Selected article for: "analysis batch and base call"
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_5
    Snippet: Here, we discuss some of these systematic effects and report a novel bioinformatic filtering approach to mitigate them. Our approach increased base-call accuracy and significantly reduced false positives for whole-genome resequencing of Francisella tularensis using Affymetrix, Inc. GeneChip Õ 300 K resequencing arrays. Francisella tularensis is the causative agent of tularemia in humans and a select A agent. Our approach will lead to a more reli.....
    Document: Here, we discuss some of these systematic effects and report a novel bioinformatic filtering approach to mitigate them. Our approach increased base-call accuracy and significantly reduced false positives for whole-genome resequencing of Francisella tularensis using Affymetrix, Inc. GeneChip Õ 300 K resequencing arrays. Francisella tularensis is the causative agent of tularemia in humans and a select A agent. Our approach will lead to a more reliable global SNP identification and genotyping platform. Genotyping of strains globally at a single nucleotide resolution will prove useful for both basic and applied areas of biodefense and infectious disease research. Table 1 ), used in batch analysis of data. Genomic DNA samples were stored at À808C. The whole-genome resequencing was performed in duplicate for all sequences used in the batch analysis and query strains were sequenced in quadruplicate.

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