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测量基因组大小多重比对的准确性。

Measuring the accuracy of genome-size multiple alignments.

作者信息

Prakash Amol, Tompa Martin

机构信息

Department of Computer Science and Engineering, University of Washington, Seattle, WA 98195-2350, USA.

出版信息

Genome Biol. 2007;8(6):R124. doi: 10.1186/gb-2007-8-6-r124.

DOI:10.1186/gb-2007-8-6-r124
PMID:17594489
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC2394773/
Abstract

Whole-genome alignments are invaluable for comparative genomics. Before doing any comparative analysis on a region of interest, one must have confidence in that region's alignment. We provide a methodology to measure the accuracy of arbitrary regions of these alignments, and apply it to the UCSC Genome Browser's 17-vertebrate alignment. We identify 9.7% (21 Mbp) of the human chromosome 1 alignment as suspiciously aligned. We present independent evidence that many of these suspicious regions represent misalignments.

摘要

全基因组比对对于比较基因组学而言具有极高价值。在对感兴趣的区域进行任何比较分析之前，必须对该区域的比对结果有信心。我们提供了一种方法来衡量这些比对中任意区域的准确性，并将其应用于加州大学圣克鲁兹分校基因组浏览器的17种脊椎动物比对。我们确定人类1号染色体比对中有9.7%（21兆碱基对）的区域比对存在可疑之处。我们提供了独立证据表明这些可疑区域中有许多代表了错误比对。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/c0725644ea61/gb-2007-8-6-r124-6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/3bc407269091/gb-2007-8-6-r124-1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/08f2c5e2103b/gb-2007-8-6-r124-2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/d0eb002fec15/gb-2007-8-6-r124-3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/b5c30147aa61/gb-2007-8-6-r124-4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/94a6ec5a1b19/gb-2007-8-6-r124-5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/c0725644ea61/gb-2007-8-6-r124-6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/3bc407269091/gb-2007-8-6-r124-1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/08f2c5e2103b/gb-2007-8-6-r124-2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/d0eb002fec15/gb-2007-8-6-r124-3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/b5c30147aa61/gb-2007-8-6-r124-4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/94a6ec5a1b19/gb-2007-8-6-r124-5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c914/2394773/c0725644ea61/gb-2007-8-6-r124-6.jpg

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