指纹重叠群的组装：并行化的FPC

Assembly of fingerprint contigs: parallelized FPC.

作者信息

Ness S R, Terpstra W, Krzywinski M, Marra M A, Jones S J M

机构信息

Genome Sequence Centre, British Columbia Cancer Agency, 600 West 10th Avenue, Vancouver, BC V5Z 4E6, Canada.

出版信息

Bioinformatics. 2002 Mar;18(3):484-5. doi: 10.1093/bioinformatics/18.3.484.

DOI:10.1093/bioinformatics/18.3.484

PMID:11934749

Abstract

SUMMARY

One of the more common uses of the program FingerPrint Contigs (FPC) is to assemble random restriction digest 'fingerprints' of overlapping genomic clones into contigs. To improve the rate of assembling contigs from large fingerprint databases we have adapted FPC so that it can be run in parallel on multiple processors and servers. The current version of 'parallelized FPC' has been used in our laboratory to assemble mammalian BAC fingerprint databases, each containing more than 300000 BAC fingerprints.

AVAILABILITY

This parallelized version of FPC is available under the GNU GPL licence, and can be downloaded from ftp://ftp.bcgsc.bc.ca/pub/fpcd.

摘要

程序FingerPrint Contigs（FPC）较为常见的用途之一是将重叠基因组克隆的随机限制性酶切指纹组装成重叠群。为提高从大型指纹数据库组装重叠群的速度，我们对FPC进行了调整，使其能够在多个处理器和服务器上并行运行。我们实验室已使用当前版本的“并行化FPC”来组装哺乳动物BAC指纹数据库，每个数据库包含超过300000个BAC指纹。