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Proteins were defined as "kinase" based on significant match to a Hidden Markov Model (HMM) generated from an alignment of eukaryotic kinases (kinase.com).com
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Based on significant BLAST matches to An. gambiae genes coding for recognition proteins including those annotated in ImmunoDB (e.g. Thioester-containing Proteins, Gram Negative Binding Proteins; n = 139) as well as the APL1 paralogues and LRIM1, our An.
In the seagrass ESTs representing putative transcript sequences, open reading frames (ORFs) were predicted based on significant BLASTX matches [ 65] to protein sequences of the other eight angiosperm species (E < 1 e-5).
Individual reads and assembled sequences were assigned identities based on significant a BLASTX match with an e-value of 10e−5 or lower.
Comparison of the best blast matches from these searches identified 8,515 unambiguous orthologs between coral and anemone, based on significant reciprocal best matches.
At the most basic level one can ask whether the expression and methylation modules can be matched based on significant overlap of the genes in each module.
These 590 genes were assigned to various functional role categories based on their significant matches to proteins that were already assigned a functional role.
Soybean sequence matches were sorted based on A. thaliana base pair location.
The putative protein function were predicted using BLASTP searches against all the annotated proteins of the P. aeruginosa strains, LESB58, PAO1, UCBPP-PA14 and PA7, and the nr (non-redundant protein sequences) database in NCBI based on the most significant matches.
Patient records were then classified as match or non-match based on the estimated match prevalence from these three models.
Record pairs are then declared as matches or non-matches based on these match scores.
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