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Parasitic helminths of the genusSchistosomamate, achieve sexual maturity and produce eggs in the bloodstream of their definitive hosts, and the most important pathological consequences of the infection are associated…
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Background A model-based analysis of oligonucleotide expression arrays we developed previously uses a probe-sensitivity index to capture the response characteristic of a specific probe pair and calculates model-based…
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Background The honeybee (Apis mellifera) has been used with great success in a variety of behavioral studies. The lack of genomic tools in this species has, however, hampered efforts to provide genome-based explanations…
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Genome-composition analysis using microarrays can be used to categorize genes into 'present' and 'divergent' categories. This involves selecting a signal value that is used as a cutoff to discriminate present and…
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Background High-density oligonucleotide arrays (HDONAs) are a powerful tool for assessing differential mRNA expression levels. To establish the statistical significance of an observed change in expression, one must take…
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Background A key assumption in the analysis of microarray data is that the quantified signal intensities are linearly related to the expression levels of the corresponding genes. To test this assumption, we…
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An analysis of numerous Drosophila microarray experiments reveals that the genome has many large groups of adjacent genes that are expressed similarly but are not functionally related.
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Background Current methodology often cannot distinguish second primary breast cancers from multifocal disease, a potentially important distinction for clinical management. In the present study we evaluated the use of…
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Background It has been recognized that replicates of arrays (or spots) may be necessary for reliably detecting differentially expressed genes in microarray experiments. However, the often-asked question of how many…
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Fold-change' cutoffs have been widely used in microarray assays to identify genes that are differentially expressed. More accurate measures are required to identify high-confidence sets of genes with biologically…
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Background Methods for extracting useful information from the datasets produced by microarray experiments are at present of much interest. Here we present new methods for finding gene sets that are well suited for…