Literature DB >> 24901560

NGS library preparation may generate artifactual integration sites of AAV vectors.

Benjamin Cogné1, Richard Snyder2, Pierre Lindenbaum3, Jean-Baptiste Dupont1, Richard Redon3, Philippe Moullier4, Adrien Leger1.   

Abstract

Mesh：

Year:  2014        PMID： 24901560     DOI： 10.1038/nm.3578

Source DB:  PubMed          Journal:  Nat Med        ISSN： 1078-8956            Impact factor:   53.440


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  13 in total

1.  Integration frequency and intermolecular recombination of rAAV vectors in non-human primate skeletal muscle and liver.

Authors:  Ali Nowrouzi; Magalie Penaud-Budloo; Christine Kaeppel; Uwe Appelt; Caroline Le Guiner; Philippe Moullier; Christof von Kalle; Richard O Snyder; Manfred Schmidt
Journal:  Mol Ther       Date:  2012-03-27       Impact factor: 11.454

2.  Bias and artifacts in multitemplate polymerase chain reactions (PCR).

Authors:  Takahiro Kanagawa
Journal:  J Biosci Bioeng       Date:  2003       Impact factor: 2.894

3.  A largely random AAV integration profile after LPLD gene therapy.

Authors:  Christine Kaeppel; Stuart G Beattie; Raffaele Fronza; Richard van Logtenstein; Florence Salmon; Sabine Schmidt; Stephan Wolf; Ali Nowrouzi; Hanno Glimm; Christof von Kalle; Harald Petry; Daniel Gaudet; Manfred Schmidt
Journal:  Nat Med       Date:  2013-06-16       Impact factor: 53.440

4.  CREST maps somatic structural variation in cancer genomes with base-pair resolution.

Authors:  Jianmin Wang; Charles G Mullighan; John Easton; Stefan Roberts; Sue L Heatley; Jing Ma; Michael C Rusch; Ken Chen; Christopher C Harris; Li Ding; Linda Holmfeldt; Debbie Payne-Turner; Xian Fan; Lei Wei; David Zhao; John C Obenauer; Clayton Naeve; Elaine R Mardis; Richard K Wilson; James R Downing; Jinghui Zhang
Journal:  Nat Methods       Date:  2011-06-12       Impact factor: 28.547

5.  A genome-wide analysis of lentivector integration sites using targeted sequence capture and next generation sequencing technology.

Authors:  Duran Ustek; Sema Sirma; Ergun Gumus; Muzaffer Arikan; Aris Cakiris; Neslihan Abaci; Jaicy Mathew; Zeliha Emrence; Hulya Azakli; Fulya Cosan; Atilla Cakar; Mahmut Parlak; Olcay Kursun
Journal:  Infect Genet Evol       Date:  2012-05-14       Impact factor: 3.342

6.  Patterns of scAAV vector insertion associated with oncogenic events in a mouse model for genotoxicity.

Authors:  Lucia E Rosas; Jessica L Grieves; Kimberly Zaraspe; Krista Md La Perle; Haiyan Fu; Douglas M McCarty
Journal:  Mol Ther       Date:  2012-09-18       Impact factor: 11.454

7.  A large genome center's improvements to the Illumina sequencing system.

Authors:  Michael A Quail; Iwanka Kozarewa; Frances Smith; Aylwyn Scally; Philip J Stephens; Richard Durbin; Harold Swerdlow; Daniel J Turner
Journal:  Nat Methods       Date:  2008-12       Impact factor: 28.547

8.  VirusFinder: software for efficient and accurate detection of viruses and their integration sites in host genomes through next generation sequencing data.

Authors:  Qingguo Wang; Peilin Jia; Zhongming Zhao
Journal:  PLoS One       Date:  2013-05-24       Impact factor: 3.240

9.  Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing.

Authors:  Andreas Gnirke; Alexandre Melnikov; Jared Maguire; Peter Rogov; Emily M LeProust; William Brockman; Timothy Fennell; Georgia Giannoukos; Sheila Fisher; Carsten Russ; Stacey Gabriel; David B Jaffe; Eric S Lander; Chad Nusbaum
Journal:  Nat Biotechnol       Date:  2009-02-01       Impact factor: 54.908

10.  Next-generation sequencing of mitochondrial targeted AAV transfer of human ND4 in mice.

Authors:  Hong Yu; Arpit Mehta; Gaofeng Wang; William W Hauswirth; Vince Chiodo; Sanford L Boye; John Guy
Journal:  Mol Vis       Date:  2013-07-14       Impact factor: 2.367
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  9 in total

1.  Reply to: NGS library preparation may generate artifactual integration sites of AAV vectors.

Authors:  Christine Kaeppel; Stuart G Beattie; Raffaele Fronza; Richard van Logtenstein; Florence Salmon; Sabine Schmidt; Stephan Wolf; Ali Nowrouzi; Hanno Glimm; Christof von Kalle; Harald Petry; Daniel Gaudet; Manfred Schmidt
Journal:  Nat Med       Date:  2014-06       Impact factor: 53.440

2.  Consequences of zygote injection and germline transfer of mutant human mitochondrial DNA in mice.

Authors:  Hong Yu; Rajeshwari D Koilkonda; Tsung-Han Chou; Vittorio Porciatti; Arpit Mehta; Ian D Hentall; Vince A Chiodo; Sanford L Boye; William W Hauswirth; Alfred S Lewin; John Guy
Journal:  Proc Natl Acad Sci U S A       Date:  2015-10-05       Impact factor: 11.205

Review 3.  Human artificial chromosomes for Duchenne muscular dystrophy and beyond: challenges and hopes.

Authors:  Francesco Saverio Tedesco
Journal:  Chromosome Res       Date:  2015-02       Impact factor: 5.239

4.  Direct Head-to-Head Evaluation of Recombinant Adeno-associated Viral Vectors Manufactured in Human versus Insect Cells.

Authors:  Oleksandr Kondratov; Damien Marsic; Sean M Crosson; Hector R Mendez-Gomez; Oleksandr Moskalenko; Mario Mietzsch; Regine Heilbronn; Jonathan R Allison; Kari B Green; Mavis Agbandje-McKenna; Sergei Zolotukhin
Journal:  Mol Ther       Date:  2017-08-10       Impact factor: 11.454

5.  Long-Term Sustained Effect of Liver-Targeted Adeno-Associated Virus Gene Therapy for Mitochondrial Neurogastrointestinal Encephalomyopathy.

Authors:  Javier Torres-Torronteras; Raquel Cabrera-Pérez; Ferran Vila-Julià; Carlo Viscomi; Yolanda Cámara; Michio Hirano; Massimo Zeviani; Ramon Martí
Journal:  Hum Gene Ther       Date:  2018-02-26       Impact factor: 4.793

6.  Gene activity in primary T cells infected with HIV89.6: intron retention and induction of genomic repeats.

Authors:  Scott Sherrill-Mix; Karen E Ocwieja; Frederic D Bushman
Journal:  Retrovirology       Date:  2015-09-17       Impact factor: 4.602

7.  A long-term study of AAV gene therapy in dogs with hemophilia A identifies clonal expansions of transduced liver cells.

Authors:  Giang N Nguyen; John K Everett; Samita Kafle; Aoife M Roche; Hayley E Raymond; Jacob Leiby; Christian Wood; Charles-Antoine Assenmacher; Elizabeth P Merricks; C Tyler Long; Haig H Kazazian; Timothy C Nichols; Frederic D Bushman; Denise E Sabatino
Journal:  Nat Biotechnol       Date:  2020-11-16       Impact factor: 54.908

Review 8.  Tn5 Transposase Applied in Genomics Research.

Authors:  Niannian Li; Kairang Jin; Yanmin Bai; Haifeng Fu; Lin Liu; Bin Liu
Journal:  Int J Mol Sci       Date:  2020-11-06       Impact factor: 5.923

9.  Advanced Characterization of DNA Molecules in rAAV Vector Preparations by Single-stranded Virus Next-generation Sequencing.

Authors:  Emilie Lecomte; Benoît Tournaire; Benjamin Cogné; Jean-Baptiste Dupont; Pierre Lindenbaum; Mélanie Martin-Fontaine; Frédéric Broucque; Cécile Robin; Matthias Hebben; Otto-Wilhelm Merten; Véronique Blouin; Achille François; Richard Redon; Philippe Moullier; Adrien Léger
Journal:  Mol Ther Nucleic Acids       Date:  2015-10-27       Impact factor: 10.183
  9 in total

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