Methods for integration site distribution analyses in animal cell genomes

被引：39

作者：

Ciuffi, Angela ^{[2
,3
]}

Ronen, Keshet ^{[1
]}

Brady, Troy ^{[1
]}

Malani, Nirav ^{[1
]}

Wang, Gary ^{[1
]}

Berry, Charles C. ^{[4
]}

Bushman, Frederic D. ^{[1
]}

机构：

[1] Univ Penn, Sch Med, Dept Microbiol, Philadelphia, PA 19104 USA

[2] Univ Lausanne, CH-1011 Lausanne, Switzerland

[3] Univ Hosp Ctr, Inst Microbiol, CH-1011 Lausanne, Switzerland

[4] Univ Calif San Diego, Sch Med, Dept Family Prevent Med, San Diego, CA USA

来源：

METHODS | 2009年 / 47卷 / 04期

基金：

瑞士国家科学基金会;

关键词：

Integration sites; HIV; Retroviral DNA; Genomic; HUMAN-IMMUNODEFICIENCY-VIRUS; RETROVIRAL DNA INTEGRATION; TYPE-1 PREINTEGRATION COMPLEXES; I-HYPERSENSITIVE SITES; VIVO GENE DELIVERY; HIV-1; INTEGRASE; VIRAL-DNA; WIDE ANALYSIS; DIRECTS INTEGRATION; NONDIVIDING CELLS;

D O I：

10.1016/j.ymeth.2008.10.028

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

The question of where retroviral DNA becomes integrated in chromosomes is important for understanding (i) the mechanisms of viral growth, (ii) devising new anti-retroviral therapy, (iii) understanding how genomes evolve, and (iv) developing safer methods for gene therapy. With the completion of genome sequences for many organisms, it has become Possible to Study integration targeting by cloning and sequencing large numbers of host-virus DNA junctions, then mapping the host DNA segments back onto the genomic sequence. This allows statistical analysis of the distribution of integration sites relative to the myriad types of genomic features that are also being mapped onto the sequence scaffold. Here we present methods for recovering and analyzing integration site sequences. (C) 2008 Elsevier Inc. All rights reserved.

引用

页码：261 / 268

页数：8

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