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To accomplish this, we used BLAT (Kent 2002) to align the 69mer microarray probe sequences to the consensus gene set downloaded from SilkDB (Duan et al. 2010).
We also tested our method by applying it to a publicly available non-small-cell microarray data set downloaded from National Center for Biotechnology Information Gene Expression Omnibus (GSE14814).
The Z. filipendulae sequences were BLASTx searched against a D. melanogaster protein set, downloaded from Flybase (December 2008) http://flybase.org[ 48], and against the B. mori consensus gene dataset downloaded from the silkworm website http://silkworm.genomics.org.cn (November 2008) [ 49].
We investigated the extent to which the annotated CpG islands overlapped with each of the three types of promoter in the six higher vertebrate genomes using the CpG islands data set downloaded from the UCSC annotation database.
The remaining Arabidopsis genes were classified as expressed genes or hypothetical genes according to the gene set downloaded from TAIR7 release [ 31] which had at least one supporting cDNA and/or EST.
We use same training sets and same test set downloaded from same corpora.
They were subsequently cross-matched to the entire set downloaded from PubChem. 1. PubChem Prous: The Prous Drugs of the Future Journal publishes monographs with information on new drug compounds in development.
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CEO of Professional Science Editing for Scientists @ prosciediting.com