Instruct: Identify the main and secondary category of Arxiv papers based on the titles and abstracts
Query: DNA hybridization to mismatched templates: a chip study   High-density oligonucleotide arrays are among the most rapidly expanding
technologies in biology today. In the {\sl GeneChip} system, the reconstruction
of the target concentration depends upon the differential signal generated from
hybridizing the target RNA to two nearly identical templates: a perfect match
(PM) and a single mismatch (MM) probe. It has been observed that a large
fraction of MM probes repeatably bind targets better than the PMs, against the
usual expectation from sequence-specific hybridization; this is difficult to
interpret in terms of the underlying physics. We examine this problem via a
statistical analysis of a large set of microarray experiments. We classify the
probes according to their signal to noise ($S/N$) ratio, defined as the
eccentricity of a (PM, MM) pair's `trajectory' across many experiments. Of
those probes having large $S/N$ ($>3$) only a fraction behave consistently with
the commonly assumed hybridization model. Our results imply that the physics of
DNA hybridization in microarrays is more complex than expected, and they
suggest new ways of constructing estimators for the target RNA concentration.

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The categories of this paper are: q-alg
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The categories of this paper are: chem-ph
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The categories of this paper are: dg-ga
13
The categories of this paper are: quant-ph
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The categories of this paper are: nucl-ex
0
The categories of this paper are: hep-ph
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The categories of this paper are: hep-ex
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The categories of this paper are: ao-sci
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The categories of this paper are: econ
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The categories of this paper are: chao-dyn
9
The categories of this paper are: nlin
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The categories of this paper are: patt-sol
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The categories of this paper are: q-fin
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The categories of this paper are: comp-gas
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The categories of this paper are: math
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The categories of this paper are: nucl-th