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In silico genomic fingerprints were produced by virtual hybridization of 191 fully sequenced bacterial genomes using a set of 15,264 13-mer probes specially designed to produce universal whole genome fingerprints.
Jiang, W., Bikard, D., Cox, D., Zhang, F. & Marraffini, L.A. RNA-guided editing of bacterial genomes using CRISPR-Cas systems.
Multiplex Automated Genome Engineering (MAGE) allows simultaneous mutagenesis of multiple target sites in bacterial genomes using short oligonucleotides.
Jiang, W., Bikard, D., Cox, D., Zhang, F. & Marraffini, L. A. RNA-guided editing of bacterial genomes using CRISPR-Cas systems.
For instance, sequencing of bacterial genomes using Pacific Biosciences's (PacBio's) single molecule sequencing approach that simultaneously allows the detection of deoxyribonucleic acid (DNA) methylation patterns in bacterial genomes is now routinely performed in many laboratories (Flusberg et al. 2010; Gomez-Escribano et al. 2016; Koren et al. 2013).
These relationships were subsequently used to search for conserved gene clusters (synteny groups) among several bacterial genomes using an algorithm based on an exact graph-theoretical approach [91].
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Nevertheless, consensus DNA sequences (e.g., complete bacterial genomes) used to be historically the first object of compression in bioinformatics.
However, among the 725 bacterial genomes used in our analysis, only 200 (28%) possess both yjeA and yjeK genes.
Figure 1 shows the distribution of the mapping points of the 235 bacterial genomes used in [ 5].
All bacterial genomes used were downloaded from the RefSeq microbial genomes ftp site [ 12] and were current as of 18 June 2014.
Nevertheless, the bacterial genomes used in our study are relatively well covered by existing knowledge of phylogenies and databases of fully sequenced and finished genomes.
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