Sentence examples for using the best hits from inspiring English sources
Using the best hits found by BLAST, an inferred putative function was assigned to the sequences.
In total, we obtained 159 protein complexes in sweet orange by using the best hits from sequence alignments with the yeast complexes (Additional file 1).
Assembled contigs were annotated by using the best hits of BLASTX search against the non-redundant UniProt database with an E-value cutoff of 1E-6 for the annotation of these protein coding contigs that were conserved with other species.
Using the best hits found by BLAST, an inferred putative function was assigned to the sequences and were sorted into various functional categories as shown in Figure 2. We were able to assign function to 60% of the genes while our data analysis revealed that 18.28% of the CaUnigenes belong to no significant homology (NSH) class.
Using the best hits found by BLASTx or BLASTn with an E-value of < 1.0E-5, all of the unigenes were annotated according to the public databases including non-redundant protein (NR) database, non-redundant nucleotide (NT) database, SwissProt, Kyoto Encyclopedia of Genes and Genomes (KEGG) database and Clusters of Orthologous Groups (COG) database on the basis of similarities.
Using the best hit of the BLAST results, the NOG for each protein sequence was extracted from the eggNOG database.
BLASTN and BLASTP programs (Version 2.2.23) were used to analyse the identities of the RGA genes (e ≤ 1e-10), using the best hit results for each RGA gene.
Therefore, on the basis of the KEGG database, proteins of moso bamboo were annotated with the KEGG orthology (KO) by using the best hit information.
The taxonomic distribution per organism using the best hit showed high similarity (2,184, 16.6%) with the schistosome, which belongs to the same phylum as planarians.
Protein domain searches were performed with RPS-BLAST software (ver. 2.2.23) against the Pfam database (ver. 25.0) using the best hit with an E-value < 1e-10.
For pathway analysis using KEGG, the program MEGAN matches each read to a KEGG orthology (KO) accession number, using the best hit to a reference sequence for which a KO accession number is known.
