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Two strategies were implemented to align these orthologous sequences using the global alignment algorithm – mlagan: 1) optimizing the alignment parameters and 2) applying a post-alignment filter.
Tophat [ 36] (v2.0.4) was implemented to align the reads, by default, and Cufflinks (v 2.0.2) was used to assemble transcripts with the –g parameter.
To identify genetic variations that occur in input DNA sequences of a given gene, the BLAT program is implemented to align the input DNA sequences with the reference genomic DNA sequence for the corresponding gene.
To predict the secondary structure of the remaining small RNA, Perl scripts were implemented to align the sequences to the genome of the parasite S. mansoni (http://www.schistodb.net Genome version 4.0) aiming at retrieving all possible genomic locations.
BFAST and some alignment tools have been implemented to align two base encoded reads generated on the ABI SOLiD platform.
This paper empirically investigates whether corporate governance practices implemented to align shareholders' and managers' interests affect the resources firms devote to R&D.
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A novel idea was implemented to grow aligned ZnO nanorods on carbon fabric by directly chemical bonding to form a multi-scale reinforcing resin composite.
In several EU countries, feed-in premium schemes have been implemented to better align RES production with electricity prices and to enhance the efficiency of RES marketing by increasing direct participation of producers in electricity markets.
The sequence alignment tool, MUSCLE [ 22], was implemented to enable users to align amino acid sequences of DBDs within the specific families; (7) To link some useful references, including literatures and databases; (8) To download one (or all) specific TF sequence(s), including proteins and/or their corresponding DNA sequences, and phylogenetic trees in phylip format.
Extra processes such as NN-align 41, 66 were implemented to identify a 9-mer core-binding region of these peptides so that they can be proceeded by the general machine learning models.
The study implemented methodology to align with NICE guidance on alternative methods for generating health state utility values when EQ-5D data are either unavailable or inappropriate.
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