efficient serial and parallel algorithms for selection of unique oligos in est databases
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ID: 199527
2013
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Abstract
Obtaining unique oligos from an EST database is a problem of
great importance in bioinformatics, particularly in the discovery of
new genes and the mapping of the human genome. Many algorithms
have been developed to find unique oligos, many of which are much
less time consuming than the traditional brute force approach. An
algorithm was presented by Zheng et al. (2004)
which finds the solution of the unique oligos search problem efficiently.
We implement this algorithm as well as several new algorithms based
on some theorems included in this paper. We demonstrate how, with
these new algorithms, we can obtain unique oligos much faster than
with previous ones. We parallelize these new algorithms to further
improve the time of finding unique oligos. All algorithms are run on
ESTs obtained from a Barley EST database.
| Reference Key |
mata-montero2013advancesefficient
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|---|---|
| Authors | ;Manrique Mata-Montero;Nabil Shalaby;Bradley Sheppard |
| Journal | journal of hepatocellular carcinoma |
| Year | 2013 |
| DOI |
10.1155/2013/793130
|
| URL | |
| Keywords |
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