Criteria for effective design, construction, and gene knockdown by shRNA vectors
Debra J Taxman, Laura R Livingstone, Jinghua Zhang, Brian J Conti, Heather A Iocca, Kristi L Williams, John D Lich, Jenny P-Y Ting, William Reed
BMC Biotechnol. 2006; 6: 7. Published online 2006 Jan 24. doi: 10.1186/1472-6750-6-7
PMCID:
PMC1409772
Article PubReader PDF–758KCitation

Is Cited by the Following 41 Articles in this Archive:

Critical factors for lentivirus-mediated PRDX4 gene transfer in the HepG2 cell line
Afiah Nasuha Aznan, Norwahidah Abdul Karim, Wan Zurinah Wan Ngah, Zakiah Jubri
Oncol Lett. 2018 Jul; 16(1): 73–82. Published online 2018 May 7. doi: 10.3892/ol.2018.8650
PMCID:
PMC6006497
Article PubReader PDF–1.6MCitation
Dicer-independent processing of small RNA duplexes: mechanistic insights and applications
Elena Herrera-Carrillo, Ben Berkhout
Nucleic Acids Res. 2017 Oct 13; 45(18): 10369–10379. Published online 2017 Aug 31. doi: 10.1093/nar/gkx779
PMCID:
PMC5737282
Article PubReader PDF–1.5MCitation
Novel AgoshRNA molecules for silencing of the CCR5 co-receptor for HIV-1 infection
Elena Herrera-Carrillo, Ben Berkhout
PLoS One. 2017; 12(5): e0177935. Published online 2017 May 24. doi: 10.1371/journal.pone.0177935
PMCID:
PMC5443530
Article PubReader PDF–7.4MCitation
Prediction of ultra-potent shRNAs with a sequential classification algorithm
Raphael Pelossof, Lauren Fairchild, Chun-Hao Huang, Christian Widmer, Vipin T. Sreedharan, Nishi Sinha, Dan-Yu Lai, Yuanzhe Guan, Prem K. Premsrirut, Darjus F. Tschaharganeh, Thomas Hoffmann, Vishal Thapar, Qing Xiang, Ralph J. Garippa, Gunnar Rätsch, Johannes Zuber, Scott W. Lowe, Christina S. Leslie, Christof Fellmann
Nat Biotechnol. 2017 Apr; 35(4): 350–353. Published online 2017 Mar 6. doi: 10.1038/nbt.3807
PMCID:
PMC5416823
Article PubReader PDF–493KCitation
The influence of the 5΄-terminal nucleotide on AgoshRNA activity and biogenesis: importance of the polymerase III transcription initiation site
Elena Herrera-Carrillo, Zong-liang Gao, Alex Harwig, Matthias T. Heemskerk, Ben Berkhout
Nucleic Acids Res. 2017 Apr 20; 45(7): 4036–4050. Published online 2016 Dec 7. doi: 10.1093/nar/gkw1203
PMCID:
PMC5397164
Article PubReader PDF–6.9MCitation
Nuclear Phosphoproteomic Screen Uncovers ACLY as Mediator of IL-2-induced Proliferation of CD4+ T lymphocytes
Nerea Osinalde, Jone Mitxelena, Virginia Sánchez-Quiles, Vyacheslav Akimov, Kerman Aloria, Jesus M. Arizmendi, Ana M. Zubiaga, Blagoy Blagoev, Irina Kratchmarova
Mol Cell Proteomics. 2016 Jun; 15(6): 2076–2092. Published online 2016 Apr 11. doi: 10.1074/mcp.M115.057158
PMCID:
PMC5083085
Article PubReader PDF–2.8MCitation
Recent advances in RNAi-based strategies for Therapy and Prevention of HIV-1/AIDS
Manjunath N. Swamy, Haoquan Wu, Premlata Shankar
Adv Drug Deliv Rev. Author manuscript; available in PMC 2017 Aug 1.
Published in final edited form as: Adv Drug Deliv Rev. 2016 Aug 1; 103: 174–186. Published online 2016 Mar 21. doi: 10.1016/j.addr.2016.03.005
PMCID:
PMC4935623
Article PubReader PDF–839KCitation
E6 and E7 gene silencing results in decreased methylation of tumor suppressor genes and induces phenotype transformation of human cervical carcinoma cell lines
Liming Li, Cui Xu, Jia Long, Danbei Shen, Wuqing Zhou, Qiyan Zhou, Jia Yang, Mingjun Jiang
Oncotarget. 2015 Sep 15; 6(27): 23930–23943. Published online 2015 Jun 19. doi: 10.18632/oncotarget.4525
PMCID:
PMC4695162
Article PubReader PDF–1.8MCitation
E6/E7 oncoproteins of high risk HPV-16 upregulate MT1-MMP, MMP-2 and MMP-9 and promote the migration of cervical cancer cells
Dingjun Zhu, Mei Ye, Wei Zhang
Int J Clin Exp Pathol. 2015; 8(5): 4981–4989. Published online 2015 May 1.
PMCID:
PMC4503063
Article PubReader PDF–2.0MCitation
Advances in CRISPR-Cas9 genome engineering: lessons learned from RNA interference
Rodolphe Barrangou, Amanda Birmingham, Stefan Wiemann, Roderick L. Beijersbergen, Veit Hornung, Anja van Brabant Smith
Nucleic Acids Res. 2015 Apr 20; 43(7): 3407–3419. Published online 2015 Mar 23. doi: 10.1093/nar/gkv226
PMCID:
PMC4402539
Article PubReader PDF–1.5MCitation
Phosphorylation Site Dynamics of Early T-cell Receptor Signaling
Lily A. Chylek, Vyacheslav Akimov, Jörn Dengjel, Kristoffer T. G. Rigbolt, Bin Hu, William S. Hlavacek, Blagoy Blagoev
PLoS One. 2014; 9(8): e104240. Published online 2014 Aug 22. doi: 10.1371/journal.pone.0104240
PMCID:
PMC4141737
Article PubReader PDF–1.1MCitation
HIV-1 Infection Induces Interleukin-1β Production via TLR8 Protein-dependent and NLRP3 Inflammasome Mechanisms in Human Monocytes
Haitao Guo, Jianmei Gao, Debra J. Taxman, Jenny P. Y. Ting, Lishan Su
J Biol Chem. 2014 Aug 1; 289(31): 21716–21726. Published online 2014 Jun 17. doi: 10.1074/jbc.M114.566620
PMCID:
PMC4118130
Article PubReader PDF–1.5MCitation
Stable RNA interference rules for silencing
Christof Fellmann, Scott W. Lowe
Nat Cell Biol. Author manuscript; available in PMC 2014 Apr 28.
Published in final edited form as: Nat Cell Biol. 2014 Jan; 16(1): 10–18. doi: 10.1038/ncb2895
PMCID:
PMC4001088
Article PubReader PDF–689KCitation
CC-Chemokine Receptor 5 on Pulmonary Mesenchymal Cells Promotes Experimental Metastasis via the Induction of Erythroid Differentiation Regulator 1
Robert L Mango, Qing Ping Wu, Michelle West, Everett C. McCook, Jonathan S Serody, Hendrik W van Deventer
Mol Cancer Res. Author manuscript; available in PMC 2015 Feb 1.
Published in final edited form as: Mol Cancer Res. 2014 Feb; 12(2): 274–282. Published online 2013 Nov 6. doi: 10.1158/1541-7786.MCR-13-0164
PMCID:
PMC3933187
Article PubReader PDF–1.6MCitation
An in silico approach to design potential siRNA molecules for ICP22 (US1) gene silencing of different strains of human herpes simplex 1
Suza Mohammad Nur, Mohammad Al Amin, Rashel Alam, Md Anayet Hasan, Md Amzad Hossain, Adnan Mannan
J Young Pharm. 2013 Jun; 5(2): 46–49. Published online 2013 Jun 20. doi: 10.1016/j.jyp.2013.05.001
PMCID:
PMC3758079
Article PubReader PDF–786KCitation
Use of RNA Interference by In Utero Electroporation to Study Cortical Development: The Example of the Doublecortin Superfamily
Orly Reiner, Anna Gorelik, Raanan Greenman
Genes (Basel) 2012 Dec; 3(4): 759–778. Published online 2012 Nov 21. doi: 10.3390/genes3040759
PMCID:
PMC3899981
Article PubReader PDF–645KCitation
Staphylococcus aureus Panton-Valentine leukocidin induces an inflammatory response in human phagocytes via the NLRP3 inflammasome
Dirk Holzinger, Laura Gieldon, Vijayashree Mysore, Nadine Nippe, Debra J. Taxman, Joseph A. Duncan, Peter M. Broglie, Kristina Marketon, Judith Austermann, Thomas Vogl, Dirk Foell, Silke Niemann, Georg Peters, Johannes Roth, Bettina Löffler
J Leukoc Biol. 2012 Nov; 92(5): 1069–1081. doi: 10.1189/jlb.0112014
PMCID:
PMC3476237
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ASC-dependent RIP2 Kinase Regulates Reduced PGE2 Production in Chronic Periodontitis
D.J. Taxman, Y. Lei, S. Zhang, E. Holley-Guthrie, S. Offenbacher, J.P.-Y. Ting
J Dent Res. 2012 Sep; 91(9): 877–882. doi: 10.1177/0022034512454541
PMCID:
PMC3420395
Article PubReader PDF–967KCitation
Optimized models for design of efficient miR30-based shRNAs
Olga V. Matveeva, Nafisa N. Nazipova, Aleksey Y. Ogurtsov, Svetlana A. Shabalina
Front Genet. 2012; 3: 163. Published online 2012 Aug 29. doi: 10.3389/fgene.2012.00163
PMCID:
PMC3429853
Article PubReader PDF–1.7MCitation
Functional Selection of shRNA Loops from Randomized Retroviral Libraries
Stig Mølgaard Rask Jensen, Alexander Schmitz, Finn Skou Pedersen, Jørgen Kjems, Jesper Bertram Bramsen
PLoS One. 2012; 7(8): e43095. Published online 2012 Aug 17. doi: 10.1371/journal.pone.0043095
PMCID:
PMC3422301
Article PubReader PDF–659KCitation
The innate immune sensor NLRC3 attenuates Toll-like receptor signaling via modification of the signaling adaptor TRAF6 and transcription factor NF-κB
Monika Schneider, Albert G Zimmermann, Reid A Roberts, Lu Zhang, Karen V Swanson, Haitao Wen, Beckley K Davis, Irving C Allen, Eda K Holl, Zhengmao Ye, Adeeb H Rahman, Brian J Conti, Timothy K Eitas, Beverly H Koller, Jenny P-Y Ting
Nat Immunol. Author manuscript; available in PMC 2013 Sep 1.
Published in final edited form as: Nat Immunol. 2012 Sep; 13(9): 823–831. Published online 2012 Aug 5. doi: 10.1038/ni.2378
PMCID:
PMC3721195
Article PubReader PDF–967KCitation
Role of Lipid Rafts and Flagellin in Invasion of Colonic Epithelial Cells by Shiga-Toxigenic Escherichia coli O113:H21
Trisha J. Rogers, Cheleste M. Thorpe, Adrienne W. Paton, James C. Paton
Infect Immun. 2012 Aug; 80(8): 2858–2867. doi: 10.1128/IAI.00336-12
PMCID:
PMC3434589
Article PubReader PDF–1.7MCitation
SHAPE-directed Discovery of Potent shRNA Inhibitors of HIV-1
Justin T Low, Stefanie A Knoepfel, Joseph M Watts, Olivier ter Brake, Ben Berkhout, Kevin M Weeks
Mol Ther. 2012 Apr; 20(4): 820–828. Published online 2012 Feb 7. doi: 10.1038/mt.2011.299
PMCID:
PMC3321596
Article PubReader PDF–407KCitation
Directed HIV-1 Evolution of Protease Inhibitor Resistance by Second-Generation Short Hairpin RNAs
Nick C. T. Schopman, Anja Braun, Ben Berkhout
Antimicrob Agents Chemother. 2012 Jan; 56(1): 479–486. doi: 10.1128/AAC.05491-11
PMCID:
PMC3256055
Article PubReader PDF–1.0MCitation
Targeted Gene-Silencing Reveals the Functional Significance of Myocardin Signaling in the Failing Heart
Mario Torrado, Raquel Iglesias, Alberto Centeno, Eduardo López, Alexander T. Mikhailov
PLoS One. 2011; 6(10): e26392. Published online 2011 Oct 18. doi: 10.1371/journal.pone.0026392
PMCID:
PMC3196561
Article PubReader PDF–979KCitation
An RNAi in silico approach to find an optimal shRNA cocktail against HIV-1
María C Méndez-Ortega, Silvia Restrepo, Luis M Rodríguez-R, Iván Pérez, Juan C Mendoza, Andrés P Martínez, Roberto Sierra, Gloria J Rey-Benito
Virol J. 2010; 7: 369. Published online 2010 Dec 20. doi: 10.1186/1743-422X-7-369
PMCID:
PMC3022682
Article PubReader PDF–1.6MCitation
RNA Interference for improving the Outcome of Islet Transplantation
Feng Li, Ram I Mahato
Adv Drug Deliv Rev. 2011 Jan–Feb; 63(1-2): 47–68. Published online 2010 Dec 13. doi: 10.1016/j.addr.2010.11.003
PMCID:
PMC3065652
Article PubReader PDF–2.4MCitation
DJ-1 Enhances Cell Survival through the Binding of Cezanne, a Negative Regulator of NF-κB
R. Sean McNally, Beckley K. Davis, Casey M. Clements, Mary Ann Accavitti-Loper, Tak W. Mak, Jenny P.-Y. Ting
J Biol Chem. 2011 Feb 11; 286(6): 4098–4106. Published online 2010 Nov 19. doi: 10.1074/jbc.M110.147371
PMCID:
PMC3039338
Article PubReader PDF–939KCitation
Regulation of U6 Promoter Activity by Transcriptional Interference in Viral Vector-Based RNAi
Linghu Nie, Meghna Das Thakur, Yumei Wang, Qin Su, Yongliang Zhao, Yunfeng Feng
Genomics Proteomics Bioinformatics. 2010 Sep; 8(3): 170–179. Published online 2010 Oct 21. doi: 10.1016/S1672-0229(10)60019-8
PMCID:
PMC5054135
Article PubReader PDF–548KCitation
Upregulation of synaptotagmin IV inhibits transmitter release in PC12 cells with targeted synaptotagmin I knockdown
Johnnie M Moore-Dotson, Jason B Papke, Amy B Harkins
BMC Neurosci. 2010; 11: 104. Published online 2010 Aug 24. doi: 10.1186/1471-2202-11-104
PMCID:
PMC2939654
Article PubReader PDF–1.1MCitation