There are two main workflows:pandagma panfor pangene sets, andpandagma famfor gene families. The pangene workflow is designed to operate primarily on CDS sequences, at the level of a species or genus. The family workflow is designed to operate on protein sequences, at the level of an or...
C. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792–1797 (2004). 60. Schneider, T. D. & Stephens, R. M. Sequence logos: a new way to display consensus sequences. Nucleic Acids Res. 18, 6097–6100 (1990). 61. Crooks, G. E....
C. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792–1797 (2004). 60. Schneider, T. D. & Stephens, R. M. Sequence logos: a new way to display consensus sequences. Nucleic Acids Res. 18, 6097–6100 (1990). 61. Crooks, G. E....
TrueConsense is, in contrast to more common consensus-sequence methodology, not using VCF files. Instead, a consensus-sequence is made directly from a BAM-file in order to get a proper view of positional context. TrueConsense compensates for common sequencing and/or alignment artefacts and keeps...
innovation results into a firm’s business model, as suggested by Chesbrough (2010), has just started to be explored. To address this gap, more research is needed to develop an understanding on the role of an innovation intermediary to support business model alignment with open innovation ...
Sequences smaller than 200 bp were excluded from the analysis. Isotype were identified through alignment of the constant region segment of each sequence. Quality filtered repertoire sequences were clustered into B cell lineages as previously described23, 24. Briefly, B cell clones were defined as ...
Sequence alignment, gene clustering and differential gene expression analysis Sequences were processed using Galaxy server, Genome Virtual Lab.47Quality control of raw sequence data was determined using the Phred Score obtained from Fast QC package. Reads were above a Phred Score of 25. Read alignmen...
1) was modeled from the known structures of its component parts (the disulfide-bonded region, the helical region, and the ECD region). The key stages in this modeling involved (i) the use of an in-house multiple-reference sequence alignment method tailored for aligning helices with low ...
Loechel et al., Nucleotide Sequence of the tuf Gene from Mycoplasma genitalium, Nucleic Acids Res. (1989) 17(23): 10127. Lowe et al., Nucleotide Sequence of the Aliphatic Amidase Regulator Gene (amiR) of Pseudomonas aeruginosa, FEBS Lett. (1989) 246 (1-2): 39-43. Ludwig et al.,...