Search PubMed⌕ Search

Biomedical subjects

Tao Jiang

Publications and source records attributed to Tao Jiang.

At least 109 records · Page 6Linked to original sources
PubMed2004

[Effect of 103palladium radioactive stent on expression of smooth muscle actin in bile duct during healing process and its significance].

OBJECTIVE: To observe the effect of radiation on the expression of smooth muscle actin (SMA) in the bile duct during the healing process and the inhibitory function of (103)palladium (Pd) radioactive stent on the stricture of bile duct after injury. METHODS: Twelve mongrel dogs were made models of bile duct injury: duodenotomy was performed, a balloon catheter was inserted into the general bile duct and saline with high pressure was perfused thereinto to cause laceration of the mucosa, and then the balloon catheter was withdrawn and ordinary alloy stent or (103)Pd radioactive stent was inserted into the general bile duct. Thirty days after the dogs were killed. Their bile ducts were taken out to undergo HE staining to observe the area of general bile duct, thickness of the tunica intima, area of residual bile duct cavity, stricture degree, and circumference of bile duct. The expression of SMA in the bile duct tissue was detected by immunoistochemistry. RESULTS: SMA was expressed in 5 of the 6 specimens of bile duct in the (103)Pd radioactive stent group and 2 of the 6 specimens of the ordinary stent group (P < 0.01). The maximum thickness of tunica intima of general bile duct was 0.78 mm +/- 0.12 mm in the (103)Pd radioactive stent group, significantly less than that of the ordinary stent group (1.86 mm +/- 0.14 mm, P < 0.01). The percentage of maximum stricture area of the (103)Pd radioactive stent group was 23% +/- 16%, significantly lower that that of the ordinary stent group (56% +/- 22%, P < 0.01). The circumference of bile duct cavity of the (103)Pd radioactive stent group was 9.7 mm +/- 1.6 mm, significantly longer that of the ordinary stent group (7.0 mm +/- 1.4 mm, P < 0.01). CONCLUSION: (103)Pd radioactive stent reduces the expression of SMA in the bile duct during the healing process, thus inhibiting the stricture of bile duct caused by scar contracture at the anastomotic stoma.

Actins↗
PubMed2004

Metal-N-saccharide chemistry: synthesis and structure determination of two Cu(II) complexes containing glycosylamines.

Two new complexes [Cu(N,N',N"-(D-Glc)3-tren)Cl]Cl (1) and [Cu(N,N',N"-(maltose)-tren)]Cl2.H2O (2), have been synthesized and characterized by elementary analysis, and the IR and UV spectra suggest that complex 1 and complex 2 are arranged in trigonal bipyramidal configuration and square-pyramidal configuration, respectively. The crystal structure of complex 1 has been determined by X-ray diffraction as: a = 9.3476(8), b = 17.4236(13), c = 9.7836(8) angstroms, beta = 91.197 degrees, and V = 1593.1(2) Angstroms3, Z = 2, and R = 0.0325, which shows that three secondary amine groups (N-1, N-2, N-3) of the glycosylamine ligand forms the equatorial plane, and the tertiary amine (N-4) and one Cl- are located at the apical positions.

Amines↗
PubMed2004

Genomic segmental polymorphisms in inbred mouse strains.

By analyzing genomic copy-number differences using high-resolution mouse whole-genome BAC arrays, we uncover substantial differences in regional DNA content between inbred strains of mice. The identification of these apparently common segmental polymorphisms suggests that these differences can contribute to genetic variability and pathologic susceptibility.

Animals↗
PubMed2004

A novel method to synthesize polystyrene nanospheres immobilized with silver nanoparticles by using compressed CO2.

In this work, a novel route to synthesize polymer/metal composite nanospheres has been proposed. This method combines the advantages that the polymer chains collapse and entangle in the presence of compressed CO(2), which acts as antisolvent, and the metal nanoparticles and polymers can be precipitated simultaneously from micellar solutions by the easy control of CO(2) pressure. Ag/polystyrene (PS) nanocomposites have been successfully prepared using this method. The transmission electronic micrographs (TEM) of the obtained nanocomposites show that the smaller Ag nanoparticles are immobilized by PS nanospheres of about 50 nm; the phase structure was characterized by X-ray diffraction (XRD). The Ag/PS nanocomposites show absorption properties at a wavelength of approximately 417 nm. The results of X-ray photoelectron spectra (XPS) and FT-IR spectra indicate that there is no chemical linkage or strong interaction between PS and Ag nanoparticles in the resultant products. This method has many potential advantages for applications and may easily be applied to the preparation of a range of inorganic/ polymer composite nanoparticles.

Journal Article↗
PubMed2004

Optical and spectroscopic characteristics of oleate adsorption as revealed by FTIR analysis.

Fourier transform infrared transmission (FTIR/TS), external reflection (FTIR/ERS), and internal reflection (FTIR/IRS) spectroscopies are three important sampling techniques for the study of adsorbed surfactants. The optical and spectral characteristics of a three-phase system were calculated using theoretical simulation and discussed based on experimental results for oleate adsorption at the air/water interface and at the water/fluorite interface. It is shown that a thorough understanding of the optical properties and spectral characteristics from FTIR analysis helps to improve the experimental design and explanation of experimental results and is important to properly quantify surfactant interfacial adsorption phenomena.

Journal Article↗
PubMed2004

Influence of serum collected from rat perfused with compound Biejiaruangan drug on hepatic stellate cells.

AIM: To observe the effect of compound Biejiaruangan decoction (CBJRGC) (composite prescription of Carapax trionycis for softening the liver) on proliferation, activation, excretion of collagen and cytokine of hepatic stellate cells (HSCs) and to find the mechanism of prevention and treatment of hepatic fibrosis by CBJRGC. METHODS: Using MTT, immunohistochemistry and image analysis technology, the related indexes for proliferation, activation, excretion of collagen and cytokine of hepatic stellate cells were detected in 24 h, 48 h, and 72 h after administration of different dosages of CBJRGC. RESULTS: Statistical analysis showed that serum collected from rat perfused with CBJRGC could restrain the proliferation of HSC in 48 h and 72 h especially in high and medium dosage groups, markedly decrease the expression of desmin, synapsin and platelet derived growth factor (PDGF) in HSC in 24 h, 48 h and 72 h, as well as the expression of alpha-SMA, collagen III, TIMP and TGFbeta1 in 48 h and 72 h, decrease the excretion of collagen I in 72 h. CBJRGC serum had no significant effect on collagens I, III and TIMP in 24 h. CONCLUSION: CBJRGC serum has a good curative effect on hepatic fibrosis. Its main mechanism may be related to the following factors. The drug serum can restrain the proliferation and activation of HSC, decrease the number of activated HSC and the total number of HSC, the excretion of collagens I, III, enhance the degradation of collagen and restore the balance of synthesis and degradation of collagen, inhibit the expression of transforming growth factor beta1 (TGFalpha1) and platelet derived growth factor (PDGF) in HSC, block and delay the process of hepatic fibrosis. Synapsin is a new marker of activation of HSC, which provides a theoretical and testing basis for neural regulation in the developing process of hepatic fibrosis.

Actins↗
PubMed2004

Preparation of ZnS/CdS composite nanoparticles by coprecipitation from reverse micelles using CO2 as antisolvent.

The possibility of simultaneously recovering ZnS and CdS particles from reverse micelles by dissolving antisolvent CO2 into the micellar solution was investigated by high-pressure UV-Vis spectra. It was found that all the ZnS and CdS particles in the reverse micelles could be precipitated by compressed CO2 at suitable pressures. The phase structures and morphologies of the obtained composites were characterized by X-ray diffraction and transmission electronic micrographs. The results illustrate that the smaller molar ratio of water to surfactant of the reverse micelles and higher pressure of CO2 are favorable for producing smaller particles. This method has many potential advantages for the production of composite nanoparticles.

Journal Article↗
PubMed2004

Modulation of carbohydrate response element-binding protein gene expression in 3T3-L1 adipocytes and rat adipose tissue.

Carbohydrate response element-binding protein (ChREBP) is a rat homolog of human Williams-Beuren syndrome region 14 and a member of the basic helix-loop-helix leucine zipper transcription factor family. Its activation was found to be inducible by carbohydrate in the liver nuclear extracts from rats fed a high-sucrose diet. ChREBP is able to bind to the carbohydrate response element on the promoter of L-type pyruvate kinase and initiate the gene transcription. The detailed expression profile and transcriptional regulation of the ChREBP gene in adipocytes have not been characterized. In the present study, we provide evidence showing that 1) the ChREBP gene is expressed in differentiated 3T3-L1 adipocytes and rat adipose tissue; 2) insulin, glucose, and the antidiabetic agent troglitazone can significantly upregulate the gene expression of ChREBP in 3T3-L1 adipocytes, whereas free fatty acids suppress its expression in this cell type; 3) fasting followed by refeeding with a high-carbohydrate diet resulted in a 10-fold increase of ChREBP mRNA level in rat adipose tissue; and 4) ChREBP expression in adipose tissue is not significantly affected by the diabetic state. Taken together, the results we present are consistent with the idea that ChREBP is an important modulator of adipocyte biology and that its expression in adipose tissue is subject to combined regulation by glucose and insulin in vivo. The induction of ChREBP may serve as a novel pharmacological pathway for troglitazone-mediated hypoglycemic effects in vivo.

3T3 Cells↗
PubMed2004

Efficient selection of unique and popular oligos for large EST databases.

MOTIVATION: Expressed sequence tag (EST) databases have grown exponentially in recent years and now represent the largest collection of genetic sequences. An important application of these databases is that they contain information useful for the design of gene-specific oligonucleotides (or simply, oligos) that can be used in PCR primer design, microarray experiments and genomic library screening. RESULTS: In this paper, we study two complementary problems concerning the selection of short oligos, e.g. 20-50 bases, from a large database of tens of thousands of ESTs: (i) selection of oligos each of which appears (exactly) in one unigene but does not appear (exactly or approximately) in any other unigene and (ii) selection of oligos that appear (exactly or approximately) in many unigenes. The first problem is called the unique oligo problem and has applications in PCR primer and microarray probe designs, and library screening for gene-rich clones. The second is called the popular oligo problem and is also useful in screening genomic libraries. We present an efficient algorithm to identify all unique oligos in the unigenes and an efficient heuristic algorithm to enumerate the most popular oligos. By taking into account the distribution of the frequencies of the words in the unigene database, the algorithms have been engineered carefully to achieve remarkable running times on regular PCs. Each of the algorithms takes only a couple of hours (on a 1.2 GHz CPU, 1 GB RAM machine) to run on a dataset 28 Mb of barley unigenes from the HarvEST database. We present simulation results on the synthetic data and a preliminary analysis of the barley unigene database. AVAILABILITY: Available on request from the authors.

Algorithms↗
PubMed2004

Enthalpy of solution of 1,4-naphthoquinone in CO2 + n-pentane in the critical region of the binary mixture: mechanism of solubility enhancement.

The enthalpy of solution (Delta(solv)H(m)) and solubility of 1,4-naphthoquinone in CO(2) + n-pentane were measured at 308.15 K in the critical region of the binary fluid. In order to study the effect of phase behavior of the mixed solvent on Delta(solv)H(m), the experiments were carried out in the supercritical (SC) and subcritical region of the binary solvent. The density of the mixed solvent in different conditions was determined. The isothermal compressibility (K(T)) of the mixed solvent, and the partial molar volume (V(n-pentane)) of n-pentane in the solution were calculated. It was demonstrated that the Delta(solv)H(m) was negative in all conditions. Delta(solv)H(m) is nearly independent of pressure or density in all the solvents in a high-density region, in which compressibility of the solvent is very small; this indicates that the intermolecular interaction between the solvent and the solute is similar to that for liquid solutions. It is very interesting that Delta(solv)H(m) in the mixed SC fluid differs from the Delta(solv)H(m) in mixed subcritical fluids. The absolute value of Delta(solv)H(m) in the mixed SC fluid is close to that in pure SC CO(2) in the high-density region, and is much lower than that in pure SC CO(2) in the low-density region. In the mixed subcritical fluids, the Delta(solv)H(m) is also close to that in the pure CO(2) in the high-density region. However, at the same density, the absolute value of Delta(solv)H(m) in the binary subcritical fluid is larger than that in pure CO(2) in the high-compressible region of the mixed solvent. The main reason for this is that the degree of clustering in the SC solutions is small at the density in which the degree of clustering is large in the subcritical solutions. It can be concluded that solubility enhancement by n-pentane in the mixed SC fluid is entropy driven. In contrast, the solubility enhancement by n-pentane in subcritical fluids is enthalpy driven. The intermolecular interaction in the SC solutions and subcritical solutions can be significantly different even if their densities are the same.

Carbon Dioxide↗
PubMed2004

Conformational changes in the reaction of pyridoxal kinase.

To understand the processes involved in the catalytic mechanism of pyridoxal kinase (PLK),1 we determined the crystal structures of PLK.AMP-PCP-pyridoxamine, PLK.ADP.PLP, and PLK.ADP complexes. Comparisons of these structures have revealed that PLK exhibits different conformations during its catalytic process. After the binding of AMP-PCP (an analogue that replaced ATP) and pyridoxamine to PLK, this enzyme retains a conformation similar to that of the PLK.ATP complex. The distance between the reacting groups of the two substrates is 5.8 A apart, indicating that the position of ATP is not favorable to spontaneous transfer of its phosphate group. However, the structure of PLK.ADP.PLP complex exhibited significant changes in both the conformation of the enzyme and the location of the ligands at the active site. Therefore, it appears that after binding of both substrates, the enzyme-substrate complex requires changes in the protein structure to enable the transfer of the phosphate group from ATP to vitamin B(6). Furthermore, a conformation of the enzyme-substrate complex before the transition state of the enzymatic reaction was also hypothesized.

Adenosine Diphosphate↗
PubMed2004

Crystal structure of KD93, a novel protein expressed in human hematopoietic stem/progenitor cells.

The crystal structure of a novel hypothetical protein, KD93, expressed in human hematopoietic stem/progenitor cells, was determined at 1.9A resolution using the multiple-wavelength anomalous dispersion (MAD) method. The protein KD93, which is encoded by the open reading frame HSPC031, is a NIP7 homologue and belongs to the UPF0113 family. The structural and functional information for the group of homologues has not yet been determined. Crystallographic analysis revealed that the overall fold of KD93 consists of two interlinked alpha/beta domains. Structure-based homology analysis with DALI revealed that the C domain of KD93 matches the PUA domain of some RNA modification enzymes, especially that of archaeosine tRNA-ribosyltransferase (ArcTGT), which suggests that its possible molecular function is related to RNA binding. The difference between the RNA binding regions of KD93 and ArcTGT in amino acid constitution and surface electrostatic potential indicate that they may have different RNA binding modes. The N domain of KD93 is a unique structure with no obvious similarity to other proteins with known three-dimensional structures. The high-resolution structure of KD93 provides a first view of a member of the family of hypothetical proteins. And the structure provides a framework to deduce and assay the molecular function of other proteins of the UPF0113 family.

Crystallography, X-Ray↗
PubMed2004

Tautomeric equilibrium of ethyl acetoacetate in compressed CO2 + ethanol and CO2 + methanol mixtures.

Tautomerism equilibrium of ethyl acetoacetate (EAA) in compressed CO2 + methanol and CO2 + ethanol mixtures was studied by UV-Vis spectroscopy at 308.15 K and different pressures. The volume expansion coefficient (alpha) of the solvents at different pressures was also determined. The relative permittivity (epsilon) of CO2 + methanol and CO2 + ethanol mixtures at different conditions was calculated using the Kc and Onsager solvent parameter. The equilibrium constant (Kc) of EAA in the binary mixtures increases considerably with increasing pressure or volume expansion coefficient. The relative permittivity or the polarity of the binary mixtures decreases sharply with increasing volume expansion coefficient in the range of 0 < alpha < 1.5. However, as the volume expansion coefficient exceeds 1.5, the relative permittivity decreases slowly. In other words, the dissolution of CO2 in the polar solvents can reduce the polarity of the solvents significantly in the low volume expansion coefficient range, and the polarity of the solution is not sensitive to the volume expansion coefficient as its value is large enough. The difference in polarity of the two solvents reduces with increasing pressure and becomes negligible after volume expansion coefficient exceeds about 2.5.

Acetoacetates↗
PubMed2004

Clustering binary fingerprint vectors with missing values for DNA array data analysis.

Oligonucleotide fingerprinting is a powerful DNA array-based method to characterize cDNA and ribosomal RNA gene (rDNA) libraries and has many applications including gene expression profiling and DNA clone classification. We are especially interested in the latter application. A key step in the method is the cluster analysis of fingerprint data obtained from DNA array hybridization experiments. Most of the existing approaches to clustering use (normalized) real intensity values and thus do not treat positive and negative hybridization signals equally (positive signals are much more emphasized). In this paper, we consider a discrete approach. Fingerprint data are first normalized and binarized using control DNA clones. Because there may exist unresolved (or missing) values in this binarization process, we formulate the clustering of (binary) oligonucleotide fingerprints as a combinatorial optimization problem that attempts to identify clusters and resolve the missing values in the fingerprints simultaneously. We study the computational complexity of this clustering problem and a natural parameterized version and present an efficient greedy algorithm based on MINIMUM CLIQUE PARTITION on graphs. The algorithm takes advantage of some unique properties of the graphs considered here, which allow us to efficiently find the maximum cliques as well as some special maximal cliques. Our preliminary experimental results on simulated and real data demonstrate that the algorithm runs faster and performs better than some popular hierarchical and graph-based clustering methods. The results on real data from DNA clone classification also suggest that this discrete approach is more accurate than clustering methods based on real intensity values in terms of separating clones that have different characteristics with respect to the given oligonucleotide probes.

Algorithms↗
PubMed2004

Evolutionary dynamics of the DNA-binding domains in putative R2R3-MYB genes identified from rice subspecies indica and japonica genomes.

The molecular evolution of the R2R3-MYB gene family is of great interest because it is one of the most important transcription factor gene families in the plant kingdom. Comparative analyses of a gene family may reveal important adaptive changes at the protein level and thereby provide insights that relate structure to function. We have performed a range of comparative and bioinformatics analyses on R2R3-MYB genes identified from the rice (Oryza sativa subsp. japonica and indica) and Arabidopsis genome sequences. The study provides an initial framework to investigate how different evolutionary lineages in a gene family evolve new functions. Our results reveal a remarkable excess of non-synonymous substitutions, an indication of adaptive selection on protein structure that occurred during the evolution of both helix1 and helix2 of rice R2R3-MYB DNA-binding domains. These flexible alpha-helix regions associated with high frequencies of excess non-synonymous substitutions may play critical roles in the characteristic packing of R2R3-MYB DNA-binding domains and thereby modify the protein-DNA interaction process resulting in the recognition of novel DNA-binding sites. Furthermore, a co-evolutionary pattern is found between the second alpha-helix of the R2 domain and the second alpha-helix of the R3 domain by examining all the possible alpha-helix pairings in both the R2 and R3 domains. This points to the functional importance of pairing interactions between related secondary structures.

Amino Acid Sequence↗
PubMed2004

Minimum entropy clustering and applications to gene expression analysis.

Clustering is a common methodology for analyzing the gene expression data. In this paper, we present a new clustering algorithm from an information-theoretic point of view. First, we propose the minimum entropy (measured on a posteriori probabilities) criterion, which is the conditional entropy of clusters given the observations. Fano's inequality indicates that it could be a good criterion for clustering. We generalize the criterion by replacing Shannon's entropy with Havrda-Charvat's structural alpha-entropy. Interestingly, the minimum entropy criterion based on structural alpha-entropy is equal to the probability error of the nearest neighbor method when alpha = 2. This is another evidence that the proposed criterion is good for clustering. With a non-parametric approach for estimating a posteriori probabilities, an efficient iterative algorithm is then established to minimize the entropy. The experimental results show that the clustering algorithm performs significantly better than k-means/medians, hierarchical clustering, SOM, and EM in terms of adjusted Rand index. Particularly, our algorithm performs very well even when the correct number of clusters is unknown. In addition, most clustering algorithms produce poor partitions in presence of outliers while our method can correctly reveal the structure of data and effectively identify outliers simultaneously.

Algorithms↗