP) algorithms that we proposed previously. It is possible to generalize some of these algorithms to reconstruct images exactly for helical cone-beam CT with a variable pitch. In this work, we generalize our BPF and FBP algorithms to reconstruct images directly from data acquired in helical cone-beam CT with a variable pitch. We have also performed a preliminary numerical study to demonstrate and verify the generalization of the two algorithms. The results of the study confirm that our generalized BPF and FBP algorithms can yield exact reconstruction in helical cone-beam CT with a variable pitch. It should be pointed out that our generalized BPF algorithm is the only algorithm that is capable of reconstructing exactly region-of-interest image from data containing transverse truncations.

Algorithms↗

PubMed2005

Computed tomography simulation with superquadrics.

Accurate and efficient simulation of an x-ray transform for representative structures plays an important role in research and development of x-ray CT, for the evaluation and improvement of CT image reconstruction algorithms, in particular. Superquadrics are a family of three-dimensional objects, which can be used to model a variety of anatomical structures. In this paper, we propose an algorithm for the computation of x-ray transforms for superellipsoids and tori with a monochromatic x-ray. Their usefulness is demonstrated by projection and reconstruction of a superquadric-based thorax phantom. Our work indicates that superquadric modeling provides a more realistic visualization than quadratic modeling, and a faster computation than spline methods.

Algorithms↗

PubMed2005

Exact BPF and FBP algorithms for nonstandard saddle curves.

A hot topic in cone-beam CT research is exact cone-beam reconstruction from a general scanning trajectory. Particularly, a nonstandard saddle curve attracts attention, as this construct allows the continuous periodic scanning of a volume-of-interest (VOI). Here we evaluate two algorithms for reconstruction from data collected along a nonstandard saddle curve, which are in the filtered backprojection (FBP) and backprojection filtration (BPF) formats, respectively. Both the algorithms are implemented in a chord-based coordinate system. Then, a rebinning procedure is utilized to transform the reconstructed results into the natural coordinate system. The simulation results demonstrate that the FBP algorithm produces better image quality than the BPF algorithm, while both the algorithms exhibit similar noise characteristics.

Algorithms↗