Bioinformatics algorithms such as SIFT [ 39] and PSSM can be used to prioritize mutants for phenotypic evaluation, as reported before for WKS1 [ 32].
Bioinformatics algorithms such as Polyphen (Adzhubei et al. 2010), SIFT (Kumar et al. 2009), SNAP (Johnson et al. 2008) or PANTHER (Mi et al. 2010) are frequently used as a first approximation for determining if a given DNA or amino-acid sequence variant is likely to impair the function of the encoded protein.
Although a few bioinformatic algorithms such as MapSplice (Wang et al., 2010), TopHat-Fusion Kimm and Salzberg, 2011), and CIRI (Gao et al., 2015) were developed for global discovery of circular RNAs, the consistency of these computational tools remains relatively low.
In the absence of comprehensive structural information from the entire GPCR superfamily, bioinformatic algorithms (such as those just mentioned) are used to predict specificity determining positions or functionally important positions solely from their sequences.
The mRNA targets of miRNAs can be predicted by bioinformatic algorithms such as PicTar, miRanda and TargetScan [ 46- 48].
In this study, the putative miRNAs that might target PXN were predicted by using bioinformatic algorithms, such as TargetScan and miRanda (26 28).
The generic SQL and SAS system can also be used to capture, organize and analyze the results of bioinformatic algorithms such as BLAST or the results of GO term analysis, as shown here.
Genotypic tropism testing is an alternative method that is possible because the sequence of the third variable (V3) loop of gp120 is the principal determinant of tropism, allowing tropism inference using bioinformatic algorithms, such as PSSMx4/R5 and geno2pheno[coreceptor] (g2p).
With the miRWalk database, which uses several bioinformatic target prediction algorithms (such as DIANA microT4.0, TargetScan, PITA, PicTar, miRANDA and so on), we verified that RASSF1A is a validated target of miR-152 and a predicted target of miR-497, whereas NORE1A is a predicted target of both miRNAs.
Then there are various scoring algorithms, such as FICO or VantageScore, and various versions of these algorithms.
As noted, living organisms, including human organisms, use code-dependent algorithms such as the genetic machinery.
