Jack Donald Keene | Scholars@Duke

Jack Donald Keene
James B. Duke Distinguished Professor of Molecular Genetics and Microbiology

The Keene Laboratory has a long-term interest in the structure and function of viral and mammalian genomes. Having determined the first genomic sequences for rabies, Ebola, Marburg and vesicular stomatitis virus, and discerned the origins of defective interfering viruses, interests shifted to the cloning of six human genes involved in autoimmune reactivity. This resulted in the identification of numerous autoimmune RRM-type RNA-binding proteins the discovery of the RRM, and the RNA targets to which they bind. The current interests of the lab surround the functions of the human RRM-ELAV/Hu proteins that are bound to a subset of cellular mRNAs involved in growth regulation neuronal plasticiyt and cancer. The laboratory demonstrated that ELAV/Hu proteins bind and regulate the expression of early response gene transcripts such as those encoding the protooncogene and cytokine proteins.

In addition, it was shown that while stabilizing these mRNAs and/or activating their translation, the ELAV/Hu proteins participate in cellular , differentiation and carcinogenesis. More recently, the laboratory has examined dozens of RNA-binding proteins in order to identify large numbers of structurally
and/or functionally related mRNAs that cluster in vivo based upon their binding to these proteins. This has been termed ribonomics because it involves parallel analysis of mRNA subsets en masse based upon their presence in messenger ribonucleoprotein complexes. This new approach to functional genomics is being applied to virus-infected cells, tumors and cells treated with various agents. Ribonomics has led to the identification of mRNA clusters that are posttranscriptionally regulated, and represent the organizational state of genetic information between the genome and the proteome. Dr. Keen has propsed the existence of post-transcriptional operons based upon the association of structurally and functionally-linked mRNAs in vivo.

Current Appointments & Affiliations

James B. Duke Distinguished Professor of Molecular Genetics and Microbiology, Molecular Genetics and Microbiology, Basic Science Departments 1997
Professor of Molecular Genetics and Microbiology, Molecular Genetics and Microbiology, Basic Science Departments 1989
Associate Professor in Medicine, Medicine, Rheumatology and Immunology, Medicine 2006
Member of the Duke Cancer Institute, Duke Cancer Institute, Institutes and Centers 1979

Contact Information

207 Research Drive, 414 Jones Box 3020, Durham, NC 27717
Duke Box 3020, Durham, NC 27710
keene001@mc.duke.edu (919) 684-5138

Background
Education, Training, & Certifications
- Ph.D., University of Washington 1974
Duke Appointment History
- Associate Research Professor in Medicine, Medicine, Rheumatology and Immunology, Medicine 1999 - 2006
- Director, Center for RNA Biology, Molecular Genetics and Microbiology, Basic Science Departments 2002 - 2006
- Director of Basic Science Research, Comprehensive Cancer Center, Duke Cancer Institute, Institutes and Centers 1995 - 2003
- Chair, Department of Microbiology, Molecular Genetics and Microbiology, Basic Science Departments 1994 - 2002
- Associate Research Professor in Medicine, Medicine, Clinical Science Departments 1994 - 1999
Recognition
Awards & Honors
Research
Selected Grants
- Distal mRNA localization and translation in neural stem cells of the developing brain awarded by National Institutes of Health 2018 - 2023
- Interferon stimulated genes that regulate viral infection by binding to modified RNAs awarded by National Institutes of Health 2019 - 2022
- Transfusion Medicine and Hematology awarded by National Institutes of Health 1975 - 2021
- Interdisciplinary Research Training Program in AIDS awarded by National Institutes of Health 2010 - 2020
- Bioinformatics and Computational Biology Training Program awarded by National Institutes of Health 2005 - 2020
- Genetics Training Grant awarded by National Institutes of Health 1979 - 2020
- Organization and Function of Cellular Structure awarded by National Institutes of Health 1975 - 2020
- Post-transcriptional RNA regulation in mammalian neural stem cells awarded by National Institutes of Health 2017 - 2020
- Targeting Translation Control in Malignant Glioma awarded by National Institutes of Health 2007 - 2018
- Post-transcriptional coordination by HuR and microRNAs during tumorigenesis awarded by National Institutes of Health 2014 - 2017
- RNA Dynamics of Transient Macromolecular Complexes in Cancer Cells awarded by National Institutes of Health 2011 - 2017
- Cancer Biology Training Grant awarded by National Cancer Institute 1993 - 2016
- Clinical Oncology Research Career Development Program awarded by National Institutes of Health 2009 - 2015
- Regulation of Germ Cell Pluripotency Through The RNA-Binding Protein, DND1 awarded by National Institutes of Health 2010 - 2014
- RNA Operons In Coordinated Gene Expression and Horizontal Transfer awarded by National Science Foundation 2009 - 2012
- Mucin Gene Regulation by Elastase and Oxidants awarded by National Institutes of Health 2005 - 2010
- Development And Persistence Of Immunity In SCID Chimeras awarded by National Institutes of Health 1998 - 2010
- Posttranscriptional regulation of the Wnt pathway by HuR and microRNAs awarded by National Institutes of Health 2007 - 2009
- Endothelial Cell Molecular Alterations in Cancer awarded by National Institutes of Health 2002 - 2008
- Posttranscriptional Gene Regulation in T Cell Activation awarded by National Institutes of Health 2000 - 2007
- Stem Cell Mechanism in the Murine Germline awarded by National Institutes of Health 2002 - 2006
- Function of Mammalian ELAV RNA-Binding Proteins awarded by National Institutes of Health 1999 - 2006
- Regulation of Mucin Gene Expression by Elastase awarded by National Institutes of Health 2000 - 2005
- Cancer Center Core Support Grant awarded by National Institutes of Health 1976 - 1998
- Comprehensive Cancer Center Core Support Grant awarded by National Institutes of Health 1976 - 1998
- Comprehensive Cancer Center Core Support Grant awarded by National Institutes of Health 1976 - 1998
- Determinants Of Specificity In Protein-Rna Interactions awarded by National Institutes of Health 1993 - 1998
- Peptide Immunogens For Mucosal & Systemic Hiv Vaccines Nat awarded by National Institutes of Health 1993 - 1997
- Molecular Biology Of The Ro-Rnp Autoantigen awarded by National Institutes of Health 1993 - 1994
- Replicative Mechanisms Of The Negative Strand Viruses awarded by National Institutes of Health 1992 - 1993
- Replicative Mechanisms Of The Negative Strand Viruses awarded by National Institutes of Health 1991 - 1993
- Replicative Mechanisms Of The Negative Strant Viruses awarded by National Institutes of Health 1990 - 1993
- Replicative Mechnaisms Of The Negative Strand Viruses awarded by National Institutes of Health 1986 - 1988
External Relationships
- medical and biological laboratories
Publications & Artistic Works
Selected Publications
- Academic Articles
  - Ruthig, Victor A., Matthew B. Friedersdorf, Jason A. Garness, Steve C. Munger, Corey Bunce, Jack D. Keene, and Blanche Capel. “The RNA-binding protein DND1 acts sequentially as a negative regulator of pluripotency and a positive regulator of epigenetic modifiers required for germ cell reprogramming.” Development 146, no. 19 (July 25, 2019). https://doi.org/10.1242/dev.175950.
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  - Bisogno, Laura S., Matthew B. Friedersdorf, and Jack D. Keene. “Ras Post-transcriptionally Enhances a Pre-malignantly Primed EMT to Promote Invasion.” Iscience 4 (June 29, 2018): 97–108. https://doi.org/10.1016/j.isci.2018.05.011.
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  - Bisogno, Laura Simone, and Jack Donald Keene. “RNA regulons in cancer and inflammation.” Curr Opin Genet Dev 48 (February 2018): 97–103. https://doi.org/10.1016/j.gde.2017.11.004.
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  - Wang, Sihyung, Youngmi Jung, Jeongeun Hyun, Matthew Friedersdorf, Seh-Hoon Oh, Jieun Kim, Richard T. Premont, Jack D. Keene, and Anna Mae Diehl. “RNA Binding Proteins Control Transdifferentiation of Hepatic Stellate Cells into Myofibroblasts.” Cell Physiol Biochem 48, no. 3 (2018): 1215–29. https://doi.org/10.1159/000491987.
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  - Bisogno, Laura S., and Jack D. Keene. “Analysis of post-transcriptional regulation during cancer progression using a donor-derived isogenic model of tumorigenesis.” Methods 126 (August 15, 2017): 193–200. https://doi.org/10.1016/j.ymeth.2017.05.012.
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  - Nicholson, Cindo O., Matthew B. Friedersdorf, Laura S. Bisogno, and Jack D. Keene. “DO-RIP-seq to quantify RNA binding sites transcriptome-wide.” Methods 118–119 (April 15, 2017): 16–23. https://doi.org/10.1016/j.ymeth.2016.11.004.
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  - Nicholson, Cindo O., Matthew Friedersdorf, and Jack D. Keene. “Quantifying RNA binding sites transcriptome-wide using DO-RIP-seq.” Rna 23, no. 1 (January 2017): 32–46. https://doi.org/10.1261/rna.058115.116.
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  - Smola, Matthew J., Thomas W. Christy, Kaoru Inoue, Cindo O. Nicholson, Matthew Friedersdorf, Jack D. Keene, David M. Lee, J Mauro Calabrese, and Kevin M. Weeks. “SHAPE reveals transcript-wide interactions, complex structural domains, and protein interactions across the Xist lncRNA in living cells.” Proc Natl Acad Sci U S A 113, no. 37 (September 13, 2016): 10322–27. https://doi.org/10.1073/pnas.1600008113.
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  - Blackinton, Jeff G., and Jack D. Keene. “Functional coordination and HuR-mediated regulation of mRNA stability during T cell activation.” Nucleic Acids Res 44, no. 1 (January 8, 2016): 426–36. https://doi.org/10.1093/nar/gkv1066.
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  - Moon, Stephanie L., Jeffrey G. Blackinton, John R. Anderson, Mary K. Dozier, Benjamin J. T. Dodd, Jack D. Keene, Carol J. Wilusz, Shelton S. Bradrick, and Jeffrey Wilusz. “XRN1 stalling in the 5' UTR of Hepatitis C virus and Bovine Viral Diarrhea virus is associated with dysregulated host mRNA stability.” Plos Pathog 11, no. 3 (March 2015): e1004708. https://doi.org/10.1371/journal.ppat.1004708.
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  - Jiang, Huifeng, Lin Xu, Zhe Wang, Jack Keene, and Zhenglong Gu. “Coordinating expression of RNA binding proteins with their mRNA targets.” Sci Rep 4 (November 24, 2014): 7175. https://doi.org/10.1038/srep07175.
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  - Blackinton, Jeff G., and Jack D. Keene. “Post-transcriptional RNA regulons affecting cell cycle and proliferation.” Semin Cell Dev Biol 34 (October 2014): 44–54. https://doi.org/10.1016/j.semcdb.2014.05.014.
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  - Payne, Tamika L., Jeff Blackinton, Alyse Frisbee, Joy Pickeral, Sheetal Sawant, Nathan A. Vandergrift, Stephanie A. Freel, Guido Ferrari, Jack D. Keene, and Georgia D. Tomaras. “Transcriptional and posttranscriptional regulation of cytokine gene expression in HIV-1 antigen-specific CD8+ T cells that mediate virus inhibition.” J Virol 88, no. 17 (September 1, 2014): 9514–28. https://doi.org/10.1128/JVI.00802-14.
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  - Keene, Jack D. “The globalization of messenger RNA regulation.” Natl Sci Rev 1, no. 2 (June 2014): 184–86. https://doi.org/10.1093/nsr/nwu004.
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  - Friedersdorf, Matthew B., and Jack D. Keene. “Advancing the functional utility of PAR-CLIP by quantifying background binding to mRNAs and lncRNAs.” Genome Biol 15, no. 1 (January 7, 2014): R2. https://doi.org/10.1186/gb-2014-15-1-r2.
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  - Simone, Laura E., and Jack D. Keene. “Mechanisms coordinating ELAV/Hu mRNA regulons.” Curr Opin Genet Dev 23, no. 1 (February 2013): 35–43. https://doi.org/10.1016/j.gde.2012.12.006.
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  - Mansfield, Kyle D., and Jack D. Keene. “Neuron-specific ELAV/Hu proteins suppress HuR mRNA during neuronal differentiation by alternative polyadenylation.” Nucleic Acids Res 40, no. 6 (March 2012): 2734–46. https://doi.org/10.1093/nar/gkr1114.
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  - Zarate, C. A., I. D. Henter, and H. K. Manji. “Preface.” Current Topics in Behavioral Neurosciences 5, no. 1 (December 1, 2011).
  - Corcoran, David L., Stoyan Georgiev, Neelanjan Mukherjee, Eva Gottwein, Rebecca L. Skalsky, Jack D. Keene, and Uwe Ohler. “PARalyzer: definition of RNA binding sites from PAR-CLIP short-read sequence data.” Genome Biol 12, no. 8 (August 18, 2011): R79. https://doi.org/10.1186/gb-2011-12-8-r79.
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  - Mukherjee, Neelanjan, David L. Corcoran, Jeffrey D. Nusbaum, David W. Reid, Stoyan Georgiev, Markus Hafner, Manuel Ascano, Thomas Tuschl, Uwe Ohler, and Jack D. Keene. “Integrative regulatory mapping indicates that the RNA-binding protein HuR couples pre-mRNA processing and mRNA stability.” Mol Cell 43, no. 3 (August 5, 2011): 327–39. https://doi.org/10.1016/j.molcel.2011.06.007.
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  - Mukherjee, Neelanjan, David L. Corcoran, Jeffrey D. Nusbaum, David W. Reid, Stoyan Georgiev, Markus Hafner, Manuel Ascano, Thomas Tuschl, Uwe Ohler, and Jack D. Keene. “Integrative Regulatory Mapping Indicates that the RNA-Binding Protein HuR Couples Pre-mRNA Processing and mRNA Stability.” Molecular Cell 43, no. 3 (August 5, 2011): 327–39. https://doi.org/10.1016/j.molcel.2011.06.007.
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  - Mazan-Mamczarz, Krystyna, Patrick R. Hagner, Yongqing Zhang, Bojie Dai, Elin Lehrmann, Kevin G. Becker, Jack D. Keene, Myriam Gorospe, Zhenqui Liu, and Ronald B. Gartenhaus. “ATM regulates a DNA damage response posttranscriptional RNA operon in lymphocytes.” Blood 117, no. 8 (February 24, 2011): 2441–50. https://doi.org/10.1182/blood-2010-09-310987.
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  - Neplioueva, Valentina, Elena Y. Dobrikova, Neelanjan Mukherjee, Jack D. Keene, and Matthias Gromeier. “Tissue type-specific expression of the dsRNA-binding protein 76 and genome-wide elucidation of its target mRNAs.” Plos One 5, no. 7 (July 23, 2010): e11710. https://doi.org/10.1371/journal.pone.0011710.
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  - Keene, Jack D. “The global dynamics of RNA stability orchestrates responses to cellular activation.” Bmc Biol 8 (July 8, 2010): 95. https://doi.org/10.1186/1741-7007-8-95.
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  - Keene, Jack D. “Minireview: global regulation and dynamics of ribonucleic Acid.” Endocrinology 151, no. 4 (April 2010): 1391–97. https://doi.org/10.1210/en.2009-1250.
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  - Morris, Adam R., Neelanjan Mukherjee, and Jack D. Keene. “Systematic analysis of posttranscriptional gene expression.” Wiley Interdiscip Rev Syst Biol Med 2, no. 2 (March 2010): 162–80. https://doi.org/10.1002/wsbm.54.
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  - Papadaki, Olympia, Stavros Milatos, Sofia Grammenoudi, Neelanjan Mukherjee, Jack D. Keene, and Dimitris L. Kontoyiannis. “Control of thymic T cell maturation, deletion and egress by the RNA-binding protein HuR.” J Immunol 182, no. 11 (June 1, 2009): 6779–88. https://doi.org/10.4049/jimmunol.0900377.
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  - Graner, Michael W., Oscar Alzate, Angelika M. Dechkovskaia, Jack D. Keene, John H. Sampson, Duane A. Mitchell, and Darell D. Bigner. “Proteomic and immunologic analyses of brain tumor exosomes.” Faseb J 23, no. 5 (May 2009): 1541–57. https://doi.org/10.1096/fj.08-122184.
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  - Mansfield, Kyle D., and Jack D. Keene. “The ribonome: a dominant force in co-ordinating gene expression.” Biol Cell 101, no. 3 (March 2009): 169–81. https://doi.org/10.1042/BC20080055.
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  - Mukherjee, Neelanjan, Patrick J. Lager, Matthew B. Friedersdorf, Marshall A. Thompson, and Jack D. Keene. “Coordinated posttranscriptional mRNA population dynamics during T-cell activation.” Mol Syst Biol 5 (2009): 288. https://doi.org/10.1038/msb.2009.44.
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  - Tiruchinapalli, Dhanrajan M., Marc G. Caron, and Jack D. Keene. “Activity-dependent expression of ELAV/Hu RBPs and neuronal mRNAs in seizure and cocaine brain.” J Neurochem 107, no. 6 (December 2008): 1529–43. https://doi.org/10.1111/j.1471-4159.2008.05718.x.
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  - Mazan-Mamczarz, K., P. R. Hagner, S. Corl, S. Srikantan, W. H. Wood, K. G. Becker, M. Gorospe, J. D. Keene, A. S. Levenson, and R. B. Gartenhaus. “Post-transcriptional gene regulation by HuR promotes a more tumorigenic phenotype.” Oncogene 27, no. 47 (October 16, 2008): 6151–63. https://doi.org/10.1038/onc.2008.215.
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  - Tiruchinapalli, Dhanrajan M., Michael D. Ehlers, and Jack D. Keene. “Activity-dependent expression of RNA binding protein HuD and its association with mRNAs in neurons.” Rna Biol 5, no. 3 (July 2008): 157–68. https://doi.org/10.4161/rna.5.3.6782.
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  - Morris, Adam R., Neelanjan Mukherjee, and Jack D. Keene. “Ribonomic analysis of human Pum1 reveals cis-trans conservation across species despite evolution of diverse mRNA target sets.” Mol Cell Biol 28, no. 12 (June 2008): 4093–4103. https://doi.org/10.1128/MCB.00155-08.
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  - Pyhtila, Brook, Tianli Zheng, Patrick J. Lager, Jack D. Keene, Mary C. Reedy, and Christopher V. Nicchitta. “Signal sequence- and translation-independent mRNA localization to the endoplasmic reticulum.” Rna 14, no. 3 (March 2008): 445–53. https://doi.org/10.1261/rna.721108.
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  - Mazroui, Rachid, Sergio Di Marco, Eveline Clair, Christopher von Roretz, Scott A. Tenenbaum, Jack D. Keene, Maya Saleh, and Imed-Eddine Gallouzi. “Caspase-mediated cleavage of HuR in the cytoplasm contributes to pp32/PHAP-I regulation of apoptosis.” J Cell Biol 180, no. 1 (January 14, 2008): 113–27. https://doi.org/10.1083/jcb.200709030.
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  - Beach, Dale L., and Jack D. Keene. “Ribotrap : targeted purification of RNA-specific RNPs from cell lysates through immunoaffinity precipitation to identify regulatory proteins and RNAs.” Methods Mol Biol 419 (2008): 69–91. https://doi.org/10.1007/978-1-59745-033-1_5.
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  - Konopka, Jennifer L., Luiz O. Penalva, Joseph M. Thompson, Laura J. White, Clayton W. Beard, Jack D. Keene, and Robert E. Johnston. “A two-phase innate host response to alphavirus infection identified by mRNP-tagging in vivo.” Plos Pathog 3, no. 12 (December 2007): e199. https://doi.org/10.1371/journal.ppat.0030199.
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  - Keene, Jack D. “RNA regulons: coordination of post-transcriptional events.” Nat Rev Genet 8, no. 7 (July 2007): 533–43. https://doi.org/10.1038/nrg2111.
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  - Keene, J. D. “Biological clocks and the coordination theory of RNA operons and regulons.” Cold Spring Harb Symp Quant Biol 72 (2007): 157–65. https://doi.org/10.1101/sqb.2007.72.013.
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  - Konopka, J. L., L. O. Penalva, J. M. Thompson, L. J. White, C. W. Beard, J. D. Keene, and R. E. Johnston. “A two-phase innate host response to alphavirus infection identified by mRNP-tagging in vivo.” Plos Pathogens 3, no. 12 (2007): 2038–51. https://doi.org/10.1371/journal.ppat.0030199.
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  - Keene, J. D., J. M. Komisarow, and M. B. Friedersdorf. “Erratum: RIP-Chip: The isolation and identification of mRNAs, microRNAS and protein components of ribonucleoprotein complexes from cell extracts (Nature Protocols (2006) vol. 1 (302-307) 10.1038/nprot.2006.47).” Nature Protocols 1, no. 1 (June 1, 2006).
  - Keene, Jack D., Jordan M. Komisarow, and Matthew B. Friedersdorf. “RIP-Chip: the isolation and identification of mRNAs, microRNAs and protein components of ribonucleoprotein complexes from cell extracts.” Nat Protoc 1, no. 1 (2006): 302–7. https://doi.org/10.1038/nprot.2006.47.
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  - Stephens, Samuel B., Rebecca D. Dodd, Joseph W. Brewer, Patrick J. Lager, Jack D. Keene, and Christopher V. Nicchitta. “Stable ribosome binding to the endoplasmic reticulum enables compartment-specific regulation of mRNA translation.” Mol Biol Cell 16, no. 12 (December 2005): 5819–31. https://doi.org/10.1091/mbc.e05-07-0685.
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  - Keene, J. D., and P. J. Lager. “Erratum: Posttranscriptional operons and regulons coordinating gene expression (Chromosome Research (2005) 13:3 (327-337)).” Chromosome Research 13, no. 4 (June 1, 2005).
  - Keene, Jack D., and Patrick J. Lager. “Post-transcriptional operons and regulons co-ordinating gene expression.” Chromosome Res 13, no. 3 (2005): 327–37. https://doi.org/10.1007/s10577-005-0848-1.
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  - Penalva, Luiz O. F., and Jack D. Keene. “Biotinylated tags for recovery and characterization of ribonucleoprotein complexes.” Biotechniques 37, no. 4 (October 2004): 604–10. https://doi.org/10.2144/04374ST05.
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  - Penalva, Luiz O. F., Michael D. Burdick, Simon M. Lin, Hedwig Sutterluety, and Jack D. Keene. “RNA-binding proteins to assess gene expression states of co-cultivated cells in response to tumor cells.” Mol Cancer 3 (September 7, 2004): 24. https://doi.org/10.1186/1476-4598-3-24.
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  - Keene, J. D. “Microbiology and Molecular Biology Reviews: Note from the editor in chief.” Microbiology and Molecular Biology Reviews 68, no. 2 (June 1, 2004).
  - Mesarovic, M. D., S. N. Sreenath, and J. D. Keene. “Search for organising principles: understanding in systems biology.” Syst Biol (Stevenage) 1, no. 1 (June 2004): 19–27. https://doi.org/10.1049/sb:20045010.
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  - Kenan, Daniel J., and Jack D. Keene. “La gets its wings.” Nat Struct Mol Biol 11, no. 4 (April 2004): 303–5. https://doi.org/10.1038/nsmb0404-303.
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  - Hallett, M., L. H. Phillips, D. L. Schomer, and J. M. Massey. “Preface.” Supplements to Clinical Neurophysiology 57, no. C (January 1, 2004). https://doi.org/10.1016/S1567-424X(09)70335-6.
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  - Penalva, Luiz O. F., Scott A. Tenenbaum, and Jack D. Keene. “Gene expression analysis of messenger RNP complexes.” Methods Mol Biol 257 (2004): 125–34. https://doi.org/10.1385/1-59259-750-5:125.
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  - Keene, Jack D. “Posttranscriptional generation of macromolecular complexes.” Mol Cell 12, no. 6 (December 2003): 1347–49. https://doi.org/10.1016/s1097-2765(03)00496-9.
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  - Intine, Robert V., Scott A. Tenenbaum, Amy L. Sakulich, Jack D. Keene, and Richard J. Maraia. “Differential phosphorylation and subcellular localization of La RNPs associated with precursor tRNAs and translation-related mRNAs.” Mol Cell 12, no. 5 (November 2003): 1301–7. https://doi.org/10.1016/s1097-2765(03)00429-5.
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  - Tenenbaum, Scott A., Craig C. Carson, Ulus Atasoy, and Jack D. Keene. “Genome-wide regulatory analysis using en masse nuclear run-ons and ribonomic profiling with autoimmune sera.” Gene 317, no. 1–2 (October 23, 2003): 79–87. https://doi.org/10.1016/s0378-1119(03)00661-9.
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  - Lerner, Rachel S., Robert M. Seiser, Tianli Zheng, Patrick J. Lager, Mary C. Reedy, Jack D. Keene, and Christopher V. Nicchitta. “Partitioning and translation of mRNAs encoding soluble proteins on membrane-bound ribosomes.” Rna 9, no. 9 (September 2003): 1123–37. https://doi.org/10.1261/rna.5610403.
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  - Mazan-Mamczarz, Krystyna, Stefanie Galbán, Isabel López de Silanes, Jennifer L. Martindale, Ulus Atasoy, Jack D. Keene, and Myriam Gorospe. “RNA-binding protein HuR enhances p53 translation in response to ultraviolet light irradiation.” Proc Natl Acad Sci U S A 100, no. 14 (July 8, 2003): 8354–59. https://doi.org/10.1073/pnas.1432104100.
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  - Keene, Jack D. “Organizing mRNA export.” Nat Genet 33, no. 2 (February 2003): 111–12. https://doi.org/10.1038/ng0203-111.
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  - Keene, Jack D., and Scott A. Tenenbaum. “Eukaryotic mRNPs may represent posttranscriptional operons.” Mol Cell 9, no. 6 (June 2002): 1161–67. https://doi.org/10.1016/s1097-2765(02)00559-2.
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  - Lipes, Barbara D., and Jack D. Keene. “Autoimmune epitopes in messenger RNA.” Rna 8, no. 6 (June 2002): 762–71. https://doi.org/10.1017/s1355838202021507.
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  - Eystathioy, Theophany, Edward K. L. Chan, Scott A. Tenenbaum, Jack D. Keene, Kevin Griffith, and Marvin J. Fritzler. “A phosphorylated cytoplasmic autoantigen, GW182, associates with a unique population of human mRNAs within novel cytoplasmic speckles.” Mol Biol Cell 13, no. 4 (April 2002): 1338–51. https://doi.org/10.1091/mbc.01-11-0544.
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  - Tenenbaum, Scott A., Patrick J. Lager, Craig C. Carson, and Jack D. Keene. “Ribonomics: identifying mRNA subsets in mRNP complexes using antibodies to RNA-binding proteins and genomic arrays.” Methods 26, no. 2 (February 2002): 191–98. https://doi.org/10.1016/S1046-2023(02)00022-1.
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  - Brown, V., P. Jin, S. Ceman, J. C. Darnell, W. T. O’Donnell, S. A. Tenenbaum, X. Jin, et al. “Microarray identification of FMRP-associated brain mRNAs and altered mRNA translational profiles in fragile X syndrome.” Cell 107, no. 4 (November 16, 2001): 477–87. https://doi.org/10.1016/s0092-8674(01)00568-2.
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  - Keene, J. D. “Ribonucleoprotein infrastructure regulating the flow of genetic information between the genome and the proteome.” Proc Natl Acad Sci U S A 98, no. 13 (June 19, 2001): 7018–24. https://doi.org/10.1073/pnas.111145598.
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  - Tenenbaum, S. A., C. C. Carson, P. J. Lager, and J. D. Keene. “Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays.” Proc Natl Acad Sci U S A 97, no. 26 (December 19, 2000): 14085–90. https://doi.org/10.1073/pnas.97.26.14085.
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  - Ali, N., G. J. Pruijn, D. J. Kenan, J. D. Keene, and A. Siddiqui. “Human La antigen is required for the hepatitis C virus internal ribosome entry site-mediated translation.” J Biol Chem 275, no. 36 (September 8, 2000): 27531–40. https://doi.org/10.1074/jbc.M001487200.
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  - Nagai, Y., T. Tucker, H. Ren, D. J. Kenan, B. S. Henderson, J. D. Keene, W. J. Strittmatter, and J. R. Burke. “Inhibition of polyglutamine protein aggregation and cell death by novel peptides identified by phage display screening.” J Biol Chem 275, no. 14 (April 7, 2000): 10437–42. https://doi.org/10.1074/jbc.275.14.10437.
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  - Nagai, Y., T. J. Tucker, D. J. Kenan, B. S. Henderson, J. D. Keene, W. J. Strittmatter, and J. R. Burke. “Identification of QBP1, a synthetic peptide that preferentially binds expanded polyglutamine domain by phage display technique.” American Journal of Human Genetics 65, no. 4 (October 1, 1999): A463–A463.
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  - Antic, D., N. Lu, and J. D. Keene. “ELAV tumor antigen, Hel-N1, increases translation of neurofilament M mRNA and induces formation of neurites in human teratocarcinoma cells.” Genes Dev 13, no. 4 (February 15, 1999): 449–61. https://doi.org/10.1101/gad.13.4.449.
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  - Ford, L. P., J. Watson, J. D. Keene, and J. Wilusz. “ELAV proteins stabilize deadenylated intermediates in a novel in vitro mRNA deadenylation/degradation system.” Genes Dev 13, no. 2 (January 15, 1999): 188–201. https://doi.org/10.1101/gad.13.2.188.
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  - Keene, J. D. “Why is Hu where? Shuttling of early-response-gene messenger RNA subsets.” Proc Natl Acad Sci U S A 96, no. 1 (January 5, 1999): 5–7. https://doi.org/10.1073/pnas.96.1.5.
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  - Andrews, L. G., and J. D. Keene. “Identification of specific protein-RNA target sites using libraries of natural sequences.” Methods Mol Biol 118 (1999): 233–44. https://doi.org/10.1385/1-59259-676-2:233.
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  - Kenan, D. J., and J. D. Keene. “In vitro selection of aptamers from RNA libraries.” Methods Mol Biol 118 (1999): 217–31. https://doi.org/10.1385/1-59259-676-2:217.
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  - Atasoy, U., J. Watson, D. Patel, and J. D. Keene. “ELAV protein HuA (HuR) can redistribute between nucleus and cytoplasm and is upregulated during serum stimulation and T cell activation.” J Cell Sci 111 ( Pt 21) (November 1998): 3145–56.
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  - Antic, D., and J. D. Keene. “Messenger ribonucleoprotein complexes containing human ELAV proteins: interactions with cytoskeleton and translational apparatus.” J Cell Sci 111 ( Pt 2) (January 1998): 183–97.
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  - Antic, D., and J. D. Keene. “Embryonic lethal abnormal visual RNA-binding proteins involved in growth, differentiation, and posttranscriptional gene expression.” Am J Hum Genet 61, no. 2 (August 1997): 273–78. https://doi.org/10.1086/514866.
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  - Jain, R. G., L. G. Andrews, K. M. McGowan, P. H. Pekala, and J. D. Keene. “Ectopic expression of Hel-N1, an RNA-binding protein, increases glucose transporter (GLUT1) expression in 3T3-L1 adipocytes.” Mol Cell Biol 17, no. 2 (February 1997): 954–62. https://doi.org/10.1128/mcb.17.2.954.
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  - Keene, J. D. “Letters.” Scientist 10, no. 16 (August 19, 1996).
  - Keene, J. D. “RNA surfaces as functional mimetics of proteins.” Chem Biol 3, no. 7 (July 1996): 505–13. https://doi.org/10.1016/s1074-5521(96)90139-8.
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  - Das, S., D. J. Kenan, D. Bocskai, J. D. Keene, and A. Dasgupta. “Sequences within a small yeast RNA required for inhibition of internal initiation of translation: interaction with La and other cellular proteins influences its inhibitory activity.” J Virol 70, no. 3 (March 1996): 1624–32.
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  - Gao, F. B., and J. D. Keene. “Hel-N1/Hel-N2 proteins are bound to poly(A)+ mRNA in granular RNP structures and are implicated in neuronal differentiation.” J Cell Sci 109 ( Pt 3) (March 1996): 579–89.
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  - Keene, J. D. “RNA recognition by autoantigens and autoantibodies.” Mol Biol Rep 23, no. 3–4 (1996): 173–81. https://doi.org/10.1007/bf00351166.
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  - Keene, J. D. “Randomization and selection of RNA to identify targets for RRM RNA-binding proteins and antibodies.” Methods Enzymol 267 (1996): 367–83. https://doi.org/10.1016/s0076-6879(96)67023-2.
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  - Methot, N., G. Pickett, J. D. Keene, and N. Sonenberg. “In vitro RNA selection identifies RNA ligands that specifically bind to eukaryotic translation initiation factor 4B: the role of the RNA remotif.” Rna 2, no. 1 (January 1996): 38–50.
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  - Romac, J. M., and J. D. Keene. “Overexpression of the arginine-rich carboxy-terminal region of U1 snRNP 70K inhibits both splicing and nucleocytoplasmic transport of mRNA.” Genes Dev 9, no. 11 (June 1, 1995): 1400–1410. https://doi.org/10.1101/gad.9.11.1400.
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  - Chang, Y. N., D. J. Kenan, J. D. Keene, A. Gatignol, and K. T. Jeang. “Erratum: Direct interactions between autoantigen La and human immunodeficiency virus leader RNA (Journal of Virology 68:11 (7014)).” Journal of Virology 69, no. 1 (January 1, 1995): 618–19.
  - Chang, Y. N., D. J. Kenan, J. D. Keene, A. Gatignol, and K. T. Jeang. “Direct interactions between autoantigen La and human immunodeficiency virus leader RNA.” J Virol 69, no. 1 (January 1995): 618–19.
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  - Jain, R. G., L. G. Andrews, K. M. McGowan, F. Gao, J. D. Keene, and P. P. Pekala. “Hel-N1, an RNA-binding protein, is a ligand for an A + U rich region of the GLUT1 3' UTR.” Nucleic Acids Symp Ser, no. 33 (1995): 209–11.
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  - Gao, F. B., C. C. Carson, T. Levine, and J. D. Keene. “Selection of a subset of mRNAs from combinatorial 3' untranslated region libraries using neuronal RNA-binding protein Hel-N1.” Proc Natl Acad Sci U S A 91, no. 23 (November 8, 1994): 11207–11. https://doi.org/10.1073/pnas.91.23.11207.
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  - Chang, Y. N., D. J. Kenan, J. D. Keene, A. Gatignol, and K. T. Jeang. “Direct interactions between autoantigen La and human immunodeficiency virus leader RNA.” J Virol 68, no. 11 (November 1994): 7008–20.
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  - Romac, J. M., D. H. Graff, and J. D. Keene. “The U1 small nuclear ribonucleoprotein (snRNP) 70K protein is transported independently of U1 snRNP particles via a nuclear localization signal in the RNA-binding domain.” Mol Cell Biol 14, no. 7 (July 1994): 4662–70. https://doi.org/10.1128/mcb.14.7.4662.
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  - Saitta, M. R., F. C. Arnett, and J. D. Keene. “60-kDa Ro protein autoepitopes identified using recombinant polypeptides.” J Immunol 152, no. 8 (April 15, 1994): 4192–4202.
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  - Kelekar, A., M. R. Saitta, and J. D. Keene. “Molecular composition of Ro small ribonucleoprotein complexes in human cells. Intracellular localization of the 60- and 52-kD proteins.” J Clin Invest 93, no. 4 (April 1994): 1637–44. https://doi.org/10.1172/JCI117145.
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  - King, P. H., T. D. Levine, R. T. Fremeau, and J. D. Keene. “Mammalian homologs of Drosophila ELAV localized to a neuronal subset can bind in vitro to the 3' UTR of mRNA encoding the Id transcriptional repressor.” J Neurosci 14, no. 4 (April 1994): 1943–52.
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  - Maraia, R. J., D. J. Kenan, and J. D. Keene. “Eukaryotic transcription termination factor La mediates transcript release and facilitates reinitiation by RNA polymerase III.” Mol Cell Biol 14, no. 3 (March 1994): 2147–58. https://doi.org/10.1128/mcb.14.3.2147.
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  - Kenan, D. J., D. E. Tsai, and J. D. Keene. “Exploring molecular diversity with combinatorial shape libraries.” Trends Biochem Sci 19, no. 2 (February 1994): 57–64. https://doi.org/10.1016/0968-0004(94)90033-7.
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  - Meerovitch, K., Y. V. Svitkin, H. S. Lee, F. Lejbkowicz, D. J. Kenan, E. K. Chan, V. I. Agol, J. D. Keene, and N. Sonenberg. “La autoantigen enhances and corrects aberrant translation of poliovirus RNA in reticulocyte lysate.” J Virol 67, no. 7 (July 1993): 3798–3807.
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  - Levine, T. D., F. Gao, P. H. King, L. G. Andrews, and J. D. Keene. “Hel-N1: an autoimmune RNA-binding protein with specificity for 3' uridylate-rich untranslated regions of growth factor mRNAs.” Mol Cell Biol 13, no. 6 (June 1993): 3494–3504. https://doi.org/10.1128/mcb.13.6.3494.
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  - Tsai, D. E., and J. D. Keene. “In vitro selection of RNA epitopes using autoimmune patient serum.” J Immunol 150, no. 3 (February 1, 1993): 1137–45.
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  - Tsai, D. E., D. J. Kenan, and J. D. Keene. “In vitro selection of an RNA epitope immunologically cross-reactive with a peptide.” Proc Natl Acad Sci U S A 89, no. 19 (October 1, 1992): 8864–68. https://doi.org/10.1073/pnas.89.19.8864.
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  - Harper, D. S., L. D. Fresco, and J. D. Keene. “RNA binding specificity of a Drosophila snRNP protein that shares sequence homology with mammalian U1-A and U2-B" proteins.” Nucleic Acids Res 20, no. 14 (July 25, 1992): 3645–50. https://doi.org/10.1093/nar/20.14.3645.
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  - Saitta, M. R., and J. D. Keene. “Molecular biology of nuclear autoantigens.” Rheum Dis Clin North Am 18, no. 2 (May 1992): 283–310.
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  - Tsai, D. E., D. S. Harper, and J. D. Keene. “U1-snRNP-A protein selects a ten nucleotide consensus sequence from a degenerate RNA pool presented in various structural contexts.” Nucleic Acids Res 19, no. 18 (September 25, 1991): 4931–36. https://doi.org/10.1093/nar/19.18.4931.
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  - Kenan, D. J., C. C. Query, and J. D. Keene. “RNA recognition: towards identifying determinants of specificity.” Trends Biochem Sci 16, no. 6 (June 1991): 214–20. https://doi.org/10.1016/0968-0004(91)90088-d.
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  - Bentley, R. C., and J. D. Keene. “Recognition of U1 and U2 small nuclear RNAs can be altered by a 5-amino-acid segment in the U2 small nuclear ribonucleoprotein particle (snRNP) B" protein and through interactions with U2 snRNP-A' protein.” Mol Cell Biol 11, no. 4 (April 1991): 1829–39. https://doi.org/10.1128/mcb.11.4.1829.
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  - Hoffman, D. W., C. C. Query, B. L. Golden, S. W. White, and J. D. Keene. “RNA-binding domain of the A protein component of the U1 small nuclear ribonucleoprotein analyzed by NMR spectroscopy is structurally similar to ribosomal proteins.” Proc Natl Acad Sci U S A 88, no. 6 (March 15, 1991): 2495–99. https://doi.org/10.1073/pnas.88.6.2495.
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  - St Clair, E. W., D. Kenan, J. A. Burch, J. D. Keene, and D. S. Pisetsky. “Anti-La antibody production by MRL-1pr/1pr mice. Analysis of fine specificity.” J Immunol 146, no. 6 (March 15, 1991): 1885–92.
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  - Fresco, L. D., D. S. Harper, and J. D. Keene. “Leucine periodicity of U2 small nuclear ribonucleoprotein particle (snRNP) A' protein is implicated in snRNP assembly via protein-protein interactions.” Mol Cell Biol 11, no. 3 (March 1991): 1578–89. https://doi.org/10.1128/mcb.11.3.1578.
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  - Tamura, H., C. Kohchi, R. Yamada, T. Ikeda, O. Koiwai, E. Patterson, J. D. Keene, K. Okada, E. Kjeldsen, and K. Nishikawa. “Molecular cloning of a cDNA of a camptothecin-resistant human DNA topoisomerase I and identification of mutation sites.” Nucleic Acids Res 19, no. 1 (January 11, 1991): 69–75. https://doi.org/10.1093/nar/19.1.69.
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  - Keene, J. D., and C. C. Query. “Nuclear RNA-binding proteins.” Prog Nucleic Acid Res Mol Biol 41 (1991): 179–202. https://doi.org/10.1016/s0079-6603(08)60009-4.
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  - Sunde, L., E. Kjeldsen, T. Andoh, J. D. Keene, and L. Bolund. “A three allele TaqI polymorphism at TOP1 gene.” Nucleic Acids Res 18, no. 19 (October 11, 1990): 5919. https://doi.org/10.1093/nar/18.19.5919-a.
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  - Lutz-Freyermuth, C., C. C. Query, and J. D. Keene. “Quantitative determination that one of two potential RNA-binding domains of the A protein component of the U1 small nuclear ribonucleoprotein complex binds with high affinity to stem-loop II of U1 RNA.” Proc Natl Acad Sci U S A 87, no. 16 (August 1990): 6393–97. https://doi.org/10.1073/pnas.87.16.6393.
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  - St Clair, E. W., D. Kenan, J. A. Burch, J. D. Keene, and D. S. Pisetsky. “The fine specificity of anti-La antibodies induced in mice by immunization with recombinant human La autoantigen.” J Immunol 144, no. 10 (May 15, 1990): 3868–76.
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  - St Clair, E. W., C. C. Query, R. Bentley, J. D. Keene, R. P. Polisson, N. B. Allen, D. S. Caldwell, J. R. Rice, C. Cox, and D. S. Pisetsky. “Expression of autoantibodies to recombinant (U1) RNP-associated 70K antigen in systemic lupus erythematosus.” Clin Immunol Immunopathol 54, no. 2 (February 1990): 266–80. https://doi.org/10.1016/0090-1229(90)90088-8.
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  - St Clair, E. W., J. A. Burch, M. M. Ward, J. D. Keene, and D. S. Pisetsky. “Temporal correlation of antibody responses to different epitopes of the human La autoantigen.” J Clin Invest 85, no. 2 (February 1990): 515–21. https://doi.org/10.1172/JCI114467.
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  - Harper, D. S., L. D. Fresco, and J. D. Keene. “Characterization of a Drosophila U snRNP RNA-binding protein.” Mol Biol Rep 14, no. 2–3 (1990): 163. https://doi.org/10.1007/bf00360458.
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  - James, J. A., W. D. Dickey, A. Fujisaku, C. A. O’Brien, S. L. Deutscher, J. D. Keene, and J. B. Harley. “Antigenicity of a recombinant Ro (SS-A) fusion protein.” Arthritis Rheum 33, no. 1 (January 1990): 102–6. https://doi.org/10.1002/art.1780330114.
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  - Kelekar, A., and J. D. Keene. “Downregulation of RNA polymerase III transcription of the hY3 gene in vitro.” Mol Biol Rep 14, no. 2–3 (1990): 173–74. https://doi.org/10.1007/bf00360463.
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  - Query, C. C., R. C. Bentley, and J. D. Keene. “A specific 31-nucleotide domain of U1 RNA directly interacts with the 70K small nuclear ribonucleoprotein component.” Mol Cell Biol 9, no. 11 (November 1989): 4872–81. https://doi.org/10.1128/mcb.9.11.4872.
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  - Crone, D. E., and J. D. Keene. “Viral transcription is necessary and sufficient for vesicular stomatitis virus to inhibit maturation of small nuclear ribonucleoproteins.” J Virol 63, no. 10 (October 1989): 4172–80.
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  - Frielle, D. W., P. B. Kim, and J. D. Keene. “Inhibitory effects of vesicular stomatitis virus on cellular and influenza viral RNA metabolism and protein synthesis.” Virology 172, no. 1 (September 1989): 274–84. https://doi.org/10.1016/0042-6822(89)90129-3.
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  - Keene, J. D. “Molecular structure of the La and Ro autoantigens and their use in autoimmune diagnostics.” J Autoimmun 2, no. 4 (August 1989): 329–34. https://doi.org/10.1016/0896-8411(89)90160-1.
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  - St Clair, E. W., N. Talal, H. M. Moutsopoulos, A. Ballester, L. Zerva, J. D. Keene, and D. S. Pisetsky. “Epitope specificity of anti-La antibodies from patients with Sjögren's syndrome.” J Autoimmun 2, no. 4 (August 1989): 335–44. https://doi.org/10.1016/0896-8411(89)90161-3.
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  - Lutz-Freyermuth, C., and J. D. Keene. “The U1 RNA-binding site of the U1 small nuclear ribonucleoprotein (snRNP)-associated A protein suggests a similarity with U2 snRNPs.” Mol Cell Biol 9, no. 7 (July 1989): 2975–82. https://doi.org/10.1128/mcb.9.7.2975.
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  - Query, C. C., R. C. Bentley, and J. D. Keene. “A common RNA recognition motif identified within a defined U1 RNA binding domain of the 70K U1 snRNP protein.” Cell 57, no. 1 (April 7, 1989): 89–101. https://doi.org/10.1016/0092-8674(89)90175-x.
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  - St Clair, E. W., D. S. Pisetsky, C. F. Reich, and J. D. Keene. “Analysis of autoantibody binding to different regions of the human La antigen expressed in recombinant fusion proteins.” J Immunol 141, no. 12 (December 15, 1988): 4173–80.
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  - Chambers, J. C., D. Kenan, B. J. Martin, and J. D. Keene. “Genomic structure and amino acid sequence domains of the human La autoantigen.” J Biol Chem 263, no. 34 (December 5, 1988): 18043–51.
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  - Deutscher, S. L., J. B. Harley, and J. D. Keene. “Molecular analysis of the 60-kDa human Ro ribonucleoprotein.” Proc Natl Acad Sci U S A 85, no. 24 (December 1988): 9479–83. https://doi.org/10.1073/pnas.85.24.9479.
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  - Deutscher, S. L., and J. D. Keene. “A sequence-specific conformational epitope on U1 RNA is recognized by a unique autoantibody.” Proc Natl Acad Sci U S A 85, no. 10 (May 1988): 3299–3303. https://doi.org/10.1073/pnas.85.10.3299.
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  - St Clair, E. W., D. S. Pisetsky, C. F. Reich, J. C. Chambers, and J. D. Keene. “Quantitative immunoassay of anti-La antibodies using purified recombinant La antigen.” Arthritis Rheum 31, no. 4 (April 1988): 506–14. https://doi.org/10.1002/art.1780310407.
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  - Query, C. C., and J. D. Keene. “A human autoimmune protein associated with U1 RNA contains a region of homology that is cross-reactive with retroviral p30gag antigen.” Cell 51, no. 2 (October 23, 1987): 211–20. https://doi.org/10.1016/0092-8674(87)90148-6.
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  - Chambers, J. C., and J. D. Keene. “Association between autoimmune epitopes and RNA binding domains of the human Lupus La protein.” Molecular Biology Reports 12, no. 3 (September 1, 1987). https://doi.org/10.1007/BF00356919.
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  - Deutscher, S. L., J. B. Harley, and J. D. Keene. “Molecular characterization of the Ro small cytoplasmic RNPS.” Molecular Biology Reports 12, no. 3 (September 1, 1987). https://doi.org/10.1007/BF00356920.
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  - Fresco, L. D., and J. D. Keene. “Molecular analysis of the U2 snRNP unique protein A′.” Molecular Biology Reports 12, no. 3 (September 1, 1987). https://doi.org/10.1007/BF00356873.
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  - Keene, J. D., S. L. Deutscher, D. Kenan, and A. Kelekar. “Nature of the la and ro RNPs.” Molecular Biology Reports 12, no. 3 (September 1, 1987): 235–38. https://doi.org/10.1007/BF00356917.
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  - Query, C. C., and J. D. Keene. “The U1 RNA-specific 70K protein: RNA-binding studies and autoimmune cross-reactivity with type-C retroviruses.” Molecular Biology Reports 12, no. 3 (September 1, 1987). https://doi.org/10.1007/BF00356875.
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  - Fresco, L. D., M. G. Kurilla, and J. D. Keene. “Rapid inhibition of processing and assembly of small nuclear ribonucleoproteins after infection with vesicular stomatitis virus.” Mol Cell Biol 7, no. 3 (March 1987): 1148–55. https://doi.org/10.1128/mcb.7.3.1148.
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  - Wilusz, J., and J. D. Keene. “Autoantibodies specific for U1 RNA and initiator methionine tRNA.” J Biol Chem 261, no. 12 (April 25, 1986): 5467–72.
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  - Kiley, M. P., J. Wilusz, J. B. McCormick, and J. D. Keene. “Conservation of the 3' terminal nucleotide sequences of Ebola and Marburg virus.” Virology 149, no. 2 (March 1986): 251–54. https://doi.org/10.1016/0042-6822(86)90127-3.
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  - Kole, R., L. D. Fresco, J. D. Keene, P. L. Cohen, R. A. Eisenberg, and P. G. Andrews. “Alu RNA-protein complexes formed in vitro react with a novel lupus autoantibody.” Journal of Biological Chemistry 260, no. 21 (December 1, 1985): 11781–86.
  - Pisetsky, D. S., S. O. Hoch, C. L. Klatt, M. A. O’Donnell, and J. D. Keene. “Specificity and idiotypic analysis of a monoclonal anti-Sm antibody with anti-DNA activity.” J Immunol 135, no. 6 (December 1985): 4080–85.
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  - Piwnica-Worms, H., and J. D. Keene. “Replication of the vesicular stomatitis virus genome in permissive and nonpermissive host cells.” Journal of Biological Chemistry 260, no. 19 (December 1, 1985): 10503–11.
  - Piwnica-Worms, H., and J. D. Keene. “Replication of the vesicular stomatitis virus genome in permissive and nonpermissive host cells.” J Biol Chem 260, no. 19 (September 5, 1985): 10503–11.
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  - Kurilla, M. G., H. O. Stone, and J. D. Keene. “RNA sequence and transcriptional properties of the 3' end of the Newcastle disease virus genome.” Virology 145, no. 2 (September 1985): 203–12. https://doi.org/10.1016/0042-6822(85)90154-0.
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  - Keene, J. D. “Interactions between small viral RNAs of vesicular stomatitis virus and components of cellular gene expression.” Microbiol Sci 2, no. 5 (May 1985): 152–56.
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  - Chambers, J. C., and J. D. Keene. “Isolation and analysis of cDNA clones expressing human lupus La antigen.” Proc Natl Acad Sci U S A 82, no. 7 (April 1985): 2115–19. https://doi.org/10.1073/pnas.82.7.2115.
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  - Wilusz, J., J. S. Youngner, and J. D. Keene. “Base mutations in the terminal noncoding regions of the genome of vesicular stomatitis virus isolated from persistent infections of L cells.” Virology 140, no. 2 (January 30, 1985): 249–56. https://doi.org/10.1016/0042-6822(85)90363-0.
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  - Meier, E., G. G. Harmison, J. D. Keene, and M. Schubert. “Sites of copy choice replication involved in generation of vesicular stomatitis virus defective-interfering particle RNAs.” J Virol 51, no. 2 (August 1984): 515–21.
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  - Kurilla, M. G., C. D. Cabradilla, B. P. Holloway, and J. D. Keene. “Nucleotide sequence and host La protein interactions of rabies virus leader RNA.” J Virol 50, no. 3 (June 1984): 773–78.
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  - Wilusz, J., and J. D. Keene. “Interactions of plus and minus strand leader RNAs of the New Jersey serotype of vesicular stomatitis virus with the cellular La protein.” Virology 135, no. 1 (May 1984): 65–73. https://doi.org/10.1016/0042-6822(84)90117-x.
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  - Chambers, J. C., M. G. Kurilla, and J. D. Keene. “Association between the 7 S RNA and the lupus La protein varies among cell types.” J Biol Chem 258, no. 19 (October 10, 1983): 11438–41.
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  - Kurilla, M. G., and J. D. Keene. “The leader RNA of vesicular stomatitis virus is bound by a cellular protein reactive with anti-La lupus antibodies.” Cell 34, no. 3 (October 1983): 837–45. https://doi.org/10.1016/0092-8674(83)90541-x.
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  - Wilusz, J., M. G. Kurilla, and J. D. Keene. “A host protein (La) binds to a unique species of minus-sense leader RNA during replication of vesicular stomatitis virus.” Proc Natl Acad Sci U S A 80, no. 19 (October 1983): 5827–31. https://doi.org/10.1073/pnas.80.19.5827.
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  - Piwnica-Worms, H., and J. D. Keene. “Sequential synthesis of small capped RNA transcripts in vitro by vesicular stomatitis virus.” Virology 125, no. 1 (February 1983): 206–18. https://doi.org/10.1016/0042-6822(83)90074-0.
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  - Chambers, J. C., M. G. Kurilla, and J. D. Keene. “Association between the 7 S RNA and the lupus La protein varies among cell types.” Journal of Biological Chemistry 258, no. 19 (January 1, 1983): 11438–41.
  - Gaillard, R. K., J. K. Li, J. D. Keene, and W. K. Joklik. “The sequence at the termini of four genes of the three reovirus serotypes.” Virology 121, no. 2 (September 1982): 320–26. https://doi.org/10.1016/0042-6822(82)90171-4.
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  - Kurilla, M. G., H. Piwnica-Worms, and J. D. Keene. “Rapid and transient localization of the leader RNA of vesicular stomatitis virus in the nuclei of infected cells.” Proc Natl Acad Sci U S A 79, no. 17 (September 1982): 5240–44. https://doi.org/10.1073/pnas.79.17.5240.
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  - Isaac, C. L., and J. D. Keene. “RNA polymerase-associated interactions near template promoter sequences of defective interfering particles of vesicular stomatitis virus.” J Virol 43, no. 1 (July 1982): 241–49.
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  - Lazzarini, R. A., I. Chien, F. Yang, and J. D. Keene. “The metabolic fate of independently initiated VSV mRNA transcripts.” J Gen Virol 58, no. Pt 2 (February 1982): 429–41. https://doi.org/10.1099/0022-1317-58-2-429.
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  - Schmidt, E. V., J. D. Keene, M. Linial, and R. E. Smith. “Association of 3' terminal RNA sequences with avian leukosis viruses causing a high incidence of osteopetrosis.” Virology 116, no. 1 (January 15, 1982): 163–80. https://doi.org/10.1016/0042-6822(82)90411-1.
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  - Keene, J. D., B. J. Thornton, and S. U. Emerson. “Sequence-specific contacts between the RNA polymerase of vesicular stomatitis virus and the leader RNA gene.” Proc Natl Acad Sci U S A 78, no. 10 (October 1981): 6191–95. https://doi.org/10.1073/pnas.78.10.6191.
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  - Lazzarini, R. A., J. D. Keene, and M. Schubert. “The origins of defective interfering particles of the negative-strand RNA viruses.” Cell 26, no. 2 Pt 2 (October 1981): 145–54. https://doi.org/10.1016/0092-8674(81)90298-1.
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  - Isaac, C. L., and J. D. Keene. “Transfer RNAs associated with vesicular stomatitis virus.” J Gen Virol 56, no. Pt 1 (September 1981): 141–51. https://doi.org/10.1099/0022-1317-56-1-141.
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  - Keene, J. D., I. M. Chien, and R. A. Lazzarini. “Vesicular stomatitis virus defective interfering particle containing a muted internal leader RNA gene.” Proceedings of the National Academy of Sciences of the United States of America 78, no. 4 II (January 1, 1981): 2090–94.
  - Herman, R. C., M. Schubert, J. D. Keene, and R. A. Lazzarini. “Polycistronic vesicular stomatitis virus RNA transcripts.” Proc Natl Acad Sci U S A 77, no. 8 (August 1980): 4662–65. https://doi.org/10.1073/pnas.77.8.4662.
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  - Li, J. K., J. D. Keene, P. P. Scheible, and W. K. Joklik. “Nature of the 3'-terminal sequences of the plus and minus strands of the S1 gene of reovirus serotypes 1, 2 and 3.” Virology 105, no. 1 (August 1980): 41–51. https://doi.org/10.1016/0042-6822(80)90154-3.
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  - Li, J. K., P. P. Scheible, J. D. Keene, and W. K. Joklik. “The plus strand of reovirus gene S2 is identical with its in vitro transcript.” Virology 105, no. 1 (August 1980): 282–86. https://doi.org/10.1016/0042-6822(80)90181-6.
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  - Schubert, M., J. D. Keene, R. C. Herman, and R. A. Lazzarini. “Site on the vesicular stomatitis virus genome specifying polyadenylation and the end of the L gene mRNA.” J Virol 34, no. 2 (May 1980): 550–59.
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  - Keene, J. D., M. Schubert, and R. A. Lazzarini. “Intervening sequence between the leader region and the nucleopcapsid gene of vesicular stomatitis virus RNA.” J Virol 33, no. 2 (February 1980): 789–94.
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  - Schubert, M., J. D. Keene, and R. A. Lazzarini. “A specific internal RNA polymerase recognition site of VSV RNA is involved in the generation of DI particles.” Cell 18, no. 3 (November 1979): 749–57. https://doi.org/10.1016/0092-8674(79)90128-4.
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  - Keene, J. D., M. Schubert, and R. A. Lazzarini. “Terminal sequences of vesicular stomatitis virus RNA are both complementary and conserved.” J Virol 32, no. 1 (October 1979): 167–74.
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  - Schubert, M., J. D. Keene, R. A. Lazzarini, and S. U. Emerson. “The complete sequence of a unique RNA species synthesized by a DI particle of VSV.” Cell 15, no. 1 (September 1978): 103–12. https://doi.org/10.1016/0092-8674(78)90086-7.
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  - Keene, J. D., M. Schubert, R. A. Lazzarini, and M. Rosenberg. “Nucleotide sequence homology at the 3' termini of RNA from vesicular stomatitis virus and its defective interfering particles.” Proc Natl Acad Sci U S A 75, no. 7 (July 1978): 3225–29. https://doi.org/10.1073/pnas.75.7.3225.
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  - Colonno, R. J., R. A. Lazzarini, J. D. Keene, and A. K. Banerjee. “In vitro synthesis of messenger RNA by a defective interfering particle of vesicular stomatitis virus.” Proc Natl Acad Sci U S A 74, no. 5 (May 1977): 1884–88. https://doi.org/10.1073/pnas.74.5.1884.
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  - Keene, J. D., M. Rosenberg, and R. A. Lazzarini. “Characterization of the 3' terminus of RNA isolated from vesicular stomatitis virus and from its defective interfering particles.” Proc Natl Acad Sci U S A 74, no. 4 (April 1977): 1353–57. https://doi.org/10.1073/pnas.74.4.1353.
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  - Keene, J. D., and R. A. Lazzarini. “A comparison of the extents of methylation of vesicular stomatitis virus messenger RNA.” Virology 69, no. 1 (January 1976): 364–67. https://doi.org/10.1016/0042-6822(76)90229-4.
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- Book Sections
  - Keene, J. D. “Preface,” Vol. 768, 2013. https://doi.org/10.1007/978-1-4614-5107_5.
    Full Text
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- Duke University. Provost's Committee on Named Professorships. 2003 - 2006 2003 - 2006
- Duke Comprehensive Cancer Center. Director of Basic Science. 1995 - 2003 1995 - 2003
- Departmental Chair. Administrative. Duke University Medical Center. 1992 - 2002 1992 - 2002

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