Biomedical subjects

Y J Hu

Publications and source records attributed to Y J Hu.

At least 19 recordsLinked to original sources

PubMed2006

IR plus vacuum ultraviolet spectroscopy of neutral and ionic organic acid molecules and clusters: acetic acid.

Infrared (IR) vibrational spectroscopy of acetic acid (A) neutral and ionic monomers and clusters, employing vacuum ultraviolet (VUV), 10.5 eV single photon ionization of supersonically expanded and cooled acetic acid samples, is presented and discussed. Molecular and cluster species are identified by time of flight mass spectroscopy: the major mass features observed are A(n)H(+) (n=1-9), ACOOH(+) (VUV ionization) without IR radiation present, and A(+) with both IR and VUV radiation present. The intense feature ACOOH(+) arises from the cleavage of (A)(2) at the beta-CC bond to generate ACOOH(+)+CH(3) following ionization. The vibrational spectrum of monomeric acetic acid (2500-7500 cm(-1)) is measured by nonresonant ionization detected infrared (NRID-IR) spectroscopy. The fundamentals and overtones of the CH and OH stretches and some combination bands are identified in the spectrum. Mass selected IR spectra of neutral and cationic acetic acid clusters are measured in the 2500-3800 cm(-1) range employing nonresonant ionization dip-IR and IR photodissociation (IRPD) spectroscopies, respectively. Characteristic bands observed at approximately 2500-2900 cm(-1) for the cyclic ring dimer are identified and tentatively assigned. For large neutral acetic acid clusters A(n)(n>2), spectra display only hydrogen bonded OH stretch features, while the CH modes (2500-2900 cm(-1)) do not change with cluster size n. The IRPD spectra of protonated (cationic) acetic acid clusters A(n)H(+) (n=1-7) exhibit a blueshift of the free OH stretch with increasing n. These bands finally disappear for n> or =6, and one broad and weak band due to hydrogen bonded OH stretch vibrations at approximately 3350 cm(-1) is detected. These results indicate that at least one OH group is not involved in the hydrogen bonding network for the smaller (n< or =5) A(n)H(+) species. The disappearance of the free OH stretch feature at n> or =6 suggests that closed cyclic structures form for A(n)H(+) for the larger clusters (n> or =6).

Acetic Acid↗

PubMed2006

IR plus vacuum ultraviolet spectroscopy of neutral and ionic organic acid monomers and clusters: propanoic acid.

The vibrational spectrum of molecular propanoic acid, cooled in a supersonic expansion, in the region of 2500 to 7500 cm(-1) is obtained employing infrared plus vacuum ultraviolet nonresonant ionization detected spectroscopy. The fundamental and first overtone of the CH and OH stretch modes of cold propanoic acid molecules can be identified in the spectrum. Propanoic acid neutral and ionic clusters are also studied employing nonresonant ion dip and photodissociation spectroscopic techniques, respectively. For the neutral dimer, a sequence of features observed at ca. 2500-2700 cm(-1) can be assigned as combination bands of low frequency modes with the COH bending overtone; these features characterize the cyclic dimer ring structure. IR spectra of the larger neutral clusters n=3, 4, 5 indicate that they also have cyclic structures in which the OH groups are engaged in the cluster hydrogen bonding network. The CH groups are not involved in this hydrogen bonding structure. Free OH features are observed for the protonated ion clusters (C(2)H(5)COOH)(n)H(+), n=1,...,5, indicating that at least one OH group of these cluster ions is not involved in the cluster hydrogen bonding network. A comparison of the results for four hydrogen bonding neutral and ionic clusters (CH(3)OH, C(2)H(5)OH, CH(3)COOH, and C(2)H(5)COOH) is presented and discussed.

Propionates↗

PubMed2006

Infrared plus vacuum ultraviolet spectroscopy of neutral and ionic ethanol monomers and clusters.

A high sensitivity spectroscopy is employed to detect vibrational antiitions of ethanol neutrals and ions in a supersonic expansion. The infrared (IR) features located at 3682 and 3667 cm(-1) can be assigned to the OH stretch for the two neutral C(2)H(5)OH conformers, anti and gauche, respectively. Their overtone energies located at 7179 (anti) and 7141 (gauche) cm(-1) are also identified. The OH fundamental stretch for ethanol ions is redshifted around 210 cm(-1), while the CH stretch modes are unchanged for neutral and ionic C(2)H(5)OH at around 2900-3000 cm(-1). The charge on the ethanol ion is apparently localized on the oxygen atom. IR induced photodissociation spectroscopy is applied to the study of neutral and protonated ethanol clusters. Neutral and protonated ethanol cluster vibrations are observed. The CH modes are not perturbed by the clustering process. Neutral clusters display only hydrogen bonded OH features, while the protonated ionic clusters display both hydrogen bonded and non-hydrogen-bonded features. These spectroscopic results are analyzed to obtain qualitative structural information on neutral and ionic ethanol clusters.

Ethanol↗

PubMed2006

Infrared plus vacuum ultraviolet spectroscopy of neutral and ionic methanol monomers and clusters: new experimental results.

We present new observations of the infrared (IR) spectrum of neutral methanol and neutral and protonated methanol clusters employing IR plus vacuum ultraviolet (vuv) spectroscopic techniques. The tunable IR light covers the energy ranges of 2500-4500 cm(-1) and 5000-7500 cm(-1). The CH and OH fundamental stretch modes, the OH overtone mode, and combination bands are identified in the vibrational spectrum of supersonic expansion cooled methanol (2500-7500 cm(-1)). Cluster size selected IR plus vuv nonresonant infrared ion-dip infrared spectra of neutral methanol clusters, (CH(3)OH)(n) (n=2,[ellipsis (horizontal)],8), demonstrate that the methanol dimer has free and bonded OH stretch features, while clusters larger than the dimer display only hydrogen bonded OH stretch features. CH stretch mode spectra do not change with cluster size. These results suggest that all clusters larger than the dimer have a cyclic structure with OH groups involved in hydrogen bonding. CH groups are apparently not part of this cyclic binding network. Studies of protonated methanol cluster ions (CH(3)OH)(n)H(+) n=1,[ellipsis (horizontal)],7 are performed by size selected vuv plus IR photodissociation spectroscopy in the OH and CH stretch regions. Energies of the free and hydrogen bonded OH stretches exhibit blueshifts with increasing n, and these two modes converge to approximately 3670 and 3400 cm(-1) at cluster size n=7, respectively.

Journal Article↗

PubMed2006

Generation and detection of alkyl peroxy radicals in a supersonic jet expansion.

Alkyl peroxy radicals are synthesized in a supersonic jet expansion by the initial production of alkyl radicals and subsequent reaction with molecular oxygen. Parent ions CH3OO+/CD3OO+ are observed employing vacuum ultraviolet (VUV) single photon ionizationtime-of-flight mass spectroscopy (TOFMS). Employing infrared (IR) + VUV photofragmentation detected spectroscopy, rotationally resolved infrared spectra of jet-cooled CH3OO and CD3OO radicals are recorded for the A 2A' <-- X 2A" transition by scanning the IR laser frequency while monitoring the CH3 + and CD3 + ion signals generated by the VUV laser. The band origins of the A 2A'<--X 2A" transition for CH3OO and CD3OO are identified at 7381 and 7371 cm(-1), respectively. Rotational simulation for the CH3OO and CD3OO 0(0) 0 transitions of A<--X yields a rotational temperature for these radicals of approximately 30 K. With the aid of ab initio calculations, two and five vibrational modes for the A 2A' excited electronic state are assigned for CH3OO and CD3OO radicals, respectively. Both experimental and theoretical results suggest that the ground electronic state of the ions of ethyl and propyl peroxy radicals are not stable although their ionization energies (IE) are less than 10.5 eV. The C2H5OO+/C3H7OO+ cations can readily decompose to C2H5 +/C3H7 + and O2. This is partially responsible for the inability of IR+VUV photofragmentation spectroscopy to detect the near IR A<--X electronic transition for these radicals.

Journal Article↗

PubMed2006

Vibronic spectroscopy of the peroxyacetyl radical in the near IR.

The A 2A'<--X 2A" electronic transition of the peroxyacetyl radical (PA) is observed employing NIR/VUV ion enhancement, supersonic jet spectroscopy. Rotational envelope simulations yield a rotational temperature for ground state PA of ca. 55 K. Ab initio calculations of transition energies and vibrational frequencies for the A<--X transition assist in the assignment of the observed spectrum. A number of the vibrational modes of the A state are assigned to observed transitions (the O-O stretch 2(1), the COO bend 5(1), and the CCOO backbone bend 6(1)). The calculations and mass spectra suggest that the ground state of the PA ion is repulsive. An increase in rotational linewidth of the overtone of the O-O stretch (2(1)) is observed and discussed in terms of A state dynamics. The O-O stretch anharmonicity is estimated to be 13.35 cm(-1).

Journal Article↗

PubMed2006

Generation and detection of the peroxyacetyl radical in the pyrolysis of peroxyacetyl nitrate in a supersonic expansion.

The peroxyacetyl radical (PA, CH3C(O)OO) is generated by flash pyrolysis of peroxyacetyl nitrate (PAN, CH3C(O)OONO2) in a supersonic jet. The 0(0)(0) A2A' <-- X2A'' electronic transition for PA, at ca. 5582 cm(-1), is detected in a supersonically cooled sample by time-of-flight mass spectroscopy in the CH3CO mass channel. Rotational envelope simulation results find that the rotational temperature for PA in its ground electronic and vibrational state is ca. 55 K. At ca. 330 degrees C, the thermal decomposition of PAN by flash pyrolysis in a heated nozzle with supersonic expansion is mainly by formation of PA and NO2. The maximum yield of PA is obtained at this temperature. At higher temperatures (300-550 degrees C), an intense signal in the CH2CO+ mass channel is observed, generated by the decomposition of PA.

Journal Article↗

PubMed2006

IR+vacuum ultraviolet (118 nm) nonresonant ionization spectroscopy of methanol monomers and clusters: neutral cluster distribution and size-specific detection of the OH stretch vibrations.

Small methanol clusters are formed by expanding a mixture of methanol vapor seeded in helium and are detected using vacuum UV (vuv) (118 nm) single-photon ionization/linear time-of-flight mass spectrometer (TOFMS). Protonated cluster ions, (CH3OH)(n-1)H+ (n=2-8), formed through intracluster ion-molecule reactions following ionization, essentially correlate to the neutral clusters, (CH3OH)n, in the present study using 118 nm light as the ionization source. Both experimental and Born-Haber calculational results clarify that not enough excess energy is released into protonated cluster ions to initiate further fragmentation in the time scale appropriate for linear TOFMS. Size-specific spectra for (CH3OH)n (n=4 to 8) clusters in the OH stretch fundamental region are recorded by IR+vuv (118 nm) nonresonant ion-dip spectroscopy through the detection chain of IR multiphoton predissociation and subsequent vuv single-photon ionization. The general structures and gross features of these cluster spectra are consistent with previous theoretical calculations. The lowest-energy peak contributed to each cluster spectrum is redshifted with increasing cluster size from n=4 to 8, and limits near approximately 3220 cm(-1) in the heptamer and octamer. Moreover, IR+vuv nonresonant ionization detected spectroscopy is employed to study the OH stretch first overtone of the methanol monomer. The rotational temperature of the clusters is estimated to be at least 50 K based on the simulation of the monomer rotational envelope under clustering conditions.

Journal Article↗

PubMed2005

IR/UV double resonant spectroscopy of the methyl radical: determination of nu3 in the 3p(z) Rydberg state.

IR+UV double resonant ion-dip and ion-enhancement spectroscopies are employed to study the nu3 asymmetric CH stretch vibration fundamental of CH3 in the ground and 3p(z) Rydberg electronic states. CH3 radical is synthesized in the supersonic jet expansion by flash pyrolysis of azomethane (CH3NNCH3) prior to the expansion. The Q band of the 3(1) (1) 3p(z)<--X transition of CH3, not detected by conventional UV resonantly enhanced multiphoton ionization (REMPI) spectroscopy, is determined to lie at 59,898 cm(-1) using IR+UV REMPI spectroscopy. Energy of the asymmetric CH stretch of CH3 in the 3p(z) Rydberg state, nu3(3p(z)), is 3087 cm(-1), redshifted by approximately 74 cm(-1) with respect to ground state nu3(X).

Journal Article↗

PubMed2004

Survey of intestinal parasites in pigs from intensive farms in Guangdong Province, People's Republic of China.

The prevalence of intestinal parasites was investigated in intensive pig farms in Guangdong Province, China between July 2000 and July 2002. Faecal samples from 3636 pigs (both sexes and five age groups) from 38 representative intensive pig farms employing different parasite control strategies were examined for the presence of helminth ova and protozoan oocysts, cysts and/or trophozoites using standard techniques. Of the 3636 pigs sampled, 209 (5.7%) were infected with Trichuris suis, 189 (5.2%) with Ascaris, 91 (2.5%) with Oesophagostomum spp., 905 (24.9%) with coccidia (Eimeria spp. and/or Isospora suis) and 1716 (47.2%) with Balantidium coli. These infected pigs were mainly from farms without a strategic anti-parasite treatment regime. Concurrent infection of multiple parasites was common, and T. suis was the most common nematode infecting breeding, young and mature pigs. The results of the present investigation provide relevant 'base-line' data for assessing the effectiveness of control strategies against intestinal parasitism in intensively raised pigs in Guangdong Province, China.

Animals↗

PubMed2001

Cell growth inhibition by the multifunctional multivalent zinc-finger factor CTCF.

The 11-zinc finger protein CCTC-binding factor (CTCF) employs different sets of zinc fingers to form distinct complexes with varying CTCF- target sequences (CTSs) that mediate the repression or activation of gene expression and the creation of hormone-responsive gene silencers and of diverse vertebrate enhancer-blocking elements (chromatin insulators). To determine how these varying effects would integrate in vivo, we engineered a variety of expression systems to study effects of CTCF on cell growth. Here we show that ectopic expression of CTCF in many cell types inhibits cell clonogenicity by causing profound growth retardation without apoptosis. In asynchronous cultures, the cell-cycle profile of CTCF-expressing cells remained unaltered, which suggested that progression through the cycle was slowed at multiple points. Although conditionally induced CTCF caused the S-phase block, CTCF can also arrest cell division. Viable CTCF-expressing cells could be maintained without dividing for several days. While MYC is the well-characterized CTCF target, the inhibitory effects of CTCF on cell growth could not be ascribed solely to repression of MYC, suggesting that additional CTS-driven genes involved in growth-regulatory circuits, such as p19ARF, are likely to contribute to CTCF-induced growth arrest. These findings indicate that CTCF may regulate cell-cycle progression at multiple steps within the cycle, and add to the growing evidence for the function of CTCF as a tumor suppressor gene.

3T3 Cells↗

PubMed2001

Distribution and functional consequences of nucleotide polymorphisms in the 3'-untranslated region of the human Sep15 gene.

Selenium has been shown to prevent cancer in a variety of animal model systems. Both epidemiological studies and supplementation trials have supported its efficacy in humans. However, the mechanism by which selenium suppresses tumor development remains unknown. Selenium is present in known human selenoproteins as the amino acid selenocysteine (Sec). Sec is inserted cotranslationally in response to UGA codons within selenoprotein mRNAs in a process requiring a sequence within the 3'-untranslated region (UTR), referred to as a Sec insertion sequence (SECIS) element. Recently, a human Mr 15,000 selenoprotein (Sep15) was identified that contains an in-frame UGA codon and a SECIS element in the 3'-UTR. Examination of the available cDNA sequences for this protein revealed two polymorphisms located at position 811 (C/T) and at position 1125 (G/A) located within the 3'-UTR. Here, we demonstrate significant differences in Sep15 allele frequencies by ethnicity and that the identity of the nucleotides at the polymorphic sites influences SECIS function in a selenium-dependent manner. This, together with genetic data indicating loss of heterozygosity at the Sep15 locus in certain human tumor types, suggests that Sep15 may be involved in cancer development, risk, or both.

3' Untranslated Regions↗

PubMed2001

Glutathione peroxidase and viral replication: implications for viral evolution and chemoprevention.

It is likely that several of the biological effects of selenium are due to its effects on selenoprotein activity. While the effects of the anti-oxidant selenoprotein glutathione peroxidase (GPx) on inhibiting HIV activation have been well documented, it is clear that increased expression of this enzyme can stimulate the replication and subsequent appearance of cytopathic effects associated with an acutely spreading HIV infection. The effects of GPx on both phases of the viral life cycle are likely mediated via its influence on signaling molecules that use reactive oxygen species, and similar influences on signaling pathways may account for some of the anti-cancer effects of selenium. Similarly, selenium can alter mutagenesis rates in both viral genomes and the DNA of mammalian cells exposed to carcinogens. Comparisons between the effects of selenium and selenoproteins on viral infections and carcinogenesis may yield new insights into the mechanisms of action of this element.

Animals↗

PubMed2001

An integrated approach for genome-wide gene expression analysis.

Since efficient and relatively cheap methods were developed for determining biosequences, a lot of biosequence data has been generated. As the main problem in molecular biology is the analysis of the data instead of the data acquisition, part of the study of computational biology is to extract all kinds of meaningful information from the sequences. Computer-assisted methods have become very important in analyzing biosequence data. However, most of the current computer-assisted methods are limited to finding motifs. Genes can be regulated in many ways, including combinations of regulatory elements. This research is aimed at developing a new integrated system for genome-wide gene expression analysis. This research begins with a new motif-finding method, using a new objective function combining multiple well defined components and an improved stochastic iterative sampling strategy. Combinatorial motif analysis is accomplished by constructive induction that analyzes potential motif combinations. We then apply standard inductive learning algorithms to generate hypotheses for different gene behaviors. A genome-wide gene expression analysis demonstrated the value of this novel integrated system.

Algorithms↗

PubMed2001

CTCF-binding sites flank CTG/CAG repeats and form a methylation-sensitive insulator at the DM1 locus.

An expansion of a CTG repeat at the DM1 locus causes myotonic dystrophy (DM) by altering the expression of the two adjacent genes, DMPK and SIX5, and through a toxic effect of the repeat-containing RNA. Here we identify two CTCF-binding sites that flank the CTG repeat and form an insulator element between DMPK and SIX5. Methylation of these sites prevents binding of CTCF, indicating that the DM1 locus methylation in congenital DM would disrupt insulator function. Furthermore, CTCF-binding sites are associated with CTG/CAG repeats at several other loci. We suggest a general role for CTG/CAG repeats as components of insulator elements at multiple sites in the human genome.

Binding Sites↗

PubMed2001

High IFN-alpha expression is associated with the induction of experimental autoimmune uveitis (EAU) in Fischer 344 rat.

Th1-response plays a crucial role in determining pathogenesis of organ-specific autoimmune diseases. It is believed that both IL-12 and INF-alpha are initiators to regulate Th1-response. In our experimental autoimmune uveitis (EAU) model, both Lewis and Fischer 344 rats share the same MHC class II molecules, while Lewis rat is EAU susceptible and Fischer 344 rat is EAU resistant. However, under the same condition of immunization, if pertussis toxin (PTX) was injected intraperitoneally as an additional adjuvant, Fischer 344 rat can develop EAU. In this study we investigate which mechanisms are involved in the induction of EAU in CFA+R16+PTX-treated (CRP-treated) Fischer 344 rats. In vivo and in vitro data demonstrated that Th1-cytokine, IFN-gamma mRNA expression was significantly increased in disease target tissue-eyes and in draining lymph node cells of CRP-treated Fischer 344 rat. When IL-12 and IFN-alpha mRNA expression were compared in the experimental groups, only IFN-alpha mRNA expression was associated with EAU development. To distinguish the sources of IFN-alpha producing cells, it was observed that IFN-alpha expression was mainly produced by macrophages. It was further confirmed that normal macrophage from Fischer 344 rat was able to produce significant IFN-alpha in the presence of PTX. The data strongly suggested that IFN-alpha might be involved in initiating Th1-cell differentiation and in turn contribute to the induction of EAU. High IFN-alpha expression induced by PTX may represent a novel pathway to initiate Th1 response in Fischer 344 rat.

Animals↗

PubMed2001

[Embolization of AVM of jaws].

OBJECTIVE: To report our experience to embolize the AVM of jaws by direct percutaneous puncture. in conjunction with endovascular therapy. METHODS: 3 cases of AVM of mandible and 3 cases of AVM of maxilla comprised this study group. The patients were embolized with fibered coils, PVA and NBCA. The coils were placed directly into the center of the intraosseous lesion. The procedure was under the guidance of DSA machine (PHILIPS V3000). RESULTS: The acute arterial bleeding in 4 patients was controllable. The other two cases with oozing bleeding and a warm soft mass on the left face with a palpable pulse respectively, their symptoms and signs got improved a lot. The pericoronal oozing of blood in all patients disappeared during a 3 to 24 months follow-up and new bone formation was found in the follow-up radiography. CONCLUSION: The embolization of the AVM of jaws by direct percutaneous puncture in conjunction with endovascular therapy is effective and safe, however the longer follow-up is expected.

English Abstract↗

PubMed2000

Combinatorial motif analysis and hypothesis generation on a genomic scale.

MOTIVATION: Computer-assisted methods are essential for the analysis of biosequences. Gene activity is regulated in part by the binding of regulatory molecules (transcription factors) to combinations of short motifs. The goal of our analysis is the development of algorithms to identify regulatory motifs and to predict the activity of combinations of those motifs. APPROACH: Our research begins with a new motif-finding method, using multiple objective functions and an improved stochastic iterative sampling strategy. Combinatorial motif analysis is accomplished by constructive induction that analyzes potential motif combinations. The hypothesis is generated by applying standard inductive learning algorithms. RESULTS: Tests using 10 previously identified regulons from budding yeast and 14 artificial families of sequences demonstrated the effectiveness of the new motif-finding method. Motif combination and classification approaches were used in the analysis of a sample DNA array data set derived from genome-wide gene expression analysis. AVAILABILITY: Programs will be available as executable files upon request. CONTACT: yhu@ics.uci.eduor yhu@cse.ttu.edu.tw

Algorithms↗