Literature DB >> 19041944

Intensive RNAi with lentiviral vectors in mammalian cells.

Tanner Miest1, Dyana Saenz, Anne Meehan, Manuel Llano, Eric M Poeschla.   

Abstract

RNAi is a powerful technology for analyzing gene function in human cells. However, its utility can be compromised by inadequate knockdown of the target mRNA or by interpretation of effects without rigorous controls. We review lentiviral vector-based methods that enable transient or stable knockdowns to trace mRNA levels in human CD4+ T cell lines and other targets. Critical controls are reviewed, including rescue of the pre-knockdown phenotype by re-expression of the targeted gene. The time from thinking about a potential knockdown target to analysis of phenotypes can be as short as a few weeks.

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Year:  2008        PMID: 19041944      PMCID: PMC2879882          DOI: 10.1016/j.ymeth.2008.11.001

Source DB:  PubMed          Journal:  Methods        ISSN: 1046-2023            Impact factor:   3.608


  34 in total

1.  Synthetic shRNAs as potent RNAi triggers.

Authors:  Despina Siolas; Cara Lerner; Julja Burchard; Wei Ge; Peter S Linsley; Patrick J Paddison; Gregory J Hannon; Michele A Cleary
Journal:  Nat Biotechnol       Date:  2004-12-26       Impact factor: 54.908

Review 2.  Lentiviral vectors.

Authors:  Nils Loewen; Eric M Poeschla
Journal:  Adv Biochem Eng Biotechnol       Date:  2005       Impact factor: 2.635

Review 3.  Expressing short hairpin RNAs in vivo.

Authors:  Ola Snøve; John J Rossi
Journal:  Nat Methods       Date:  2006-09       Impact factor: 28.547

4.  Rational design and in vitro and in vivo delivery of Dicer substrate siRNA.

Authors:  Mohammed Amarzguioui; Patric Lundberg; Edouard Cantin; James Hagstrom; Mark A Behlke; John J Rossi
Journal:  Nat Protoc       Date:  2006       Impact factor: 13.491

5.  Synthetic dsRNA Dicer substrates enhance RNAi potency and efficacy.

Authors:  Dong-Ho Kim; Mark A Behlke; Scott D Rose; Mi-Sook Chang; Sangdun Choi; John J Rossi
Journal:  Nat Biotechnol       Date:  2004-12-26       Impact factor: 54.908

6.  Transient and stable knockdown of the integrase cofactor LEDGF/p75 reveals its role in the replication cycle of human immunodeficiency virus.

Authors:  Linos Vandekerckhove; Frauke Christ; Bénédicte Van Maele; Jan De Rijck; Rik Gijsbers; Chris Van den Haute; Myriam Witvrouw; Zeger Debyser
Journal:  J Virol       Date:  2006-02       Impact factor: 5.103

7.  An essential role for LEDGF/p75 in HIV integration.

Authors:  Manuel Llano; Dyana T Saenz; Anne Meehan; Phonphimon Wongthida; Mary Peretz; William H Walker; Wulin Teo; Eric M Poeschla
Journal:  Science       Date:  2006-09-07       Impact factor: 47.728

8.  A facile lentiviral vector system for expression of doxycycline-inducible shRNAs: knockdown of the pre-miRNA processing enzyme Drosha.

Authors:  Lars Aagaard; Mohammed Amarzguioui; Guihua Sun; Luis C Santos; Ali Ehsani; Hans Prydz; John J Rossi
Journal:  Mol Ther       Date:  2007-02-20       Impact factor: 11.454

9.  Functional polarity is introduced by Dicer processing of short substrate RNAs.

Authors:  Scott D Rose; Dong-Ho Kim; Mohammed Amarzguioui; Jeremy D Heidel; Michael A Collingwood; Mark E Davis; John J Rossi; Mark A Behlke
Journal:  Nucleic Acids Res       Date:  2005-07-26       Impact factor: 16.971

10.  LEDGF/p75 functions downstream from preintegration complex formation to effect gene-specific HIV-1 integration.

Authors:  Ming-Chieh Shun; Nidhanapati K Raghavendra; Nick Vandegraaff; Janet E Daigle; Siobhan Hughes; Paul Kellam; Peter Cherepanov; Alan Engelman
Journal:  Genes Dev       Date:  2007-07-15       Impact factor: 11.361

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  15 in total

1.  Dual selection mechanisms drive efficient single-gene reverse genetics for rotavirus.

Authors:  Shane D Trask; Zenobia F Taraporewala; Karl W Boehme; Terence S Dermody; John T Patton
Journal:  Proc Natl Acad Sci U S A       Date:  2010-10-11       Impact factor: 11.205

2.  Androgen receptor splice variants bind to constitutively open chromatin and promote abiraterone-resistant growth of prostate cancer.

Authors:  Yundong He; Ji Lu; Zhenqing Ye; Siyuan Hao; Liewei Wang; Manish Kohli; Donald J Tindall; Benyi Li; Runzhi Zhu; Liguo Wang; Haojie Huang
Journal:  Nucleic Acids Res       Date:  2018-02-28       Impact factor: 16.971

3.  Ubiquitin hydrolase UCH-L1 destabilizes mTOR complex 1 by antagonizing DDB1-CUL4-mediated ubiquitination of raptor.

Authors:  Sajjad Hussain; Andrew L Feldman; Chittaranjan Das; Steven C Ziesmer; Stephen M Ansell; Paul J Galardy
Journal:  Mol Cell Biol       Date:  2013-01-07       Impact factor: 4.272

4.  Genetic Ancestry Analysis Reveals Misclassification of Commonly Used Cancer Cell Lines.

Authors:  Stanley E Hooker; Leanne Woods-Burnham; K Sean Kimbro; Rick A Kittles; Madhavi Bathina; Stacy Lloyd; Priyatham Gorjala; Ranjana Mitra; Larisa Nonn
Journal:  Cancer Epidemiol Biomarkers Prev       Date:  2019-02-20       Impact factor: 4.254

5.  Senescent cells limit p53 activity via multiple mechanisms to remain viable.

Authors:  Ines Sturmlechner; Chance C Sine; Karthik B Jeganathan; Cheng Zhang; Raul O Fierro Velasco; Darren J Baker; Hu Li; Jan M van Deursen
Journal:  Nat Commun       Date:  2022-06-28       Impact factor: 17.694

6.  Mechanistic and pharmacological analyses of HIV-1 integration.

Authors:  Alan Engelman
Journal:  Methods       Date:  2009-04       Impact factor: 3.608

7.  Impact of TREM-2 gene silencing on inflammatory response of endotoxin-induced acute lung injury in mice.

Authors:  Dai Liu; Yanting Dong; Zhuola Liu; Bo Niu; Yaowei Wang; Xiaoling Gao
Journal:  Mol Cell Biochem       Date:  2014-06-11       Impact factor: 3.396

8.  TALEN knockout of the PSIP1 gene in human cells: analyses of HIV-1 replication and allosteric integrase inhibitor mechanism.

Authors:  Hind J Fadel; James H Morrison; Dyana T Saenz; James R Fuchs; Mamuka Kvaratskhelia; Stephen C Ekker; Eric M Poeschla
Journal:  J Virol       Date:  2014-06-18       Impact factor: 5.103

9.  USP44 regulates centrosome positioning to prevent aneuploidy and suppress tumorigenesis.

Authors:  Ying Zhang; Oded Foreman; Dennis A Wigle; Farhad Kosari; George Vasmatzis; Jeffrey L Salisbury; Jan van Deursen; Paul J Galardy
Journal:  J Clin Invest       Date:  2012-11-26       Impact factor: 14.808

10.  High-throughput screening for growth inhibitors using a yeast model of familial paraganglioma.

Authors:  Irina Bancos; John Paul Bida; Defeng Tian; Mary Bundrick; Kristen John; Molly Nelson Holte; Yeng F Her; Debra Evans; Dyana T Saenz; Eric M Poeschla; Derek Hook; Gunda Georg; L James Maher
Journal:  PLoS One       Date:  2013-02-22       Impact factor: 3.240

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