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Quantitation of cotinine in nonsmoker saliva using chip-based nanoelectrospray tandem mass spectrometry.

A new analytical procedure was developed for the quantitation of nonsmoker salivary cotinine. Small volumes of saliva were diluted with water, fortified with cotinine-d3 (internal standard), then passed through small extraction columns. The analyte and internal standard were eluted with 0.1% (v/v) acetic acid/acetonitrile. Aliquots of each extract were analyzed directly, without chromatographic separation, using chip-based (NanoMate) nanospray tandem mass spectrometry. The calculated detection limit was 0.49 ng cotinine/mL saliva. This method was used to quantify salivary cotinine collected from nonsmoking human subjects living in one of three environmental tobacco smoke (ETS) exposure categories or "cells": 1. smoking home/smoking workplace; 2. smoking home/nonsmoking workplace; and 3. nonsmoking home/smoking workplace. Samples were collected during five sequential days, including Saturday, as part of a larger study to evaluate potential variability in exposure to ETS. Salivary cotinine measurements were made for the purpose of excluding misclassified smokers and for comparison with known levels of exposure to airborne nicotine in each exposure category. The concentrations observed were consistent with those reported from other large studies reported elsewhere. A non-parametric statistical test was applied to the data within each cell. No statistically significant differences were found between the mean cotinine concentrations collected on a weekday as compared to those collected on a weekend day. When the non-parametric test was applied to the three cells, a statistically significant difference was observed between cell 1 compared to cells 2 and 3. The salivary cotinine concentrations were thus statistically invariant over a five-day exposure period, and they were greatest under the conditions of smoking home and smoking workplace.

Cotinine↗

Childhood lead poisoning from paint chips: a continuing problem.

Although lead poisoning (plumbism) has been recognized for centuries, lead exposures still occur frequently today because of its varied uses and persistence in the environment. Despite the awareness of the adverse effects of lead on adults, childhood plumbism was first reported only about a century ago. Young children are one of the most vulnerable groups to the adverse effects of lead because of their rapidly developing central nervous systems. Federal regulations in the 1970s have been successfully implemented to decrease the amount of environmental lead by decreasing the content of lead in gasoline and indoor paint. However, almost 30 years after these laws were passed, inner-city housing with leaded paint still exists. We describe three children living in New York City who developed plumbism from the ingestion of leaded paint chips.

Child, Preschool↗

DNA probes on chip surfaces studied by scanning force microscopy using specific binding of colloidal gold.

Single-stranded DNA was covalently bound on chip surfaces using two different silanization procedures. The resulting surfaces were characterized by fluorescence and scanning force microscopy using sequence-complementary DNA molecules with labels. Colloidal gold (30 nm) was used as the topographic label. Scanning force microscopy revealed the individual labels on the surface and their distribution. Steps of silane layers or DNA-modified surfaces prepared using an elastomeric mask provided internal controls for comparison of modified with unmodified surfaces.

Base Sequence↗

Hydrazide oligonucleotides: new chemical modification for chip array attachment and conjugation.

We report the synthesis of new phosphoramidite building blocks and their use for the modification of oligonucleotides with hydrazides. The reaction of these hydrazide oligonucleotides with active esters and aldehydes is demonstrated for solution conjugation and immobilization. Compared with the established amino modified oligonucleotides, hydrazides show enhanced reactivity at neutral and acidic buffer conditions. One method to introduce hydrazides is using amidites with preformed, protected hydrazides. A completely novel approach is the generation of the hydrazide functionality during the oligonucleotide cleavage and deprotection with hydrazine. Therefore, building blocks for the introduction of esters as hydrazide precursors are described. For the enhanced attachment on surfaces branched modifier amidites, which introduce up to four reactive groups to the oligonucleotide, are applied. The efficiency of branched hydrazide oligonucleotides compared with standard amino modified oligonucleotides for the immobilization of DNA on active electronic Nanogen chips is demonstrated.

Aldehydes↗

Amplification and assembly of chip-eluted DNA (AACED): a method for high-throughput gene synthesis.

A basic problem in gene synthesis is the acquisition of many short oligonucleotide sequences needed for the assembly of genes. Photolithographic methods for the massively parallel synthesis of high-density oligonucleotide arrays provides a potential source, once appropriate methods have been devised for their elution in forms suitable for enzyme-catalyzed assembly. Here, we describe a method based on the photolithographic synthesis of long (>60mers) single-stranded oligonucleotides, using a modified maskless array synthesizer. Once the covalent bond between the DNA and the glass surface is cleaved, the full-length oligonucleotides are selected and amplified using PCR. After cleavage of flanking primer sites, a population of unique, internal 40mer dsDNA sequences are released and are ready for use in biological applications. Subsequent gene assembly experiments using this DNA pool were performed and were successful in creating longer DNA fragments. This is the first report demonstrating the use of eluted chip oligonucleotides in biological applications such as PCR and assembly PCR.

Genes↗

An on-chip thin film photodetector for the quantification of DNA probes and targets in microarrays.

A flat microdevice which incorporates a thin-film amorphous silicon (a-Si:H) photodetector with an upper layer of functionalized SiO2 is used to quantify the density of both immobilized and hybridized DNA oligonucleotides labeled with a fluorophore. The device is based on the photoconductivity of hydrogenated amorphous silicon in a coplanar electrode configuration. Excitation, with near UV/blue light, of a single-stranded DNA molecule tagged with the fluorophore 1-(3-(succinimidyloxycarbonyl)benzyl)-4-(5-(4-methoxyphenyl)oxazol-2-yl) pyridinium bromide (PyMPO), results in the emission of visible light. The emitted light is then converted into an electrical signal in the photodetector, thus allowing the optoelectronic detection of the DNA molecules. The detection limit of the present device is of the order of 1 x 10(12) molecules/cm2 and is limited by the efficiency of the filtering of the excitation light. A surface density of 33.5 +/- 4.0 pmol/cm2 was measured for DNA covalently immobilized to the functionalized SiO2 thin film and a surface density of 3.7 +/- 1.5 pmol/cm2 was measured for the complementary DNA hybridized to the bound DNA. The detection concept explored can enable on-chip electronic data acquisition, improving both the speed and the reliability of DNA microarrays.

Base Pairing↗

Photo-triggered ODN manipulation on DNA chip.

DNA microarray is a powerful tool allowing simultaneous detection of many different target molecules present in a sample. We developed the photo-triggered ODN manipulation on DNA chip, and analyzed efficiency and discrimination of surface photoligation.

Base Pair Mismatch↗

Large-scale expression measurement by hybridization methods: from high-density membranes to "DNA chips".

The vast amount of sequence information becoming available on genes from man and from other species calls for corresponding increases in the rate of collection for data of a more functional nature. Expression measurements often constitute a first step in this direction, and can be performed on a reasonably large scale using highly parallel hybridization methods. Large sets of targets (clones, inserts, oligonucleotides) are hybridized with labeled complex probes prepared from total cell or organ mRNA; under the proper conditions, signals measure the relative abundance of each sequence species, and can be acquired quantitatively. These techniques are presently available in three formats: high-density membranes to be hybridized with radioactive complex probes, microarrays of DNA spots (a miniaturized version of the former technique) using fluorescent complex probes, and oligonucleotide chips that, although developed originally for mutation detection, can be adapted to perform expression measurements. The miniaturized formats clearly represent the future, since they allow higher sensitivity, assay of large numbers of entities and hopefully provide the opportunity to use small amounts of starting material.

Animals↗

Phase II trial of iproplatin (CHIP) in previously untreated patients with colorectal cancer.

Nineteen previously untreated patients with colorectal cancer and measurable disease were treated with iproplatin (CHIP), 75 mg/m2 daily, for 5 days every 4 weeks for at least 2 courses. Toxicities included myelosuppression, mild nausea and vomiting, and rare mild nephrotoxicity. The dose-limiting toxicity was thrombocytopenia, which appeared to be cumulative. Dose reduction was frequently necessary. There were no toxic deaths. One partial response was observed, and four patients had stable disease for a median of 2 months. Iproplatin does not appear to have significant activity against colorectal cancer.

Adenocarcinoma↗

A phase II trial of iproplatin (CHIP) in previously treated advanced breast cancer.

Iproplatin (CHIP) was administered to 35 previously treated women with metastatic adenocarcinoma of the breast. The drug was given at a dose of 45 mg/m2 intravenously for 5 consecutive days and was repeated every 28 days. In this trial, there was one partial response and two patients with stable disease out of 29 evaluable patients. The median duration of response in patients with either a partial response or stable disease was 4.8 months. Myelosuppression was the major toxicity, 11 patients had severe thrombocytopenia and 3 severe neutropenia. Mild renal insufficiency, anemia, and nausea and vomiting were also noted. Iproplatin has limited activity in heavily pretreated women with advanced breast carcinoma; further studies in patients less heavily treated may show an improved response rate.

Adenocarcinoma↗

Monte Carlo calculations of monoenergetic electron depth dose distributions in LiF chips: skin dose correction factors for beta rays.

Monte Carlo calculations have been carried out for monoenergetic electrons from 0.1 to 4 MeV irradiating LiF chips in both perpendicular and isotropic geometry. This enabled the calculation of skin dose correction factors (beta factors) for typical beta energy spectra as measured with a beta-ray spectrometer at CANDU nuclear generating stations. The correction factors were estimated by averaging the depth dose distributions for the monoenergetic electrons over the experimentally measured beta-ray spectra. The calculations illustrate the large uncertainty in beta factors arising from the unknown angular distribution of the beta-ray radiation field and uncertainties in the shape of the beta-ray spectra below 500 keV.

Fluorides↗

Proposed role of embedded dentin chips for the clinical failure of nickel-titanium rotary instruments.

Discarded ProFile and ProTaper nickel-titanium rotary instruments, with unknown history of clinical use, were obtained from graduate endodontic clinics at Ohio State University and University of Texas Health Science Center at Houston Dental Branch. These discarded instruments and as-received instruments of both types were examined with a scanning electron microscope to investigate effects of clinical use and causes of failure. For used ProTaper instruments, dentinal debris was wedged mostly in narrow, radial, land-type regions and less on convex flute surfaces. For used ProFile instruments, dentinal debris was wedged mostly in the metal rollover and on concave flute surfaces. Used instruments of both types exhibited widened machining grooves, and elongated and stretched roll-over. Dentin chips were wedged in surface micro-cracks that appeared to propagate from original machining flaws and widen during in vivo root canal preparation. From our observational study, wedged dentinal deposits seem to play a pivotal role for clinical failure of these instruments.

Dental Alloys↗

Genetic predictors of cardiovascular disease: the use of chip technology.

Cardiovascular disease, a primary cause of mortality in the United States, has a complex pathologic process involving many genes. The high-throughput technology (microarray or "DNA chip") used to decipher the human genome is now being employed to identify key genes in its development. A study focusing on candidate genes associated with premature cardiovascular disease discovered that missense variations in the thrombospondin 1 and 4 genes were associated with premature coronary artery disease, while a mutation in the non-coding region of a thrombospondin 2 gene imparts protection from developing heart disease. Although the clinical implications of microarray technology are still under investigation, this research may lead to a diagnostic test to determine a patient's risk for developing heart disease.

Cardiovascular Diseases↗

Chip fracture through the superior articular facet with compressive cervical radiculopathy.

Four patients with cervical radiculopathy secondary to a chip fracture through the superior articular facet have been treated in the past 2 years. These small-element fractures may occasionally pass unrecognized. Although oblique X-rays are helpful, lateral tomography has provided the most precise detail. The pathological process is a compressive radiculopathy, explicable on the basis of the foraminal anatomy. The authors feel myelography is not essential. The preferred surgical approach is posterior: the results have been excellent.

Adult↗

Radiological changes in the bone fusion site after posterior lumbar interbody fusion using carbon cages impacted with laminar bone chips: follow-up study over more than 4 years.

STUDY DESIGN: A retrospective clinical study with a follow-up of more than 4 years was conducted. OBJECTIVES: To know the radiologic changes in the interbody bone fusion site in patients who had received posterior lumbar interbody fusion (PLIF) using carbon fiber cages. SUMMARY OF BACKGROUND DATA: PLIF using cages is a popular surgical method for treating degenerative lumbar spinal diseases. However, there are few reports on the radiologic changes in the bone fusion site after this procedure. METHOD: Forty-one patients were observed (male-to-female ratio 12:29; mean age 51 years; 1-level-to-2-level PLIF 37:4) for 56 months (range 48-78). Anteroposterior and lateral radiograph films were taken from all patients immediately after bone fusion, at 6 and 12 months after surgery, and at follow-up. The extent of the bone fusion was classified as: only inside the cage; around the cage; extending to the vertebral cortical margin; and overgrowth beyond the vertebral cortical margin. The extent of bone fusion was observed anterior and posterior to the cages. RESULTS: Of the 45 fusion levels examined in these 41 patients, successful bone fusion was observed in 40 levels of 36 patients (88%). All the successful fusions occurred inside and posterior to the cages. Of the 40 successful fusion levels at 6 and 12 months after surgery, 10% and 35% of the levels showed the fusion mass to be both inside and around the cages, while the remaining 90% and 65% of the levels showed the fusion mass only inside the cages, respectively. More than 4 years after surgery, 82% of the levels showed the fusion mass extending to the posterior cortical margin, and 2 levels (5%) with shallowly inserted cages showed bony overgrowth into the spinal canal. CONCLUSION: All the intervertebral bone fusion after PLIF occurred inside the cages and in the posterior intervertebral space. We suggest the complete removal of discmaterial and deep insertion of the cages to create sufficient posterior intervertebral space for bone growth. PLIF using cages impacted with laminar bone chips is a useful method when considering the time required for surgery and the morbidity of the autograft donor sites.

Adult↗

How brachiopods get covered with nanometric silicon chips.

The investigation of an early pelagic juvenile of the discinid brachiopod Discinisca cf. tenuis elucidates the so far enigmatic origin of nanometric silicon chips covering the brachiopod's juvenile shell. The siliceous tablets are products of an intracellular process within specialized cells of the animal's inner mantle epithelium. These specialized cells are arranged in a circumferential row and contain vesicles, which provide 'reaction chambers' osmotically separated from the cytoplasm. Up to 15 tablets per vesicle are released into the cell by vesicle burst, followed by a coordinated extrusion onto the periostracum. In conjunction with the conveyor belt mechanism of periostracum formation, the regime of tablet release accounts for the highly ordered arrangement of siliceous tablets in parts of the shell's surface. The siliceous tablets are discussed as a protective cover against solar radiation, inherited from Palaeozoic linguliform brachiopods.

Animal Structures↗

The 'yeast cell wall chip' - a tool to analyse the regulation of cell wall biogenesis in Saccharomyces cerevisiae.

Within the field of Saccharomyces cerevisiae functional genomics, DNA microarrays have become a very useful tool to study genome-wide gene-expression changes under diverse experimental conditions. Here, the design and production of a gene microarray, called the 'yeast cell wall chip', specifically tailored to investigate cell wall functions, is described. This array has been validated and shown to be useful to address gene involvement in the regulation of the response to cell wall damage in yeast. The advantages of this tailored gene microarray, which contains 390 genes, in terms of reproducibility, accuracy, versatility and ease of use are reported. Importantly, the microarray design permits the performance of a double hybridization process (two experiments) on the same slide. Cell wall stress leads to the transcriptional activation of a set of genes involved in cell wall remodelling. This response has been shown to be strongly controlled by the MAP kinase (MAPK) Slt2p, but other signalling pathways have also been suggested to be involved in this process. Here, using the tailored microarray, the role of the HOG1 pathway in the regulation of the transcriptional compensatory response to cell wall damage was evaluated by comparing the transcriptional profiles of a hog1 mutant and a wild-type strain in the presence of Congo red. Two genes, YFL014W (HSP12) and YLR414C, were found to be dependent on the Hog1p MAPK for their induction, indicating that an additional level of regulation of cell wall functions is mediated by this MAPK.

Cell Wall↗

Exact phase diagram of a model with aggregation and chipping.

We reexamine a simple lattice model of aggregation in which masses diffuse and coalesce upon contact with rate 1 and every nonzero mass chips off a single unit of mass and adds it to a randomly chosen neighbor with rate w. The dynamics conserves the average mass density rho and in the stationary state the system undergoes a nonequilibrium phase transition in the (rho-w) plane across a critical line rho(c)(w). In this paper, we show analytically that in arbitrary spatial dimensions rho(c)(w)=sqrt[w+1]-1 exactly and hence, remarkably, is independent of dimension. We also provide direct and indirect numerical evidence that strongly suggests that the mean field asymptotic results for the single site mass distribution function and the associated critical exponents are superuniversal, i.e., independent of dimension.

Journal Article↗