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The resulting codon alignments in PAML format were then subjected to Ka/Ks ratio calculation with yn00.
Uniquely mapped sequences from the tophat output files (bam format) were then used for further analysis.
Phylogenetic matrices in PHYLIP and NEXUS format were then generated using Mesquite [ 26] for both protein sequences and DNA sequences.
BLAST results in tabular format were then uploaded in KOBAS and the "annotate" step was run against the H. sapiens database.
Scanned images (TIFF format) were then imported into NimbleScan software (Nimblegen Systems, Inc., Madison, WI, USA) for grid alignment and expression data analyses.
Scanned images (in TIFF file format) were then imported into NimbleScan software (version 2.5) files for grid alignment and expression data analysis.
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This format is then repeated two more times.
The format is then repeated to reduce the field to a final two.
The sensing format is then heterogeneous since the binding and detection event take place at the liquid/solid interface.
The coordinate set of this minimized peptide-detergent construct in the PDB format was then ported to the Gromacs environment, and the structure refined using molecular dynamics with the ffG53a6 force field.
The blast output in XML format was then annotated by Blast2go using default parameters.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com