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Inferring translation start positions based only on genome sequences is merely hypothetical [ 10].
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This paper determines the amount of gene regulatory information that can be mapped from a model organism (source genome) to a non-model organism (target genome), based only on gene and promotor sequences and transcription factor binding site motifs.
Importantly, for this prediction, we located few ~10 bps motifs in ~100 kbps of the genome sequence; locating the motifs was based only on the genome sequence.
Analyses using real and simulated reads to compare the same sets of alleles retain the same sites and exons when aligned to the same reference genome because differentiating sites are excluded based only on the genome sequence(s).
Although the linkage pattern of the glucan products cannot be predicted based only on the genome sequence, the specificity of the hydrolases found in the genome suggest 1 -> 4/1 -> 6 alpha-D-glucans as the most likely products.
In the discussion of the Structure case, I mentioned the suggestion by Fujimura and Rajagopalan to avoid biologisations and essentialisations of identity in the context of genomics by creating new categories based only on the genome (Fujimura and Ramya 2011).
The latter was approximately obtained based only on tumor genomes: LOHs were calls for segments that harbor successive homozygous calls in tumor genomes.
To estimate overall similarity of global STAT binding sites, we performed unsupervised hierarchical clustering of 29 cell contexts based only on their genome-wide binding sites.
This dendrogram is fully congruent with the validated phylogeny of the species complex [ 15, 54] and deepens a previous analysis performed on a smaller set of strains with a less complete CGH microarray based only on the GMI1000 genome [ 16].
Characterization of the vermetid mt genomes presented below is based only on the four complete genomes, except where noted otherwise.
Our resequencing array design based only on a single pneumococcal genome (TIGR4) required supplementation of sequencing efforts, especially in the variable gene sequences.
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