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Example sentences for: lbnl
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Both of the sequencing centers that participated in the finishing effort, Lawrence Berkeley National Laboratory (LBNL) and the Human Genome Sequencing Center, Baylor College of Medicine (HGSC), have extensive experience in finishing the sequence of individual BAC clones.
At LBNL, Release 3 BAC sequence assemblies were also compared to the Release 2 sequence from that region using Sim4 to analyze the large-scale assembly, and Sim3 to identify base-pair differences.
Chromosome arm assemblies were generated by determining the overlap between neighboring BACs using pslayout (LBNL) a program developed for this purpose as part of the human genome project [ 42] or by BLAST (HGSC).
0. At LBNL, BAC end sequences were manually tagged, and if the assembly was in more than one contig, gap sizes were estimated using Consed and phrapview version 0.960731 [ 10].
With an estimated gap size, LBNL used one of five gap-filling methods to determine their sequence: first, gaps less than 500 bp were sequenced using custom primers designed by consed and a 3-kb or 10-kb plasmid as DNA template; second, gaps between 500 bp and 2.5 kb that were spanned by a 3-kb clone were completed by sequencing the 3-kb clone using a transposon-based sequencing strategy, described below; third, gaps between 2.5 kb and 10 kb that were spanned by a 10-kb clone were completed by sequencing the 10-kb clone using a transposon-mediated sequencing strategy; fourth, gaps larger than 10 kb were completed by sequentially sequencing multiple 10-kb clones to walk across the gap.
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