Oligonucleotide Microarrays
Microarray validation: factors influencing correlation between oligonucleotide microarrays and real-time PCR
... In general, correlations increased with increasing degree of change as measured by both microarray and qPCR. Wurmbach et al. (4) reported 100% validation of results for genes exhibiting at least 1.6 fold change; however, ...
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Characterization of adjacent breast tumors using oligonucleotide microarrays
... We tested the capabilities of oligonucleotide microarrays in determining tumor clonality. We obtained samples from adjacent tumors from a single individual, and compared the transcriptional profile of each ...
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Use of Semiconductor Based Oligonucleotide Microarrays for Influenza A Virus Subtype Identification and Sequencing
... for each base of sequence should reduce artifacts due to dif- ficult mismatches by averaging out the mismatch signal. Be- cause microarray-based sequencing is based on probe-target hybridization, the target sequence ...
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Strong position-dependent effects of sequence mismatches on signal ratios measured using long oligonucleotide microarrays.
... on microarrays to differ from that in solution, with attach- ment to a surface having a marked effect [13,24,29,30], though for short oligonucleotide microarrays, hybridised at relatively low ...
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Variation in fiberoptic bead-based oligonucleotide microarrays: dispersion characteristics among hybridization and biological replicate samples
... cates are available and not quite reliable for triplicates (URL address for the RMAExpress is http://stat.berke ley.edu/~bolstad/RMAExpress/RMAExpress.html). The high level analysis consists of two basic steps: normal- ...
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Linear model for fast background subtraction in oligonucleotide microarrays
... Results: We propose here an algorithm for background estimation based on a model in which the cost function is quadratic in a set of fitting parameters such that minimization can be per[r] ...
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Use of Oligonucleotide Microarrays for Rapid Detection and Serotyping of Acute Respiratory Disease Associated Adenoviruses
... long oligonucleotide probes (18) permit the hy- bridization of targets that are not perfectly complementary and thus allowed the successful detection and serotyping of pri- mary clinical ...
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Use of Resequencing Oligonucleotide Microarrays for Identification of Streptococcus pyogenes and Associated Antibiotic Resistance Determinants
... with microarrays for detection of patho- ...DNA microarrays with methods for microbial nucleic acid enrichment, random nucleic acid ampli- fication, and automated sequence similarity searching for pathogen ...
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Development and evaluation of a high-throughput, low-cost genotyping platform based on oligonucleotide microarrays in rice
... To create probes that can detect the presence or absence of indel sequences in a genomic DNA sample, the probes need to be complementary to a unique single copy sequence. To identify suitable indels, the genome sequences ...
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Identification of SNPs and INDELS in swine transcribed sequences using short oligonucleotide microarrays
... moter sequences (GenSet, San Diego, CA). After first strand synthesis, residual RNA was degraded by the addi- tion of RNase H and a double-stranded cDNA molecule was generated using DNA polymerase I and DNA ligase. The ...
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Detection of second line drug resistance in Mycobacterium tuberculosis using oligonucleotide microarrays
... Methods: The method allows the identification of mutations within the gyrA and gyrB genes responsible for fluoroquinolones resistance and mutations within the rrs gene and the eis promot[r] ...
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Analysis of baseline and cisplatin-inducible gene expression in Fanconi anemia cells using oligonucleotide-based microarrays
... Methods: Oligonucleotide microarrays were used to compare the expression of approximately 12,000 genes from FA cells with matched controls. Expression profiles were studied in lymphoblastoid cell lines ...
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Array-based techniques for fingerprinting medicinal herbs
... to oligonucleotide microarrays, a single gene fragment is used as a probe on gene-based probe microarrays instead of several oligos from a gene ...
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Evaluation of One and Two Color Gene Expression Arrays for Microbial Comparative Genome Hybridization Analyses in Routine Applications
... diagnostic microarrays (MDMs) have also been used in a number of research applications in clinical microbiology ...an oligonucleotide microarray targeting the 16S rRNA gene was recently developed for the ...
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Highly Enhanced Expression of CD70 on Human T-Lymphotropic Virus Type 1-Carrying T-Cell Lines and Adult T-Cell Leukemia Cells
... Human oligonucleotide microarrays have been used to ex- amine gene expression patterns of PBMCs infected with HTLV-1 (11), HTLV-1-transformed T-cell lines (8, 30), Jurkat cells expressing either p12I (26) ...
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Using transcriptional profiling to develop a diagnostic test of operational tolerance in liver transplant recipients
... A fraction of liver transplant recipients are able to discontinue all immunosuppressive therapies without rejecting their grafts and are said to be operationally tolerant to the transplant. However, accurate ...
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Group B streptococcal β hemolysin/cytolysin activates neutrophil signaling pathways in brain endothelium and contributes to development of meningitis
... Using oligonucleotide microarrays, we found that GBS infection of human brain microvascular endothelial cells (HBMEC) induced a highly specific and coordinate set of genes including IL-8, Groa, Grob, IL-6, ...
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Oncoproteomic profiling with antibody microarrays
... Several publications have recently reported the use of antibody microarrays in assessing markers of lung cancer, which is the leading cancer-related cause of death. Kullmann et al. [46] tested cytokine profiles ...
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Detection with synthetic oligonucleotide probes of nucleotide sequence variations in the genes encoding enterotoxins of Escherichia coli
... Oligonucleotide probes representing three regions of the genes encoding LT of human origin LTIh, the LT1 oligonucleotide probe from the coding region of the A subunit and the LT2 and LT3[r] ...
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Expression and localization of gastrin messenger RNA and peptide in spermatogenic cells
... Similarly, in situ hybridization experiments revealed no labeling over sections from monkey testis using the human gastrin-specific oligonucleotide, whereas an oligonucleotide specific f[r] ...
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