Author: Pandya, Gagan A.; Holmes, Michael H.; Sunkara, Sirisha; Sparks, Andrew; Bai, Yun; Verratti, Kathleen; Saeed, Kelly; Venepally, Pratap; Jarrahi, Behnam; Fleischmann, Robert D.; Peterson, Scott N.
Title: A bioinformatic filter for improved base-call accuracy and polymorphism detection using the Affymetrix GeneChip® whole-genome resequencing platform Document date: 2007_11_15
ID: 16tii0ha_40
Snippet: The comparative analysis of multiple genomic sequences highlights the extreme variability that exists within many, if not most, microbial species (14, 15) . Sequence information from multiple species of a selected few microbes have clearly indicated that a single reference genome only provides a limited genomic overview of a species (16) and is not sufficient in understanding the genetic potential of an organism. The genomic plasticity evident in.....
Document: The comparative analysis of multiple genomic sequences highlights the extreme variability that exists within many, if not most, microbial species (14, 15) . Sequence information from multiple species of a selected few microbes have clearly indicated that a single reference genome only provides a limited genomic overview of a species (16) and is not sufficient in understanding the genetic potential of an organism. The genomic plasticity evident in microbial For these results, a quality score threshold of 12 and a call rate cutoff of zero were used, as explained in the text. All base positions on the chip set were considered (LVS, SCHU S4 and plasmid reference sequences). This accounts for the much higher SNP count from chip F in the LVS experiments.
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