Sentence examples for manually refined for from inspiring English sources
The final phylogenetic tree was then manually refined for visualization purposes.
Initial sequence alignments were generated in ClustalX2 [40] and manually refined from 3D alignments of available crystal structures for hsp15.5, scL30e, hmL7Ae, scSnu13p, hsGadd45g and generated models of hsSBP2_RBD and xtGadd45a.
The borders of each cluster were manually refined while checking for synteny among genomes using the MicroScope platform interface.
Several models for the structure of SLO and the yet unresolved fragments of PDI were generated using modeller [38] and I-TASSER [39] These models were manually refined prior to analysis for a common structural determinant.
Protein weight matrix Gonnet, with Gap Opening 10 and Gap Extension 0.2 was used for multiple alignments that were manually refined in GeneDoc v.2.7.0 [34].
BAliBASE was the first large scale benchmark specifically designed for MSA, providing high quality manually refined reference alignments based on 3D structural superpositions.
The DOGMA program [ 49] was used for the initial genome annotation, which was then manually refined using Artemis version 11 [ 50] and NCBI Blast searches.
The alignment results were manually refined and subjected to Phyml [ 51] and MEGA version 5 [ 52] for phylogenetic tree construction.
The sequences were aligned by Clustal X 2.0 [ 47], manually refined and 82 amino acid residues corresponding to the YGGT domain were used for the phylogenetic analyses.
For phylogenetic analysis, amino acid sequences were aligned using Clustal W and manually refined.
For each dataset, proteins have been aligned by ClustalW [ 62], manually refined using ED [ 63], and then concatenated into a super-matrix using SCaFoS [ 64].
