TY - JOUR AU - Smith, Andrew D. AU - Xuan, Zhenyu AU - Zhang, Michael Q. PY - 2008 DA - 2008/02/28 TI - Using quality scores and longer reads improves accuracy of Solexa read mapping JO - BMC Bioinformatics SP - 128 VL - 9 IS - 1 AB - Second-generation sequencing has the potential to revolutionize genomics and impact all areas of biomedical science. New technologies will make re-sequencing widely available for such applications as identifying genome variations or interrogating the oligonucleotide content of a large sample (e.g. ChIP-sequencing). The increase in speed, sensitivity and availability of sequencing technology brings demand for advances in computational technology to perform associated analysis tasks. The Solexa/Illumina 1G sequencer can produce tens of millions of reads, ranging in length from ~25–50 nt, in a single experiment. Accurately mapping the reads back to a reference genome is a critical task in almost all applications. Two sources of information that are often ignored when mapping reads from the Solexa technology are the 3' ends of longer reads, which contain a much higher frequency of sequencing errors, and the base-call quality scores. SN - 1471-2105 UR - https://doi.org/10.1186/1471-2105-9-128 DO - 10.1186/1471-2105-9-128 ID - Smith2008 ER -