Difference between revisions of "Template:Waterloo/JS/references"

Revision as of 02:05, 18 September 2015

// JSON for all citations, key is first author's last name + year, value is text that should appear in the citation var references = { "Bak2013": "Bak, A. et al. \"Virus Factories of Cauliflower Mosaic Virus Are Virion Reservoirs That Engage Actively in Vector Transmission\". J Virol, vol 87, pp. 12207 - 12215, 2013. DOI: 10.1128/JVI.01883-13.",

"Haas2002": "Haas, M., Bureau, M., Geldreich, A., Yot, P., Keller, M. \"Cauliflower Mosaic Virus: still in the news.\" Mol Plant Pathol, vol 3, pp. 419-429, 2002. DOI: 10.1046/j.1364-3703.2002.00136.x.",

"Khelifa2010": "Khelifa, M., Massé, D., Blanc, S. and Drucker, M. \"Evaluation of the minimal replication time of Cauliflower mosaic virus in different hosts\". Virology, vol 296, pp. 238-245, 2010",

"Laird2013": "Laird et al. Identification of the domains of cauliflower mosaic virus protein P6 responsible for suppression of RNA silencing and salicylic acid signalling. J Gen Virol, vol. 94, pp. 2777-2789, 2013. DOI: 10.1099/vir.0.057729-0.",

"Adie2007": "B. A. T. Adie, J. Pérez-Pérez, M. M. Pérez-Pérez, M. Godoy, J.-J. Sánchez-Serrano, E. A. Schmelz, and R. Solano, \"ABA Is an Essential Signal for Plant Resistance to Pathogens Affecting JA Biosynthesis and the Activation of Defenses in Arabidopsis,\" Plant Cell, vol. 19, no. 5, pp. 1665–1681, May 2007.",

"Harrosion2014": "M. M. Harrison, B. V. Jenkins, K. M. O’Connor-Giles, and J. Wildonger, \"A CRISPR view of development,\" Genes & Development, vol. 28, no. 17, pp. 1859–1872, Sep. 2014.",

"Vecchio1989": "R. Del Vecchio, P. La Torre, M. Cotugno, and L. Costarelli, \"Adenocarcinoma of the duodenum associated with skin neurofibromatosis and Caroli’s disease,\" Minerva Chir, vol. 44, no. 23–24, pp. 2421–2426, Dec. 1989.",

"Nakabayashi2011": "J. Nakabayashi and A. Sasaki, \"A mathematical model of the intracellular replication and within host evolution of hepatitis type B virus: Understanding the long time course of chronic hepatitis,\" Journal of Theoretical Biology, vol. 269, no. 1, pp. 318–329, Jan. 2011.",

"Gandzha1977": "I. M. Gandzha and I. P. Miagkaia, \"[Antireticular cytotoxic serum in treatment of patients with hypertensive disease],\" Vrach Delo, no. 1, pp. 47–51, Jan. 1977.",

"Jinek2012": "M. Jinek, K. Chylinski, I. Fonfara, M. Hauer, J. A. Doudna, and E. Charpentier, \"A programmable dual-RNA–guided DNA endonuclease in adaptive bacterial immunity,\" Science, vol. 337, no. 6096, pp. 816–821, 2012.",

"Belov2015": "O. Belov, E. Krasavin, M. Lyashko, M. Batmunkh, and N. Sweilam, \"A quantitative model of the major pathways for radiation-induced DNA double-strand break repair,\" Journal of Theoretical Biology, vol. 366, pp. 115–130, Feb. 2015.",

"Arabidopsis2015": "\"Arabidopsis U6 snRNAs.\" [Online]. Available: http://www.plantgdb.org/SRGD/ASRG/ShowRNA.php?Class=U6. [Accessed: 10-May-2015].",

"Martiniere2009": "A. Martinière, D. Gargani, M. Uzest, N. Lautredou, S. Blanc, and M. Drucker, \"A role for plant microtubules in the formation of transmission-specific inclusion bodies of Cauliflower mosaic virus: CaMV-microtubule interactions,\" The Plant Journal, vol. 58, no. 1, pp. 135–146, Apr. 2009.",

"Saadatpour2013": "A. Saadatpour and R. Albert, \"Boolean modeling of biological regulatory networks: A methodology tutorial,\" Methods, vol. 62, no. 1, pp. 3–12, Jul. 2013.",

"Ho1999": "M.-W. Ho, A. Ryan, and J. Cummins, \"Cauliflower mosaic viral promoter-a recipe for disaster?,\" Microbial Ecology in Health and Disease, vol. 11, no. 4, pp. 194–197, 1999.",

"Love2005": "A. J. Love, B. W. Yun, V. Laval, G. J. Loake, and J. J. Milner, \"Cauliflower mosaic virus, a Compatible Pathogen of Arabidopsis, Engages Three Distinct Defense-Signaling Pathways and Activates Rapid Systemic Generation of Reactive Oxygen Species,\" Plant Physiology, vol. 139, no. 2, pp. 935–948, Oct. 2005.",

"Perbal1993": "M.-C. Perbal, C. L. Thomas, and A. J. Maule, \"Cauliflower Mosaic Virus Gene I Product (P1) Forms Tubular Structures Which Extend from the Surface of Infected Protoplasts,\" Virology, vol. 195, no. 1, pp. 281–285, Jul. 1993.",

"Lutz2012": "L. Lutz, G. Raikhy, and S. M. Leisner, \"Cauliflower mosaic virus major inclusion body protein interacts with the aphid transmission factor, the virion-associated protein, and gene VII product,\" Virus Research, vol. 170, no. 1–2, pp. 150–153, Dec. 2012.",

"Love2012": "A. J. Love, C. Geri, J. Laird, C. Carr, B.-W. Yun, G. J. Loake, Y. Tada, A. Sadanandom, and J. J. Milner, \"Cauliflower mosaic virus Protein P6 Inhibits Signaling Responses to Salicylic Acid and Regulates Innate Immunity,\" PLoS ONE, vol. 7, no. 10, p. e47535, Oct. 2012.",

"Haas2002": "M. Haas, M. Bureau, A. Geldreich, P. Yot, and M. Keller, \"Cauliflower mosaic virus: still in the news,\" Molecular Plant Pathology, vol. 3, no. 6, pp. 419–429, Nov. 2002.",

"Bouton2015": "C. Bouton, A. Geldreich, L. Ramel, L. A. Ryabova, M. Dimitrova, and M. Keller, \"Cauliflower mosaic virus Transcriptome Reveals a Complex Alternative Splicing Pattern,\" PLoS ONE, vol. 10, no. 7, p. e0132665, Jul. 2015.",

"Carrington1996": "J. Carrington, K. Kasschau, S. Mahajan, and M. Schaad, \"Cell-to-Cell and Long-Distance Transport of Viruses in Plants,\" Plant Cell, vol. 8, no. 10, pp. 1669–1681, Oct. 1996.",

"Canver2014": "M. C. Canver, D. E. Bauer, A. Dass, Y. Y. Yien, J. Chung, T. Masuda, T. Maeda, B. H. Paw, and S. H. Orkin, \"Characterization of Genomic Deletion Efficiency Mediated by Clustered Regularly Interspaced Palindromic Repeats (CRISPR)/Cas9 Nuclease System in Mammalian Cells,\" Journal of Biological Chemistry, vol. 289, no. 31, pp. 21312–21324, Aug. 2014.",

"Ashworth2006": "J. Ashworth, J. J. Havranek, C. M. Duarte, D. Sussman, R. J. Monnat, B. L. Stoddard, and D. Baker, \"Computational redesign of endonuclease DNA binding and cleavage specificity,\" Nature, vol. 441, no. 7093, pp. 656–659, Jun. 2006.",

"Lin2014": "Y. Lin, T. J. Cradick, M. T. Brown, H. Deshmukh, P. Ranjan, N. Sarode, B. M. Wile, P. M. Vertino, F. J. Stewart, and G. Bao, \"CRISPR/Cas9 systems have off-target activity with insertions or deletions between target DNA and guide RNA sequences,\" Nucleic Acids Research, vol. 42, no. 11, pp. 7473–7485, Jun. 2014.",

"Barrangou2013": "R. Barrangou and J. van der Oost, Eds., CRISPR-Cas Systems. Berlin, Heidelberg: Springer Berlin Heidelberg, 2013.",

"Horvath2010": "P. Horvath and R. Barrangou, \"CRISPR/Cas, the Immune System of Bacteria and Archaea,\" Science, vol. 327, no. 5962, pp. 167–170, Jan. 2010.",

"Nishimasu2014": "H. Nishimasu, F. A. Ran, P. D. Hsu, S. Konermann, S. I. Shehata, N. Dohmae, R. Ishitani, F. Zhang, and O. Nureki, \"Crystal Structure of Cas9 in Complex with Guide RNA and Target DNA,\" Cell, vol. 156, no. 5, pp. 935–949, Feb. 2014.",

"Schmoldt1975": "A. Schmoldt, H. F. Benthe, and G. Haberland, \"Digitoxin metabolism by rat liver microsomes,\" Biochem. Pharmacol., vol. 24, no. 17, pp. 1639–1641, Sep. 1975.",

"Szczelkun2014": "M. D. Szczelkun, M. S. Tikhomirova, T. Sinkunas, G. Gasiunas, T. Karvelis, P. Pschera, V. Siksnys, and R. Seidel, \"Direct observation of R-loop formation by single RNA-guided Cas9 and Cascade effector complexes,\" PNAS, vol. 111, no. 27, pp. 9798–9803, Jul. 2014.",

"Helleday2007": "T. Helleday, J. Lo, D. Vangent, and B. Engelward, \"DNA double-strand break repair: From mechanistic understanding to cancer treatment,\" DNA Repair, vol. 6, no. 7, pp. 923–935, Jul. 2007.",

"Sternberg2014": "S. H. Sternberg, S. Redding, M. Jinek, E. C. Greene, and J. A. Doudna, \"DNA interrogation by the CRISPR RNA-guided endonuclease Cas9,\" Nature, vol. 507, no. 7490, pp. 62–67, Jan. 2014.",

"Hsu2013": "P. D. Hsu, D. A. Scott, J. A. Weinstein, F. A. Ran, S. Konermann, V. Agarwala, Y. Li, E. J. Fine, X. Wu, O. Shalem, T. J. Cradick, L. A. Marraffini, G. Bao, and F. Zhang, \"DNA targeting specificity of RNA-guided Cas9 nucleases,\" Nature Biotechnology, vol. 31, no. 9, pp. 827–832, Jul. 2013.",

"Gutierrez2010": "S. Gutiérrez, M. Yvon, G. Thébaud, B. Monsion, Y. Michalakis, and S. Blanc, \"Dynamics of the Multiplicity of Cellular Infection in a Plant Virus,\" PLoS Pathogens, vol. 6, no. 9, p. e1001113, Sep. 2010.",

"Barkov1975": "N. K. Barkov and R. U. Ostrovskaia, \"Effect of carbidine on conditioned defense reflexes,\" Biull Eksp Biol Med, vol. 79, no. 4, pp. 61–64, Apr. 1975.",

"Jiang2014": "W. Jiang, B. Yang, and D. P. Weeks, \"Efficient CRISPR/Cas9-Mediated Gene Editing in Arabidopsis thaliana and Inheritance of Modified Genes in the T2 and T3 Generations,\" PLoS ONE, vol. 9, no. 6, p. e99225, Jun. 2014.",

"BurchSmith2006": "T. M. Burch-Smith, M. Schiff, Y. Liu, and S. P. Dinesh-Kumar, \"Efficient virus-induced gene silencing in Arabidopsis,\" Plant Physiology, vol. 142, no. 1, pp. 21–27, 2006.",

"Kleinstiver2015": "B. P. Kleinstiver, M. S. Prew, S. Q. Tsai, V. V. Topkar, N. T. Nguyen, Z. Zheng, A. P. W. Gonzales, Z. Li, R. T. Peterson, J.-R. J. Yeh, M. J. Aryee, and J. K. Joung, \"Engineered CRISPR-Cas9 nucleases with altered PAM specificities,\" Nature, Jun. 2015.",

"Anderson1991": "E. J. Anderson, S. G. Qiu, and J. E. Schoelz, \"Genetic analysis of determinants of disease severity and virus concentration in cauliflower mosaic virus,\" Virology, vol. 181, no. 2, pp. 647–655, Apr. 1991.",

"Osakabe2015": "Y. Osakabe and K. Osakabe, \"Genome Editing with Engineered Nucleases in Plants,\" Plant and Cell Physiology, vol. 56, no. 3, pp. 389–400, Mar. 2015.",

"Kuscu2014": "C. Kuscu, S. Arslan, R. Singh, J. Thorpe, and M. Adli, \"Genome-wide analysis reveals characteristics of off-target sites bound by the Cas9 endonuclease,\" Nature Biotechnology, vol. 32, no. 7, pp. 677–683, May 2014.",

"Wu2014a": "X. Wu, D. A. Scott, A. J. Kriz, A. C. Chiu, P. D. Hsu, D. B. Dadon, A. W. Cheng, A. E. Trevino, S. Konermann, S. Chen, R. Jaenisch, F. Zhang, and P. A. Sharp, \"Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells,\" Nat. Biotechnol., vol. 32, no. 7, pp. 670–676, Jul. 2014.",

"Briner2014": "A. E. Briner, P. D. Donohoue, A. A. Gomaa, K. Selle, E. M. Slorach, C. H. Nye, R. E. Haurwitz, C. L. Beisel, A. P. May, and R. Barrangou, \"Guide RNA Functional Modules Direct Cas9 Activity and Orthogonality,\" Molecular Cell, vol. 56, no. 2, pp. 333–339, Oct. 2014.",

"Eddy2004a": "S. R. Eddy, \"How do RNA folding algorithms work?,\" Nat Biotech, vol. 22, no. 11, pp. 1457–1458, Nov. 2004.",

"Bida2012": "J. P. Bida and L. J. Maher, \"Improved prediction of RNA tertiary structure with insights into native state dynamics,\" RNA, vol. 18, no. 3, pp. 385–393, Mar. 2012.",

"Himmelbach1996": "A. Himmelbach, Y. Chapdelaine, and T. Hohn, \"Interaction between cauliflower mosaic virus inclusion body protein and capsid protein: implications for viral assembly,\" Virology, vol. 217, no. 1, pp. 147–157, Mar. 1996.",

"Harries2010": "P. A. Harries, J. A. Schoelz, and R. S. Nelson, \"Intracellular Transport of Viruses and Their Components: Utilizing the Cytoskeleton and Membrane Highways,\" Molecular plant-microbe interactions, vol. 23, no. 11, pp. 1381–1393, 2010.",

"Cooke1990": "R. Cooke and P. Penon, \"In vitro transcription from cauliflower mosaic virus promoters by a cell-free extract from tobacco cells,\" Plant Molecular Biology, vol. 14, no. 3, pp. 391–405, 1990.",

"Fu2014": "B. X. H. Fu, L. L. Hansen, K. L. Artiles, M. L. Nonet, and A. Z. Fire, \"Landscape of target:guide homology effects on Cas9-mediated cleavage,\" Nucl. Acids Res., vol. 42, no. 22, pp. 13778–13787, Dec. 2014.",

"Abby2014": "S. S. Abby, B. Néron, H. Ménager, M. Touchon, and E. P. C. Rocha, \"MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems,\" PLoS ONE, vol. 9, no. 10, p. e110726, Oct. 2014.",

"Belaich1976": "A. Belaich and J. P. Belaich, \"Microcalorimetric study of the anaerobic growth of Escherichia coli: growth thermograms in a synthetic medium,\" J. Bacteriol., vol. 125, no. 1, pp. 14–18, Jan. 1976.",

"Li2014": "Y. Li, P. Reynolds, P. O’Neill, and F. A. Cucinotta, \"Modeling Damage Complexity-Dependent Non-Homologous End-Joining Repair Pathway,\" PLoS ONE, vol. 9, no. 2, p. e85816, Feb. 2014.",

"Deriano2013": "L. Deriano and D. B. Roth, \"Modernizing the Nonhomologous End-Joining Repertoire: Alternative and Classical NHEJ Share the Stage,\" Annual Review of Genetics, vol. 47, no. 1, pp. 433–455, Nov. 2013.",

"Luna2012": "E. Luna, T. J. A. Bruce, M. R. Roberts, V. Flors, and J. Ton, \"Next-Generation Systemic Acquired Resistance,\" PLANT PHYSIOLOGY, vol. 158, no. 2, pp. 844–853, Feb. 2012.",

"Klessig2000": "D. F. Klessig, J. Durner, R. Noad, D. A. Navarre, D. Wendehenne, D. Kumar, J. M. Zhou, J. Shah, S. Zhang, P. Kachroo, Y. Trifa, D. Pontier, E. Lam, and H. Silva, \"Nitric oxide and salicylic acid signaling in plant defense,\" Proc Natl Acad Sci U S A, vol. 97, no. 16, pp. 8849–8855, Aug. 2000.",

"Haas2008": "G. Haas, J. Azevedo, G. Moissiard, A. Geldreich, C. Himber, M. Bureau, T. Fukuhara, M. Keller, and O. Voinnet, \"Nuclear import of CaMV P6 is required for infection and suppression of the RNA silencing factor DRB4,\" The EMBO Journal, vol. 27, no. 15, pp. 2102–2112, Aug. 2008.",

"Rodrigo2014": "G. Rodrigo, M. P. Zwart, and S. F. Elena, \"Onset of virus systemic infection in plants is determined by speed of cell-to-cell movement and number of primary infection foci,\" J. R. Soc. Interface, vol. 11, Jun. 2014.",

"Hemphill2015": "J. Hemphill, E. Borchardt, K. Brown, A. Asokan, and A. Deiters, \"Optical Control of CRISPR/Cas9 Gene Editing,\" Journal of the American Chemical Society, vol. 137, pp. 5642–5645, Apr. 2015.",

"Rodrigo2011": "G. Rodrigo, J. Carrera, A. Jaramillo, and S. F. Elena, \"Optimal viral strategies for bypassing RNA silencing,\" Journal of The Royal Society Interface, vol. 8, no. 55, pp. 257–268, Feb. 2011.",

"Mandadi2013": "K. K. Mandadi and K.-B. G. Scholthof, \"Plant Immune Responses Against Viruses: How Does a Virus Cause Disease?,\" The Plant Cell, vol. 25, no. 5, pp. 1489–1505, May 2013.",

"Podevin2012": "N. Podevin and P. du Jardin, \"Possible consequences of the overlap between the CaMV 35S promoter regions in plant transformation vectors used and the viral gene VI in transgenic plants,\" GM Crops & Food, vol. 3, no. 4, pp. 296–300, Oct. 2012.",

"Kaufmann2010": "K. W. Kaufmann, G. H. Lemmon, S. L. DeLuca, J. H. Sheehan, and J. Meiler, \"Practically Useful: What the Rosetta Protein Modeling Suite Can Do for You,\" Biochemistry, vol. 49, no. 14, pp. 2987–2998, Apr. 2010.",

"Wang2007": "C. Wang, P. Bradley, and D. Baker, \"Protein–Protein Docking with Backbone Flexibility,\" Aug. 2007.",

"Doench2014": "J. G. Doench, E. Hartenian, D. B. Graham, Z. Tothova, M. Hegde, I. Smith, M. Sullender, B. L. Ebert, R. J. Xavier, and D. E. Root, \"Rational design of highly active sgRNAs for CRISPR-Cas9–mediated gene inactivation,\" Nature Biotechnology, vol. 32, no. 12, pp. 1262–1267, Sep. 2014.",

"Thyme2014": "S. B. Thyme, S. J. S. Boissel, S. Arshiya Quadri, T. Nolan, D. A. Baker, R. U. Park, L. Kusak, J. Ashworth, and D. Baker, \"Reprogramming homing endonuclease specificity through computational design and directed evolution,\" Nucleic Acids Research, vol. 42, no. 4, pp. 2564–2576, Feb. 2014.",

"Qi2013": "L. S. Qi, M. H. Larson, L. A. Gilbert, J. A. Doudna, J. S. Weissman, A. P. Arkin, and W. A. Lim, \"Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression,\" Cell, vol. 152, no. 5, pp. 1173–1183, Feb. 2013.",

"Jiang2013": "W. Jiang, D. Bikard, D. Cox, F. Zhang, and L. A. Marraffini, \"RNA-guided editing of bacterial genomes using CRISPR-Cas systems,\" Nat Biotech, vol. 31, no. 3, pp. 233–239, Mar. 2013.",

"Pumplin2013": "N. Pumplin and O. Voinnet, \"RNA silencing suppression by plant pathogens: defence, counter-defence and counter-counter-defence,\" Nature Reviews Microbiology, vol. 11, no. 11, pp. 745–760, Oct. 2013.",

"Gao2014": "Y. Gao and Y. Zhao, \"Self-processing of ribozyme-flanked RNAs into guide RNAs in vitro and in vivo for CRISPR-mediated genome editing: Self-processing of ribozyme-flanked RNAs into guide RNAs,\" Journal of Integrative Plant Biology, vol. 56, no. 4, pp. 343–349, Apr. 2014.",

"Yang1997": "Y. Yang, J. Shah, and D. F. Klessig, \"Signal perception and transduction in plant defense responses,\" Genes Dev., vol. 11, no. 13, pp. 1621–1639, Jul. 1997.",

"Froissart2004": "R. Froissart, \"Splicing of Cauliflower mosaic virus 35S RNA serves to downregulate a toxic gene product,\" Journal of General Virology, vol. 85, no. 9, pp. 2719–2726, Sep. 2004.",

"Srivastava2002": "R. Srivastava, L. You, J. Summers, and J. Yin, \"Stochastic vs. Deterministic Modeling of Intracellular Viral Kinetics,\" Journal of Theoretical Biology, vol. 218, no. 3, pp. 309–321, Oct. 2002.",

"Anders2014": "C. Anders, O. Niewoehner, A. Duerst, and M. Jinek, \"Structural basis of PAM-dependent target DNA recognition by the Cas9 endonuclease,\" Nature, vol. 513, no. 7519, pp. 569–573, Sep. 2014.",

"Ignatov1975": "V. V. Ignatov and S. K. Stupnikova, \"[Study of acetyl-CoA-synthetase from staphylococcus aureus],\" Biokhimiia, vol. 40, no. 2, pp. 276–280, Apr. 1975.",

"Dong2015": "C. Dong, L. Qu, H. Wang, L. Wei, Y. Dong, and S. Xiong, \"Targeting hepatitis B virus cccDNA by CRISPR/Cas9 nuclease efficiently inhibits viral replication,\" Antiviral Research, vol. 118, pp. 110–117, Jun. 2015.",

"Seeger2014": "C. Seeger and J. A. Sohn, \"Targeting Hepatitis B Virus With CRISPR/Cas9,\" Molecular Therapy—Nucleic Acids, vol. 3, no. 12, p. e216, Dec. 2014.",

"Wu2014b": "X. Wu, A. J. Kriz, and P. A. Sharp, \"Target specificity of the CRISPR-Cas9 system,\" Quant Biol, vol. 2, no. 2, pp. 59–70, Jun. 2014.",

"Shivaprasad2008": "P. V. Shivaprasad, R. Rajeswaran, T. Blevins, J. Schoelz, F. Meins, T. Hohn, and M. M. Pooggin, \"The CaMV transactivator/viroplasmin interferes with RDR6-dependent trans-acting and secondary siRNA pathways in Arabidopsis,\" Nucleic Acids Research, vol. 36, no. 18, pp. 5896–5909, Sep. 2008.",

"Reynolds2012": "P. Reynolds, J. A. Anderson, J. V. Harper, M. A. Hill, S. W. Botchway, A. W. Parker, and P. O’Neill, \"The dynamics of Ku70/80 and DNA-PKcs at DSBs induced by ionizing radiation is dependent on the complexity of damage,\" Nucleic Acids Research, vol. 40, no. 21, pp. 10821–10831, Nov. 2012.",

"Lieber2010": "M. R. Lieber, \"The Mechanism of Double-Strand DNA Break Repair by the Nonhomologous DNA End-Joining Pathway,\" Annual Review of Biochemistry, vol. 79, no. 1, pp. 181–211, Jun. 2010.",

"Jiang2015": "F. Jiang and J. A. Doudna, \"The structural biology of CRISPR-Cas systems,\" Current Opinion in Structural Biology, vol. 30, pp. 100–111, Feb. 2015.",

"Driesen1993": "M. Driesen, R.-M. Benito-Moreno, T. Hohn, and J. Fütterer, \"Transcription from the CaMV 19 S Promoter and Autocatalysis of Translation from CaMV RNA,\" Virology, vol. 195, no. 1, pp. 203–210, Jul. 1993.",

"Waibel1990": "F. Waibel and W. Filipowicz, \"U6 snRNA genes of Arabidopsis are transcribed by RNA polymerase III but contain the same two upstream promoter elements as RNA polymerase ll-transcribed U-snRNA genes,\" Nucleic acids research, vol. 18, no. 12, pp. 3451–3458, 1990.",

"Eddy2004b": "S. R. Eddy, \"What is dynamic programming?,\" Nat Biotech, vol. 22, no. 7, pp. 909–910, Jul. 2004.",

"Tromas2014": "N. Tromas, M. P. Zwart, G. Lafforgue, and S. F. Elena, \"Within-Host Spatiotemporal Dynamics of Plant Virus Infection at the Cellular Level,\" PLoS Genetics, vol. 10, no. 2, Feb. 2014.",

"Neill2002": "Neill, S. J. 2002. \"Hydrogen Peroxide and Nitric Oxide as Signalling Molecules in Plants.\" Journal of Experimental Botany 53(372): 1237–47.",

"Ryals1994": "Ryals, J., S. Uknes, and E. Ward. 1994. \"Systemic Acquired Resistance.\" Plant Physiology 104(4): 1109–12.",

"Franck1980": "Franck, A., Guilley, H., Jonard, G., Richards, K., & Hirth, L. (1980). Nucleotide sequence of cauliflower mosaic virus DNA. Cell, 21(1), 285-294.",

"Hohn2013": "Hohn, T., & Rothnie, H. (2013). Plant pararetroviruses: replication and expression. Current opinion in virology, 3(6), 621-628.",

"Hohn1997": "Hohn, T., Fütterer, J., & Hull, R. (1997). The proteins and functions of plant pararetroviruses: knowns and unknowns. Critical reviews in plant sciences, 16(1), 133-161.",

"Guilley1982": "Guilley, H., Dudley, R. K., Jonard, G., Balàzs, E., & Richards, K. E. (1982). Transcription of cauliflower mosaic virus DNA: detection of promoter sequences, and characterization of transcripts. Cell, 30(3), 763-773.",

"Hohn1985": "Hohn, T., Hohn, B., & Pfeiffer, P. (1985). Reverse transcription in CaMV. Trends in Biochemical Sciences, 10(5), 205-209.",

"Pfeiffer1983": "Pfeiffer, P., & Hohn, T. (1983). Involvement of reverse transcription in the replication of cauliflower mosaic virus: a detailed model and test of some aspects. Cell, 33(3), 781-789.",

"Futterer1991": "Fütterer, J., & Hohn, T. (1991). Translation of a polycistronic mRNA in the presence of the cauliflower mosaic virus transactivator protein. The EMBO journal, 10(12), 3887.",

"Kiss-Laszlo1995": "Kiss-László, Z., Blanc, S., & Hohn, T. (1995). Splicing of cauliflower mosaic virus 35S RNA is essential for viral infectivity. The EMBO journal, 14(14), 3552.",

"Covey1981": "Covey, S. N., & Hull, R. (1981). Transcription of cauliflower mosaic virus DNA. Detection of transcripts, properties, and location of the gene encoding the virus inclusion body protein. Virology, 111(2), 463-474.",

"Olszewski1983": "Olszewski, N. E., & Guilfoyle, T. J. (1983). Nuclei purified from cauliflower mosaic virus-infected turnip leaves contain subgenomic, covalently closed circular cauliflower mosaic virus DNAs. Nucleic acids research, 11(24), 8901-8914.",

"Blevins2011": "Blevins, T., Rajeswaran, R., Aregger, M., Borah, B. K., Schepetilnikov, M., Baerlocher, L., ... & Pooggin, M. M. (2011). Massive production of small RNAs from a non-coding region of Cauliflower mosaic virus in plant defense and viral counter-defense. Nucleic acids research, 39(12), 5003-5014.",

"Hohn2015": "Hohn, T. (2015). RNA based viral silencing suppression in plant pararetroviruses. Name: Frontiers in Plant Science, 6, 398.",

"Lucas2006": "Lucas, W. J. (2006). Plant viral movement proteins: agents for cell-to-cell trafficking of viral genomes. Virology, 344(1), 169-184.",

"Chen2000": "Chen, M. H., Sheng, J., Hind, G., Handa, A. K., & Citovsky, V. (2000). Interaction between the tobacco mosaic virus movement protein and host cell pectin methylesterases is required for viral cell‐to‐cell movement. The EMBO Journal, 19(5), 913-920.",

"Kastell1996": "Kasteel, D. T. J., Perbal, M. C., Boyer, J. C., Wellink, J., Goldbach, R. W., Maule, A. J., & Van Lent, J. W. M. (1996). The movement proteins of cowpea mosaic virus and cauliflower mosaic virus induce tubular structures in plant and insect cells. Journal of General Virology, 77(11), 2857-2864.",

"Citovsky1990": "Citovsky, V., Knorr, D., & Zambryski, P. (1991). Gene I, a potential cell-to-cell movement locus of cauliflower mosaic virus, encodes an RNA-binding protein. Proceedings of the National Academy of Sciences, 88(6), 2476-2480.",

"Drucker2002": "Drucker, M., Froissart, R., Hébrard, E., Uzest, M., Ravallec, M., Espérandieu, P., ... & Blanc, S. (2002). Intracellular distribution of viral gene products regulates a complex mechanism of cauliflower mosaic virus acquisition by its aphid vector. Proceedings of the National Academy of Sciences, 99(4), 2422-2427.",

"Mesnard1994": "Dautel, S., Guidasci, T., Pique, M., Mougeot, J. L., Lebeurier, G., Yot, P., & Mesnard, J. M. (1994). The Full-Length Product of Cauliflower Mosaic Virus Open Reading Frame Ill Is Associated with the Viral Particle. Virology, 202(2), 1043-1045.",

"Kobayashi2002": "Kobayashi, K., Tsuge, S., Stavolone, L., & Hohn, T. (2002). The cauliflower mosaic virus virion-associated protein is dispensable for viral replication in single cells. Journal of virology, 76(18), 9457-9464.",

"MartinezIzquierdo1987": "Martinez-Izquierdo, J., & Hohn, T. (1987). Cauliflower mosaic virus coat protein is phosphorylated in vitro by a virion-associated protein kinase. Proceedings of the National Academy of Sciences, 84(7), 1824-1828.",

"Cheng1992": "Cheng, R. H., Olson, N. H., & Baker, T. S. (1992). Cauliflower mosaic virus: a 420 subunit (T= 7), multilayer structure. Virology, 186(2), 655-668.",

"Kobayashi2003": "Kobayashi, K., & Hohn, T. (2003). Dissection of cauliflower mosaic virus transactivator/viroplasmin reveals distinct essential functions in basic virus replication. Journal of virology, 77(15), 8577-8583.",

"Mazzolini1989": "Mazzolini, L., Dabos, P., Constantin, S., & Yot, P. (1989). Further evidence that viroplasms are the site of cauliflower mosaic virus genome replication by reverse transcription during viral infection. Journal of general virology, 70(12), 3439-3449.",

"igemValues": "iGEM Foundation. (2013). iGEM Values [Online]. Available: <a href=\"https://igem.org/Values\" target=\"_blank\">https://igem.org/Values</a>",

"igemFinancial": "iGEM Foundation. (2014). iGEM Financials [Online]. Available: <a href=\"https://igem.org/Financials\" target=\"_blank\">https://igem.org/Financials</a>",

"igem2015a": "iGEM Foundation. (2015). Starting a Team [Online]. Available: <a href=\"https://2015.igem.org/Starting_a_Team\" target=\"_blank\">https://2015.igem.org/Starting_a_Team</a>",

"igem2015b": "iGEM Foundation. (2015). Giant Jamboree Accommodation [Online]. Available: <a href=\"https://2015.igem.org/Giant_Jamboree/Accommodation\" target=\"_blank\">https://2015.igem.org/Giant_Jamboree/Accommodation</a>",

"igem_heidelberg2014": "iGEM Team Heidelberg. (2014). iGEM@home [Online]. Available: <a href=\"https://2014.igem.org/Team:Heidelberg/Human_Practice/igemathome#Conclusions\" target=\"_blank\">https://2014.igem.org/Team:Heidelberg/Human_Practice/igemathome#Conclusions</a>",

"igem_waterloo2014": "Waterloo iGEM. (2014). Math Book: CRISPR Interference [Online]. Available: <a href=\"https://2014.igem.org/Team:Waterloo/Math_Book/CRISPRi#C_ParameterFinding\" target=\"_blank\">https://2014.igem.org/Team:Waterloo/Math_Book/CRISPRi#C_ParameterFinding</a>",

"igem_mit2014a": "iGEM MIT. (2014). Parts [Online]. Available: <a href=\"https://2014.igem.org/Team:MIT/Parts\" target=\"_blank\">https://2014.igem.org/Team:MIT/Parts</a>",

"igem_mit2014b": "iGEM MIT. (2014). Part: BBa_K1391000 Gantenerumab Variable Human Ig-M Heavy Chain [Online]. Available: <a href=\"http://parts.igem.org/Part:BBa_K1391000\" target=\"_blank\">http://parts.igem.org/Part:BBa_K1391000</a>",

"igem_whuchina2013": "iGEM WHU-China. (2013). Part: BBa_K1081000 J13002-dcas9 [Online]. Available: <a href=\"http://parts.igem.org/Part:BBa_K1081000\" target=\"_blank\">http://parts.igem.org/Part:BBa_K1081000</a>",

"wolfco2014": "Wolf and Company, P.C. (2014). iGEM Foundation, Inc. Financial Statements: Years Ended December 31, 2014 and 2013 [Online]. Available: <a href=\"https://static.igem.org/mediawiki/igem.org/9/99/IGEM-2014-AuditedFinancials-Final.pdf\" target=\"_blank\">https://static.igem.org/mediawiki/igem.org/9/99/IGEM-2014-AuditedFinancials-Final.pdf</a>",

"wolfco2013": "Wolf and Company, P.C. (2013). iGEM Foundation, Inc. Financial Statements: Years Ended December 31, 2013 and 2012 [Online]. Available: <a href=\"https://static.igem.org/mediawiki/igem.org/6/69/IGEM-2013-AuditedFinancials-Final.pdf\" target=\"_blank\">https://static.igem.org/mediawiki/igem.org/6/69/IGEM-2013-AuditedFinancials-Final.pdf</a>",

"wolfco2012": "Wolf and Company, P.C. (2012). iGEM Foundation, Inc. Financial Statements: Year Ended December 31, 2012 [Online]. Available: <a href=\"https://static.igem.org/mediawiki/igem.org/e/e6/IGEM-2012-AuditedFinancials-Final.pdf\" target=\"_blank\">https://static.igem.org/mediawiki/igem.org/e/e6/IGEM-2012-AuditedFinancials-Final.pdf</a>",

"wolfco2011": "Wolf and Company, P.C. (2011). iGEM Foundation, Inc. Financial Statements: Period from July 8, 2011 (Date of Inception) to December 31, 2011 [Online]. Available: <a href=\"https://static.igem.org/mediawiki/igem.org/5/5c/IGEM-2011-AuditedFinancials-Final.pdf\" target=\"_blank\">https://static.igem.org/mediawiki/igem.org/5/5c/IGEM-2011-AuditedFinancials-Final.pdf</a>",

"Hawley2015": "Waterloo iGEM. (2015). An iGEM Critique Supplementary Data. Available: <a href=\"https://static.igem.org/mediawiki/2015/5/50/Waterloo_critique_spreadsheet.zip\" target=\"_blank\">https://static.igem.org/mediawiki/2015/5/50/Waterloo_critique_spreadsheet.zip</a>",

"Vilanova2014": "Vilanova, C., Porcar, M. (2014). iGEM 2.0 — refoundations for engineering biology. Nature Biotechnology, 70 (5), pp. 420-424. Available: <a href=\"http://www.nature.com/nbt/journal/v32/n5/full/nbt.2899.html\" target=\"_blank\">http://www.nature.com/nbt/journal/v32/n5/full/nbt.2899.html</a>",

"Kobayashi1998": "Kobayashi, K., Tsuge, S., Nakayashiki, H., Mise, K., & Furusawa, I. (1998). Requirement of cauliflower mosaic virus open reading frame VI product for viral gene expression and multiplication in turnip protoplasts. Microbiology and immunology, 42(5), 377-386.",

"Addgene_CRISPR2015" : "Addgene. (2015). CRISPR in the Lab: A Practical Guide. Available: <a href=\"https://www.addgene.org/CRISPR/guide/\" target=\"_blank\">https://www.addgene.org/CRISPR/guide/</a>",

"Betermier2014" : "Bétermier, M., Bertrand, P., & Lopez, B. S. (2014). Is non-homologous end-joining really an inherently error-prone process. PLoS Genet, 10(1), e1004086.",

"Karsies2002" : "Karsies, A., Merkle, T., Szurek, B., Bonas, U., Hohn, T., & Leclerc, D. (2002). Regulated nuclear targeting of cauliflower mosaic virus. Journal of general virology, 83(7), 1783-1790.",

"Pollack1994" : "Pollack, J. R., & Ganem, D. (1994). Site-specific RNA binding by a hepatitis B virus reverse transcriptase initiates two distinct reactions: RNA packaging and DNA synthesis. Journal of virology, 68(9), 5579-5587.",

"Gunawardena2010" : "Gunawardena, J. (2010). Models in systems biology: the parameter problem and the meanings of robustness. Elements of computational systems biology, 1.",

"Stavolone2005" : "Stavolone, L., Villani, M. E., Leclerc, D., & Hohn, T. (2005). A coiled-coil interaction mediates cauliflower mosaic virus cell-to-cell movement. Proceedings of the National Academy of Sciences, 102(17), 6219-6224.",

"Niehl2013" : "Niehl, Annette, Eduardo J Peña, Khalid Amari, and Manfred Heinlein. (2013). Microtubules in Viral Replication and Transport. The Plant journal : for cell and molecular biology 75(2): 290–308.",

};