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The INPARANOID program was employed to identify orthologs based on two-way best genome-wide pairwise matches for each species pair [ 16].
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The DAGchainer program [ 68] was employed to identify syntenic gene blocks between the potato and tomato contigs; putative syntenic potato-tomato BACs identified with this approach were termed Set II.
To detect the generated mechanism of NBS-encoding genes, BLASTP program [ 36] was employed to identify the tandem duplicated genes using protein sequences with E-value cutoff ≤ 1e-20, and one unrelated gene was allowed within a tandem array.
Moreover, the GOstat program (Beissbarth and Speed, 2004) was employed to identify significantly enriched functional groups in the identified networks.
A combination of structure-based and homology-based approaches was employed to identify TEs in the 975 Mb of genomic sequence, but the precedures and programs used for different classes or superfamilies of TEs varied.
Bacterial one-hybrid system was employed to identify the transcription factor that regulated the expression of pyk gene.
Here, authors conducted a study to identify consensus-driven best practices.METHODSThe Delphi method was employed to identify consensual best practices.
Thematic analysis was employed to identify the main themes.
Finally, systematic sampling technique was employed to identify the respondents.
Afterwards, MCscan was employed to identify homologous regions.
Direct DNA sequencing was employed to identify the sequence variations.
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