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In many microarray applications careful selection of probes to uniquely match target transcripts can be used to eliminate cross-hybridization biases.
However, there are many microarray applications where it is unavoidable for probes to share some sequence similarity to off-target transcripts.
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Oligonucleotide probes are increasingly the method of choice for many modern DNA microarray applications.
The variety of microarray applications allows for multiple, creative microarray designs and detection strategies.
Target concentration is the principal unknown quantity in microarray applications.
The T7 primer used in amplification of mRNA for microarray applications is a potential source for bias in microarray data.
This may also be true for microarray applications.
The application of high-throughput (HTP) DNA sequencing to ChIP experiments (ChIP-seq) has overcome many microarray-related limitations in probe coverage and resolution [10] [13].
The microarray application described here is unlike most array assays.
Nevertheless, for many applications, microarrays offer an ideal balance of capabilities for broad-spectrum microbial surveillance.
Comparative Genomic Hybridization (CGH) with DNA microarrays has many biological applications including surveys of copy number changes in tumorogenesis, species detection and identification, and functional genomics studies among related organisms.
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