Since 2006, a DWI sequence had been implemented as part of the standard rectal MRI protocol.
A technique for protein sequences has been implemented in the software program SAGA (Sequence Alignment by Genetic Algorithm) and its equivalent in RNA is called RAGA.
Microsatellite identification in these sequences has been implemented using Tandem Repeat Finder [40].
A sequence similarity search using nucleotide or amino acid sequences has been implemented based upon KEGG BLAST and is displayed in a pop-up window that is opened by clicking on the "Tools" button located next to the search box (Figure 2c).
DGF with deep sequencing has been implemented to uncover cell-specific TF binding motifs in humans, yielding expansive knowledge on regulatory circuits and the role of TF binding in relation to chromatin structure, gene expression, and cellular differentiation [ 19, 78].
Furthermore, although the MPI version of the codes for analyzing DNA sequences have been implemented and are available, they should be thoroughly characterized and optimized in future work.
Current available techniques for high-throughput sequencing have been implemented in a number of species, including fish, to obtain a proper description of the transcriptome.
To date, single-nucleotide polymorphism (SNP) analysis, transcriptome analysis (RNA-seq), and ChIP-sequencing have been implemented using SAMtools, Cufflinks, and MACS, respectively (Table 1).
Several models specifically developed for RNA sequences have been implemented in phylogenetic packages [e.g. PHASE (Gowri-Shankar and Rattray, 2007) or RAxML (Stamatakis, 2006)], but these models are not widely known.
The high density marker data could for instance be generated by re-sequencing, as has been implemented for soybean [ 59] or maize [ 60].
