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By using the genomic sequence of several related genomes, it is possible to infer how conserved a potential binding sites is, and thus to have a higher confidence in the conserved predicted sites versus the non-conserved sites [3].
All B. anthracis isolates (n = 92) were specifically detected by using the genomic TaqMan® PCR assay whereas 236 strains belonging to 19 Bacillus species other than B. anthracis were PCR negative.
Bonano et al. constructed another fluorescent reporter vector by using the genomic fragment around exon 8, and they visualized the regulation of exon 8 inclusion in the mouse [32].
The purified PCR products were sequenced by using the SGI1 LJR1 primer at Genome Express (Meylan, France) and were compared with the GenBank DNA sequence database by using the genomic BLASTN program.
Nevertheless, the protein-level homology that exists between related bacteria makes it possible to extract biological information from the proteome of an organism or microbial community by using the genomic sequences of a near neighbor organism.
At necropsy, liver tissues were collected, and DNA was extracted by using the Genomic DNA Mini Kit (BIOLINE, London, UK).
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To investigate whether luminal-simple-classified luminal A tumors also showed lower FGA in independent data sets, we analyzed the Chin et al. [ 3] aCGH data set by using the genomic-subtype classification from corresponding gene-expression data in the combined Affymetrix data set.
Retroviral infection was further assured by detection of proviral DNA by PCR using the genomic DNA of infected cells as templates [ 25].
The region containing kdr mutations within the para-sodium channel gene was amplified by PCR, using the genomic DNA from individual mosquitoes as template.
Genomic DNA was isolated from all dinoflagellate strains listed in Table 1 by either using the Genomic DNA plant ChargeSwitch® kit (Invitrogen) according to the manufacturer's protocol, or by the CTAB method [38].
The CAC1502 specific probe for DIG-DNA labeling was obtained by PCR using the genomic DNA of the wild type strain DSM1731 as a template and primers 163-CAC1502-probe1 &164-CAC1502-probe1.
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