JOHN JOSEPH ROSSI

Summary

Affiliation: City of Hope National Medical Center
Country: USA

Publications

  1. ncbi RNAi in combination with a ribozyme and TAR decoy for treatment of HIV infection in hematopoietic cell gene therapy
    Mingjie Li
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Ann N Y Acad Sci 1082:172-9. 2006
  2. ncbi A dual function TAR Decoy serves as an anti-HIV siRNA delivery vehicle
    Hoshang J Unwalla
    Department of Microbiology and Immunology, Miller School of Medicine, University of Miami, Miami, FL 33136, USA
    Virol J 7:33. 2010
  3. ncbi Ribozyme therapy for HIV infection
    J J Rossi
    Department of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA, 91010, USA
    Adv Drug Deliv Rev 44:71-8. 2000
  4. ncbi Aptamer-targeted cell-specific RNA interference
    Jiehua Zhou
    Division of Molecular and Cellular Biology, Beckman Research Institute of City of Hope, City of Hope, Duarte, CA 91010, USA
    Silence 1:4. 2010
  5. ncbi Targeted cleavage: tuneable cis-cleaving ribozymes
    John J Rossi
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Proc Natl Acad Sci U S A 104:14881-2. 2007
  6. ncbi Genetic therapies against HIV
    John J Rossi
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of City of Hope, Duarte, California 91010, USA
    Nat Biotechnol 25:1444-54. 2007
  7. ncbi Partnering aptamer and RNAi technologies
    John J Rossi
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Mol Ther 14:461-2. 2006
  8. ncbi New hope for a microRNA therapy for liver cancer
    John J Rossi
    Department of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Cell 137:990-2. 2009
  9. ncbi Cholesterol paves the way for topically applied viricides
    J J Rossi
    Department of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Cell Host Microbe 5:6-7. 2009
  10. ncbi Novel Pol II fusion promoter directs human immunodeficiency virus type 1-inducible coexpression of a short hairpin RNA and protein
    Hoshang J Unwalla
    Department of Molecular Biology, Beckman Research Institute of the City of Hope, 1450 E Duarte Rd, Duarte, CA 91010, USA
    J Virol 80:1863-73. 2006

Research Grants

  1. Combinatorial use of anti-HIV RNA-based therapeutics
    John Rossi; Fiscal Year: 2006
  2. Expression of anti-HIV siRNA in blood cells.
    John Rossi; Fiscal Year: 2006
  3. Enhancing the Intracellular Functioning of anti-HIV RNAs
    John Rossi; Fiscal Year: 2007
  4. Combinatorial use of anti-HIV RNA-based therapeutics
    John Rossi; Fiscal Year: 2007
  5. Combinatorial use of anti-HIV RNA-based therapeutics
    John Rossi; Fiscal Year: 2009
  6. Expression of anti-HIV siRNA in Blood Cells
    John Rossi; Fiscal Year: 2009
  7. Combinatorial use of anti-HIV RNA-based therapeutics
    JOHN JOSEPH ROSSI; Fiscal Year: 2010
  8. YEAST SYSTEM FOR DEVELOPING ANTI-HIV-1 RIBOZYMES
    John Rossi; Fiscal Year: 1993
  9. COMBINATORIAL USE OF CCR5 RIBOZYMES WITH ANTI HIV1 RNAS
    John Rossi; Fiscal Year: 2001
  10. ENHANCING THE INTRACELLULAR FUNCTIONING OF HIV RIBOZYMES
    John Rossi; Fiscal Year: 2001

Collaborators

Detail Information

Publications88

  1. ncbi RNAi in combination with a ribozyme and TAR decoy for treatment of HIV infection in hematopoietic cell gene therapy
    Mingjie Li
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Ann N Y Acad Sci 1082:172-9. 2006
    ..This triple combination has proven to be highly effective for inhibiting HIV replication in primary hematopoietic cells, and is currently on track for human clinical application...
  2. ncbi A dual function TAR Decoy serves as an anti-HIV siRNA delivery vehicle
    Hoshang J Unwalla
    Department of Microbiology and Immunology, Miller School of Medicine, University of Miami, Miami, FL 33136, USA
    Virol J 7:33. 2010
    ..TARmiR was able to inhibit HIV gene expression as a TAR decoy and by RNA interference when challenged with infectious proviral DNA. The implications of this dual function therapeutic would be discussed...
  3. ncbi Ribozyme therapy for HIV infection
    J J Rossi
    Department of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA, 91010, USA
    Adv Drug Deliv Rev 44:71-8. 2000
    ..The following review covers the developments in anti-HIV-1 ribozyme usage over the past decade and summarizes the current state of ribozyme development for the purpose of inhibiting HIV-1 infection...
  4. ncbi Aptamer-targeted cell-specific RNA interference
    Jiehua Zhou
    Division of Molecular and Cellular Biology, Beckman Research Institute of City of Hope, City of Hope, Duarte, CA 91010, USA
    Silence 1:4. 2010
    ..The optimization and improvement of aptamer-targeted siRNAs for clinical translation are further highlighted...
  5. ncbi Targeted cleavage: tuneable cis-cleaving ribozymes
    John J Rossi
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Proc Natl Acad Sci U S A 104:14881-2. 2007
  6. ncbi Genetic therapies against HIV
    John J Rossi
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of City of Hope, Duarte, California 91010, USA
    Nat Biotechnol 25:1444-54. 2007
    ..The emergence of viral resistance can be addressed by therapies that use combinations of genetic agents and that inhibit both viral and host targets. Many of these strategies are being tested in ongoing and planned clinical trials...
  7. ncbi Partnering aptamer and RNAi technologies
    John J Rossi
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Mol Ther 14:461-2. 2006
  8. ncbi New hope for a microRNA therapy for liver cancer
    John J Rossi
    Department of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Cell 137:990-2. 2009
    ..Kota et al. (2009) now explore in a mouse model a promising new approach for the treatment of liver cancer-re-establishing the expression of an miRNA using a viral vector...
  9. ncbi Cholesterol paves the way for topically applied viricides
    J J Rossi
    Department of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Cell Host Microbe 5:6-7. 2009
    ..2009) demonstrate that cholesterol-conjugated small interfering RNAs (siRNAs) targeting a cellular receptor combined with an antiviral siRNA when topically applied to mucosal tissue blocked lethal herpes virus infections in mice...
  10. ncbi Novel Pol II fusion promoter directs human immunodeficiency virus type 1-inducible coexpression of a short hairpin RNA and protein
    Hoshang J Unwalla
    Department of Molecular Biology, Beckman Research Institute of the City of Hope, 1450 E Duarte Rd, Duarte, CA 91010, USA
    J Virol 80:1863-73. 2006
    ..This dual expression system has broad-based potential for other shRNA applications, such as cases where simultaneous knockdown of mutant and wild-type transcripts must be accompanied by replacement of the wild-type protein...
  11. ncbi Stopping RNA interference at the seed
    John J Rossi
    Department of Molecular and Cellular Biology, Beckman Research Institute of the City of Hope, Duarte, California, USA
    Nat Genet 43:288-9. 2011
    ..MicroRNAs (miRNAs) regulate expression of more than one half of the genes in the human genome. A study now reports a new method for selectively silencing whole families of miRNAs, thus providing a new paradigm for disease therapy...
  12. ncbi The application of ribozymes to HIV infection
    J J Rossi
    Department of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Curr Opin Mol Ther 1:316-22. 1999
    ..The successful applications of ribozymes against HIV-1 in preclinical settings has now set the stage for their testing in patient trials and several first phase clinical trials are currently underway...
  13. ncbi Regulation of monocyte chemoattractant protein-1 by the oxidized lipid, 13-hydroperoxyoctadecadienoic acid, in vascular smooth muscle cells via nuclear factor-kappa B (NF-kappa B)
    Roopashree S Dwarakanath
    Departments of Diabetes, Beckman Research Institute of City of Hope, Duarte, CA 91010, USA
    J Mol Cell Cardiol 36:585-95. 2004
    ..These results show for the first time that 13-HPODE can induce MCP-1 in the vasculature via activation of NF-kappa B...
  14. ncbi Approaches for chemically synthesized siRNA and vector-mediated RNAi
    Mohammed Amarzguioui
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, 1450 East Duarte Road, Duarte, CA 91010-3011, USA
    FEBS Lett 579:5974-81. 2005
    ....
  15. ncbi Inhibition of HIV-1 infection by lentiviral vectors expressing Pol III-promoted anti-HIV RNAs
    Ming-Jie Li
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    Mol Ther 8:196-206. 2003
    ....
  16. ncbi Optimization and characterization of tRNA-shRNA expression constructs
    Lisa J Scherer
    Department of Molecular Biology Beckman Research Institute of the City of Hope, 1450 E Duarte Road, Duarte, California 91010, USA
    Nucleic Acids Res 35:2620-8. 2007
    ....
  17. ncbi Novel dual inhibitory function aptamer-siRNA delivery system for HIV-1 therapy
    Jiehua Zhou
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California, USA
    Mol Ther 16:1481-9. 2008
    ..We also show that gp120 expressed on the surface of HIV-infected cells can be used for aptamer-mediated delivery of anti-HIV siRNAs...
  18. ncbi Control of HIV-1 replication by RNA interference
    Nan Sook Lee
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Virus Res 102:53-8. 2004
    ..This review will discuss the status of the science using RNAi for controlling HIV-1 replication and will describe possible problems for therapeutic applications of RNAi-mediated technologies for HIV-1 behind this novel mechanism...
  19. ncbi RNAi as a treatment for HIV-1 infection
    John J Rossi
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Biotechniques . 2006
    ..This review covers the progress and problems in the development of RNAi for the treatment of HIV infection. Potential modalities for clinical application of RNAi in the treatment of HIV-1 infection are also described...
  20. ncbi Functional siRNA expression from transfected PCR products
    Daniela Castanotto
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    RNA 8:1454-60. 2002
    ..This approach should prove useful for identification of optimal siRNA-target combinations and for multiplexing siRNA expression in mammalian cells...
  21. ncbi MicroRNA-192 in diabetic kidney glomeruli and its function in TGF-beta-induced collagen expression via inhibition of E-box repressors
    Mitsuo Kato
    Gonda Diabetes Center, Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Proc Natl Acad Sci U S A 104:3432-7. 2007
    ..These results uncover a role for miRs in the kidney and DN in controlling TGF-beta-induced Col1a2 expression by down-regulating E-box repressors...
  22. ncbi A nucleolar TAR decoy inhibitor of HIV-1 replication
    Alessandro Michienzi
    Divisions of Molecular Biology and Virology, Beckman Research Institute of the City of Hope, 1450 East Duarte Road, Duarte, CA 91010-3011, USA
    Proc Natl Acad Sci U S A 99:14047-52. 2002
    ..These results demonstrate that the nucleolar trafficking of Tat is critical for HIV-1 replication and suggests a role for the nucleolus in HIV-1 viral replication...
  23. ncbi Long-term inhibition of HIV-1 infection in primary hematopoietic cells by lentiviral vector delivery of a triple combination of anti-HIV shRNA, anti-CCR5 ribozyme, and a nucleolar-localizing TAR decoy
    Ming-Jie Li
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Mol Ther 12:900-9. 2005
    ..Our data demonstrate the validity and efficacy of a combinatorial RNA-based gene therapy for the treatment of HIV-1 infection...
  24. ncbi A facile lentiviral vector system for expression of doxycycline-inducible shRNAs: knockdown of the pre-miRNA processing enzyme Drosha
    Lars Aagaard
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    Mol Ther 15:938-45. 2007
    ..We anticipate that our vector will facilitate functional studies of miRNA biogenesis...
  25. ncbi Tat-regulated expression of RNA interference: triggers for the treatment of HIV infection
    Hoshang Unwalla
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, 1450 East Duarte Road, Duarte, CA 90101, USA
    Curr HIV/AIDS Rep 5:40-3. 2008
    ..In this study, we have taken advantage of lentiviral vector-mediated delivery of anti-HIV short hairpin RNA for the treatment of HIV infection in hematopoietic cells...
  26. ncbi TGF-beta activates Akt kinase through a microRNA-dependent amplifying circuit targeting PTEN
    Mitsuo Kato
    Gonda Diabetes Center, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Nat Cell Biol 11:881-9. 2009
    ..Due to the diversity of PTEN function, this miR-amplifying circuit may have key roles, not only in kidney disorders, but also in other diseases...
  27. ncbi Problems associated with reporter assays in RNAi studies
    Guihua Sun
    Graduate School of Biological Science, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    RNA Biol 6:406-11. 2009
    ..Here we report on some problems in the use of reporter systems for studies of RNA interference and make some suggestions for avoiding such problems in future studies...
  28. ncbi Silencing of gene expression in cultured cells using small interfering RNAs
    Kumi Sakurai
    Beckman Research Institute of City of Hope, Duarte, California, USA
    Curr Protoc Cell Biol . 2010
    ..This unit provides basic approaches to explore the field of RNAi, and hopes to address the importance of optimizing transfection conditions after empirical determinations in order to understand various degrees of silencing efficiency...
  29. ncbi Strategies in designing multigene expression units to downregulate HIV-1
    Jane Zhang
    Beckman Research Institute of City of Hope, Duarte, CA, USA
    Methods Mol Biol 623:123-36. 2010
    ..Our platform is suitable for the inclusion of any shRNA sequence and can be combined with other types of small RNA antiviral inhibitors...
  30. ncbi RNA-mediated inhibition of HIV in a gene therapy setting
    Alessandro Michienzi
    Divisions of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    Ann N Y Acad Sci 1002:63-71. 2003
    ..This article summarizes the various RNA based technologies that we have developed for potential application in a gene therapy setting...
  31. ncbi Expression of long anti-HIV-1 hairpin RNAs for the generation of multiple siRNAs: advantages and limitations
    Masayuki Sano
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California, USA
    Mol Ther 16:170-7. 2008
    ....
  32. ncbi Use of a U16 snoRNA-containing ribozyme library to identify ribozyme targets in HIV-1
    Hoshang J Unwalla
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    Mol Ther 16:1113-9. 2008
    ..When the ribozymes were converted to full complementarity with the targets, they provided potent inhibition of HIV-1 replication in cell culture. These results provide a novel approach for identifying ribozyme targets in HIV-1...
  33. ncbi Inhibition of infectious human immunodeficiency virus type 1 virions via lentiviral vector encoded short antisense RNAs
    Shuo Gu
    Division of Molecular Biology and Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Oligonucleotides 16:287-95. 2006
    ..These results demonstrate that a short stretch of antisense pairing downstream of the dimerization domain in an HIV-based vector can drive dimerization and provide a powerful approach for inhibition of HIV-1...
  34. ncbi Combinatorial delivery of small interfering RNAs reduces RNAi efficacy by selective incorporation into RISC
    Daniela Castanotto
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, USA
    Nucleic Acids Res 35:5154-64. 2007
    ..These findings reveal that combinatorial siRNA approaches can be problematic and have important implications for the methodology of expression and use of therapeutic interfering RNAs...
  35. ncbi The diversity of RNAi and its applications
    Rajesh K Gaur
    Beckman Research Institute of the City of Hope, Duarte, CA, USA
    Biotechniques . 2006
  36. ncbi Construction and transfection of PCR products expressing siRNAs or shRNAs in mammalian cells
    Daniela Castanotto
    Departmetn of Biology and Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA, USA
    Methods Mol Biol 252:509-14. 2004
    ..This method is fast and inexpensive, allowing several different siRNA gene candidates to be rapidly screened for efficacy...
  37. ncbi In vivo detection of ribozyme cleavage products and RNA structure by use of terminal transferase-dependent PCR
    Hsiu-Hua Chen
    Department of Biology and Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA, USA
    Methods Mol Biol 252:109-24. 2004
    ..A detailed protocol of RT-TDPCR is presented here with examples of its use in detecting ribozyme cleavage intermediates in yeast and a RNA transcription start site in mammalian cells...
  38. ncbi Rational design of micro-RNA-like bifunctional siRNAs targeting HIV and the HIV coreceptor CCR5
    Ali Ehsani
    Department of Molecular Biology, Beckman Research Institute of City of Hope, Duarte, California, USA
    Mol Ther 18:796-802. 2010
    ..The design principles have wide applications throughout the genome, as about 90% of genes harbor sites that make the design of bifunctional siRNAs possible...
  39. ncbi Uncoupling of RNAi from active translation in mammalian cells
    Shuo Gu
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, 1450 E. Duarte Rd, Duarte, CA 91010, USA
    RNA 11:38-44. 2005
    ..Interestingly, RNAi is about threefold more active in the absence of translation...
  40. ncbi RNAi-based therapeutics-current status, challenges and prospects
    Katrin Tiemann
    Department of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA, USA
    EMBO Mol Med 1:142-51. 2009
    ..This review focuses on the current status of RNAi-based therapeutics, the challenges it faces and how to overcome them...
  41. ncbi Approaches for the sequence-specific knockdown of mRNA
    Lisa J Scherer
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    Nat Biotechnol 21:1457-65. 2003
    ..These challenges have been in existence from the first attempts to use antisense research tools, and need to be met before any antisense molecule can become widely accepted as a therapeutic agent...
  42. ncbi Coupling of RNAi-mediated target downregulation with gene replacement
    Dong-Ho Kim
    Department of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Antisense Nucleic Acid Drug Dev 13:151-5. 2003
    ..These studies provide a detailed methodology and system for testing this strategy with RNA interference (RNAi)...
  43. ncbi Functional and intracellular localization properties of U6 promoter-expressed siRNAs, shRNAs, and chimeric VA1 shRNAs in mammalian cells
    Nan Sook Lee
    Division of Molecular Medicine, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    RNA 14:1823-33. 2008
    ..Our findings delineate different intracellular accumulation patterns for the three expression strategies and suggest the possibility of a nuclear RNAi pathway that requires 21-mer duplexes...
  44. ncbi Post-transcriptional up-regulation of Tsc-22 by Ybx1, a target of miR-216a, mediates TGF-{beta}-induced collagen expression in kidney cells
    Mitsuo Kato
    Gonda Diabetes Center, Beckman Research Institute of City of Hope, Duarte, California 91010, USA
    J Biol Chem 285:34004-15. 2010
    ..These results demonstrate that post-transcriptional regulation of Tsc-22 mediated through Ybx1, a miR-216a target, plays a key role in TGF-?-induced Col1a2 in MC related to the pathogenesis of diabetic nephropathy...
  45. ncbi Realizing the promise of RNAi
    John J Rossi
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Graduate School of Biological Sciences, Duarte, California 91010, USA
    Mol Ther 16:810-1. 2008
  46. ncbi Cloning and detecting signature microRNAs from mammalian cells
    Guihua Sun
    Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, California, USA
    Methods Enzymol 427:123-38. 2007
    ..This procedure can also be used to verify bioinformatic predictions of miRNAs/small interfering RNAs (siRNAs) as well as to identify new miRNAs/siRNAs...
  47. ncbi RNA-based gene therapy for HIV with lentiviral vector-modified CD34(+) cells in patients undergoing transplantation for AIDS-related lymphoma
    David L Digiusto
    Department of Hematology and Hematopoietic Cell Transplantation, City of Hope, Duarte, CA 91010, USA
    Sci Transl Med 2:36ra43. 2010
    ..These results support the development of an RNA-based cell therapy platform for HIV...
  48. ncbi Overview of gene silencing by RNA interference
    Daniel H Kim
    Howard Hughes Medical Institute, Department of Molecular Biology, Massachusetts General Hospital, Harvard Medical School, Boston, Massachusetts, USA
    Curr Protoc Nucleic Acid Chem . 2009
    ..Promising therapeutic applications of RNAi that are currently in the developmental pipeline are also described...
  49. ncbi The therapeutic potential of cell-internalizing aptamers
    Jiehua Zhou
    Division of Molecular Biology, Beckman Research Institute of City of Hope, City of Hope, Duarte, CA 91010, USA
    Curr Top Med Chem 9:1144-57. 2009
    ..Specifically, several attractive aptamer-mediated cell-type specific siRNA delivery systems are highlighted, and their promise in clinical development is also discussed...
  50. ncbi The promises and pitfalls of RNA-interference-based therapeutics
    Daniela Castanotto
    Department of Molecular Biology and City of Hope Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    Nature 457:426-33. 2009
    ....
  51. ncbi Designing and utilization of siRNAs targeting RNA binding proteins
    Dong Ho Kim
    Beckman Research Institute of the City of Hope, Duarte, California, USA
    Methods Mol Biol 488:367-81. 2008
    ..The format has been tested by creating siRNAs targeting two RNA binding proteins, La and hnRNP (heterogeneous nuclear ribonucleoprotein) H, and has shown better potency at lower concentrations than the conventional 21-mer siRNA...
  52. ncbi Lentiviral vector delivery of siRNA and shRNA encoding genes into cultured and primary hematopoietic cells
    Mingjie Li
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA, USA
    Methods Mol Biol 433:287-299. 2008
    ..This chapter should be useful for establishing a lentiviral vector-based delivery of siRNAs in experiments that require long-term gene knockdown or developing siRNA-based approaches for gene therapy applications...
  53. ncbi SNPs in human miRNA genes affect biogenesis and function
    Guihua Sun
    Department of Molecular Biology, City of Hope National Medical Center, Duarte, California 91010, USA
    RNA 15:1640-51. 2009
    ..Finally, the miRNAs examined in this study are X-linked, suggesting that the mutant alleles could be determinants in the etiology of diseases...
  54. ncbi A potential role for RNA interference in controlling the activity of the human LINE-1 retrotransposon
    Harris S Soifer
    Division of Molecular Biology, Beckman Research Institute of the City of Hope 1450 East Duarte Road, Duarte, CA 91010-3011, USA
    Nucleic Acids Res 33:846-56. 2005
    ..Finally, both synthetic and pooled siRNA suppressed retrotransposition from a highly active RC-L1 clone in cell culture assay. Our report is the first to demonstrate that a human transposable element is subjected to RNAi...
  55. ncbi Lentiviral vector delivery of recombinant small interfering RNA expression cassettes
    Ming-Jie Li
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010-3000, USA
    Methods Enzymol 392:218-26. 2005
    ..This chapter should be useful for establishing a lentiviral vector-based delivery of siRNAs in experiments that require long-term gene knockdown or developing siRNA-based approaches for gene therapy applications...
  56. ncbi Therapeutic applications of RNA interference: recent advances in siRNA design
    Lisa Scherer
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA
    Adv Genet 52:1-21. 2004
  57. ncbi Stable expression of shRNAs in human CD34+ progenitor cells can avoid induction of interferon responses to siRNAs in vitro
    Marjorie A Robbins
    Division of Molecular Biology, Beckman Research Institute, City of Hope, Duarte, California 91010, USA
    Nat Biotechnol 24:566-71. 2006
    ..We show that in this system, lipid-delivered siRNAs are potent inducers of IFNalpha and type I IFN gene expression, whereas the same sequences when expressed endogenously are nonimmunostimulatory...
  58. ncbi Rapid assessment of anti-HIV siRNA efficacy using PCR-derived Pol III shRNA cassettes
    Lisa J Scherer
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Mol Ther 10:597-603. 2004
    ..Furthermore we relate the efficacies of our PCR product expressed shRNAs to the relative stabilities of the siRNA duplexes and the accessibilities of the target sites to antisense base pairing in cell extracts...
  59. ncbi Specific killing of Ph+ chronic myeloid leukemia cells by a lentiviral vector-delivered anti-bcr/abl small hairpin RNA
    Ming-Jie Li
    Division of Molecular Biology, City of Hope Medical Center and Beckman Research Institute, Duarte, CA 91010, USA
    Oligonucleotides 13:401-9. 2003
    ..Furthermore, the robust expression of the shRNAs from our lentiviral vector suggests that this system could be generally useful for the expression of other shRNAs...
  60. ncbi Recent applications of RNAi in mammalian systems
    Lisa Scherer
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Curr Pharm Biotechnol 5:355-60. 2004
    ..The article also summarizes some important biological conclusions that can be drawn from selective downregulation of certain mRNA targets and addresses potential uses of RNAi as a new therapeutic modality...
  61. ncbi RNAi applications in mammalian cells
    Lisa Scherer
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, Duarte, CA, USA
    Biotechniques 36:557-61. 2004
  62. ncbi Small interfering RNAs expressed from a Pol III promoter suppress the EWS/Fli-1 transcript in an Ewing sarcoma cell line
    Taikoh Dohjima
    Division of Molecular Biology, Beckman Research Institute of the City of Hope, 1450 East Duarte Road, Duarte, California 91010, USA
    Mol Ther 7:811-6. 2003
    ..The results and observations from these studies should prove useful in targeting other fusion transcripts characteristic of sarcomas and erythroleukemias...
  63. ncbi Strategies for silencing human disease using RNA interference
    Daniel H Kim
    Division of Molecular Biology, Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, 1450 East Duarte Road, Duarte, California 91010, USA
    Nat Rev Genet 8:173-84. 2007
    ..Design and delivery strategies for RNAi effector molecules must be carefully considered to address safety concerns and to ensure effective, successful treatment of human diseases...
  64. ncbi siRNA target site secondary structure predictions using local stable substructures
    Bret S E Heale
    Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope Duarte, CA 91010, USA
    Nucleic Acids Res 33:e30. 2005
    ..A total of 80% of the non-functional sites can be eliminated using secondary structure predictions and duplex-end differential...
  65. ncbi Unlocking the potential of the human genome with RNA interference
    Gregory J Hannon
    Watson School of Biological Sciences, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, New York 11724, USA
    Nature 431:371-8. 2004
    ..Harnessed as an experimental tool, RNAi has revolutionized approaches to decoding gene function. It also has the potential to be exploited therapeutically, and clinical trials to test this possibility are already being planned...
  66. ncbi Negative feedback inhibition of HIV-1 by TAT-inducible expression of siRNA
    Hoshang J Unwalla
    Nat Biotechnol 22:1573-8. 2004
    ..The fusion promoter system may be safer than drug-inducible systems for shRNA-mediated gene therapy against HIV as the shRNAs are only expressed following HIV infection...
  67. ncbi Rational design and in vitro and in vivo delivery of Dicer substrate siRNA
    Mohammed Amarzguioui
    The Biotechnology Centre of Oslo, Gaustadalleen 21, 0349 Oslo, Norway
    Nat Protoc 1:508-17. 2006
    ..siRNA delivery and transfection and analysis of macrophages in vivo can be accomplished within 36 h...
  68. ncbi Synthetic dsRNA Dicer substrates enhance RNAi potency and efficacy
    Dong-Ho Kim
    Nat Biotechnol 23:222-6. 2005
    ..These results provide an alternative strategy for eliciting RNAi-mediated target cleavage using low concentrations of synthetic RNA as substrates for cellular Dicer-mediated cleavage...
  69. ncbi Anti-HIV-1 gene expressing lentiviral vectors as an adjunctive therapy for HIV-1 infection
    Kevin V Morris
    University of California San Diego, Department of Medicine, La Jolla, CA 92093-0678, USA
    Curr HIV Res 2:185-91. 2004
    ....
  70. ncbi Medicine: a cholesterol connection in RNAi
    John J Rossi
    Nature 432:155-6. 2004
  71. ncbi Cytoplasmic and nuclear retained DMPK mRNAs are targets for RNA interference in myotonic dystrophy cells
    Marc Andre Langlois
    Laboratory of Human Genetics, Laval University Medical Research Centre, CHUQ, Pavillon CHUL, Ste Foy, Quebec G1V 7P4, Canada
    J Biol Chem 280:16949-54. 2005
    ..Our observation of simultaneous RNAi on both cytoplasmic and nuclear retained DMPK has important implications for post-transcriptional gene regulation in both compartments of mammalian cells...
  72. ncbi Lentivirus-mediated RNA interference therapy for human immunodeficiency virus type 1 infection
    Kevin V Morris
    Department of Molecular and Experimental Medicine, Scripps Research Institute, La Jolla, CA 92037, USA
    Hum Gene Ther 17:479-86. 2006
    ..This review focuses on the development, delivery, and potential therapeutic use of antiviral siRNAs in treating HIV-1...
  73. ncbi The antisense strand of small interfering RNAs directs histone methylation and transcriptional gene silencing in human cells
    Marc S Weinberg
    Department of Molecular Medicine and Hematology, University of the Witwatersrand Medical School, Parktown, South Africa
    RNA 12:256-62. 2006
    ....
  74. ncbi Functional polarity is introduced by Dicer processing of short substrate RNAs
    Scott D Rose
    Integrated DNA Technologies, Inc. 1710 Commercial Park, Coralville, IA 52241, USA
    Nucleic Acids Res 33:4140-56. 2005
    ..Thus, Dicer processing confers functional polarity within the RNAi pathway...
  75. ncbi Chemical modification patterns compatible with high potency dicer-substrate small interfering RNAs
    Michael A Collingwood
    Integrated DNA Technologies, Inc 1710 Commercial Park, Coralville, IA 52241, USA
    Oligonucleotides 18:187-200. 2008
    ....
  76. ncbi Lentiviral vector delivery of siRNA and shRNA encoding genes into cultured and primary hematopoietic cells
    Mingjie Li
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, USA
    Methods Mol Biol 309:261-72. 2005
  77. ncbi Current status of gene therapy strategies to treat HIV/AIDS
    David S Strayer
    Department of Pathology, Jefferson Medical College, 1020 Locust Street, Room 251, Philadelphia, PA 19107, USA
    Mol Ther 11:823-42. 2005
    ..This review focuses on the newest developments in these areas and provides a strong basis for renewed optimism that gene therapy will have an important role to play in treating people infected with HIV-1...
  78. ncbi Potent siRNA inhibitors of ribonucleotide reductase subunit RRM2 reduce cell proliferation in vitro and in vivo
    Jeremy D Heidel
    Calando Pharmaceuticals, Inc, California Institute of Technology, Pasadena, California 91107, USA
    Clin Cancer Res 13:2207-15. 2007
    ..Here, a potent small interfering RNA (siRNA) duplex against the M2 subunit of RR (RRM2) is developed and shown to reduce the growth potential of cancer cells both in vitro and in vivo...
  79. ncbi Localized expression of small RNA inhibitors in human cells
    Cynthia P Paul
    Department of Biological Chemistry, The University of Michigan, Ann Arbor, MI 48109-0606, USA
    Mol Ther 7:237-47. 2003
    ..Although the degree of HIV-1 inhibition varied among inserts, results show that the U6 cassette provides a means of expressing an siRNA-like inhibitor of HIV gene expression...
  80. ncbi Sensing the danger in RNA
    Marjorie A Robbins
    Nat Med 11:250-1. 2005
  81. ncbi Transcriptional activation by small RNA duplexes
    John J Rossi
    Nat Chem Biol 3:136-7. 2007
  82. ncbi Short hairpin RNA causes the methylation of transforming growth factor-beta receptor II promoter and silencing of the target gene in rat hepatic stellate cells
    Jin Wook Kim
    Department of Internal Medicine, Transplant Research Program, University of California, Davis Medical Center, Sacramento, CA 95817, USA
    Biochem Biophys Res Commun 359:292-7. 2007
    ....
  83. ncbi Interferon induction by siRNAs and ssRNAs synthesized by phage polymerase
    Dong-Ho Kim
    Division of Molecular Biology, City of Hope and Beckman Research Institute of the City of Hope, 1450 East Duarte Road, Duarte, California 91010-3011, USA
    Nat Biotechnol 22:321-5. 2004
    ..We describe here an improved method for T7 siRNA synthesis that alleviates the interferon response while maintaining full efficacy of the siRNAs...
  84. ncbi Argonaute-1 directs siRNA-mediated transcriptional gene silencing in human cells
    Daniel H Kim
    Graduate School of Biological Sciences, Beckman Research Institute of the City of Hope, 1450 E Duarte Road, Duarte, California 91010, USA
    Nat Struct Mol Biol 13:793-7. 2006
    ..These results establish a connection between RNAi components AGO1 and TRBP2, RNAPII transcription and Polycomb-regulated control of gene expression...

Research Grants33

  1. Combinatorial use of anti-HIV RNA-based therapeutics
    John Rossi; Fiscal Year: 2006
    ..This aim is to be carried out collaboratively with Dr. Ramesh Akkina (Project 2). ..
  2. Expression of anti-HIV siRNA in blood cells.
    John Rossi; Fiscal Year: 2006
    ..The long range goal of these studies is to develop an siRNA based therapy for the treatment of HIV-1 infection in a gene therapy setting capitalizing on the infrastructure this program has developed for ribozyme based gene therapy. ..
  3. Enhancing the Intracellular Functioning of anti-HIV RNAs
    John Rossi; Fiscal Year: 2007
    ..The overall goal of this program remains that of developing potent RNA based anti-HIV inhibitory agents for use in human gene therapy treatment of HIV infection. ..
  4. Combinatorial use of anti-HIV RNA-based therapeutics
    John Rossi; Fiscal Year: 2007
    ....
  5. Combinatorial use of anti-HIV RNA-based therapeutics
    John Rossi; Fiscal Year: 2009
    ....
  6. Expression of anti-HIV siRNA in Blood Cells
    John Rossi; Fiscal Year: 2009
    ..The primary goal of this research program is to validate RNA interference as a therapeutic approach for the treatment of HIV infection. ..
  7. Combinatorial use of anti-HIV RNA-based therapeutics
    JOHN JOSEPH ROSSI; Fiscal Year: 2010
    ....
  8. YEAST SYSTEM FOR DEVELOPING ANTI-HIV-1 RIBOZYMES
    John Rossi; Fiscal Year: 1993
    ..Our long range goal is to successfully immunize an animal against HIV-1 infection with a ribozyme...
  9. COMBINATORIAL USE OF CCR5 RIBOZYMES WITH ANTI HIV1 RNAS
    John Rossi; Fiscal Year: 2001
    ..This proposal is project 3 of an interactive set of proposals with Dr. Ramesh Akkina (Project 1-SCID-hu mouse model) and Dr. Alan Knutsen (Project 2-In vitro thymopoiesis). ..
  10. ENHANCING THE INTRACELLULAR FUNCTIONING OF HIV RIBOZYMES
    John Rossi; Fiscal Year: 2001
    ..The results from this program will greatly facilitate the effective use of ribozyme treatment for HIV-1 infection in a gene therapy setting. ..
  11. Expression of anti-HIV siRNA in Blood Cells
    JOHN JOSEPH ROSSI; Fiscal Year: 2010
    ..The primary goal of this research program is to validate RNA interference as a therapeutic approach for the treatment of HIV infection. ..