Using Plink [41], we analyzed 76 novel SNPs called in the SureSelect libraries and 108 novel SNPs called in the Nimblegen libraries that were called in the child and at least one of the parents and were sequenced to at least ten fold coverage in all three samples.
We verified that the 2 SNP alleles called in the E and G libraries matched the 2 alleles recorded in the 1000GP data and assigned the L1 allele to either allele 1 or 2 depending on the match of the SNP allele called from the G library to the first or the second SNP allele recorded in the 1000GP data, respectively.
Just as the music audience now juggles and reorders songs into new albums (or "playlists," as they are called in iTunes), the universal library will encourage the creation of virtual "bookshelves" — a collection of texts, some as short as a paragraph, others as long as entire books, that form a library shelf's worth of specialized information.
"You are really showing the world that the most important domestic priority of ours -- and that's the education of children -- is going to go forward," Mr. Bush told Mr. Levy, who took the call in the library of Public School 41 in Greenwich Village as reporters looked on.
Most of the incorrect calls in the library construction-based barcoding method were due to low coverage of specific alleles (Table 6).
Focusing on high-quality calls from the 1000GP (i.e. GQ > 10), we identified 68 (out of 3,158) and 84 (out of 3,360) discordant calls in the E and G libraries, respectively.
A mobile library began calling in the 1960s and for a time called once per month.
Christine Pastorek, a violinist who joined the symphony in 1969, called the library "the lifeblood of your orchestra".
For each DNA sample, the number of SNPs called was higher in the library that was prepared using the Nimblegen method than in the one prepared with the SureSelect method.
Upon individual PCR validation, we found that only 16 calls in the E library and 42 calls in the G library were actual genotyping errors in our experiment (which also suggests that genotyping accuracy for Alu insertions in the 1000GP was much better than overall accuracy aggregated over several transposable elements and, in particular better than for L1s).
