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Optimization of probe length and the number of probes per gene for optimal microarray analysis of gene expression.
Gene-specific oligonucleotide probes are currently used in microarrays to avoid cross-hybridization of highly similar sequences. We developed an approach to determine the optimal number and length ofExpand
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Sensitivity issues in DNA array-based expression measurements and performance of nylon microarrays for small samples.
DNA or oligonucleotide arrays are widely used for large-scale expression measurements, using various implementations: macroarrays in which DNA is spotted onto nylon membranes of relatively largeExpand
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Acid-Induced Gene Expression in Helicobacter pylori: Study in Genomic Scale by Microarray
ABSTRACT To understand the RNA expression in response to acid stress ofHelicobacter pylori in genomic scale, a microarray membrane containing 1,534 open reading frames (ORFs) from strain 26695 wasExpand
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A stable double-stranded DNA-ethidium homodimer complex: application to picogram fluorescence detection of DNA in agarose gels.
The complex between double-stranded DNA and ethidium homodimer (5,5'-diazadecamethylene)bis(3,8-diamino-6-phenylphenanthridini um) cation, formed at a ratio of 1 homodimer per 4 or 5 base pairs, isExpand
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Design of microarray probes for virus identification and detection of emerging viruses at the genus level
We developed a computational method that identifies the conserved viral sequences at the genus level for all viral genomes available in GenBank, and established a virus probe library. Expand
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A multivariate prediction model for microarray cross-hybridization
We propose a systematic search strategy using multiple multivariate models [multiple linear regressions, regression trees, and artificial neural network analyses (ANNs)] to select an effective set of predictors for hybridization. Expand
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Profiling expression patterns and isolating differentially expressed genes by cDNA microarray system with colorimetry detection.
A high-density cDNA microarray with colorimetry detection system to simultaneously monitor the expression of many genes on nylon membrane is described and characterized. To quantify the expression ofExpand
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Tissue Remodeling of Rat Pulmonary Artery in Hypoxic Breathing. I. Changes of Morphology, Zero-Stress State, and Gene Expression
AbstractThe remodeling of the pulmonary arterial tissue in response to a step change of the oxygen concentration in the gas in which a rat lives was recorded as function of time and function of O2Expand
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Design and Assessment of A Fast Algorithm for Identifying Specific Probes for Human and Mouse Genes
We have developed a fast algorithm as well as a software program based on the algorithm for identifying gene specific probes of complex organisms for large databases such as TIGR human THC and mouse TC databases. Expand
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Optimization of high-sensitivity fluorescence detection.
We present general expressions for the number of photons emitted by a fluorescent chromophore as a function of the intensity and the duration of illumination. The aim is to find optimal conditionsExpand
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