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Journal articles on the topic 'Gene silencing'

Author: Grafiati

Published: 4 June 2021

Last updated: 28 July 2024

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1

Borkar, Dipali B., and Vishal L. Bagde. "Role of Gene Silencing In Agriculture." International Journal of Scientific Research 2, no. 10 (June 1, 2012): 1–3. http://dx.doi.org/10.15373/22778179/oct2013/16.

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2

Khan, Farah Deeba, Ghazala Irshad, and Samra Hafiz. "GENE SILENCING." Professional Medical Journal 25, no. 12 (December 8, 2018): 1954–60. http://dx.doi.org/10.29309/tpmj/18.4328.

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Objectives: Cancer, the most complex group of genetic disorders results due to over expression or mutation of oncogenes/molecules involved in cell signaling pathways. KRAS is an oncogene that encodes a small GTPase protein with two isoforms KRasA & KRasB and is involved in the regulation of cell division. KRas is frequently found mutated in lung, pancreas, colorectal and many other cancers. Various studies have found that KRasB promotes cell proliferation and inhibits apoptosis whereas KRasA has negligible role in cell proliferation or rather is involved in apoptosis at times. Several experiments have shown tumor growth inhibition by silencing KRas in various tumor models having a differential allelic expression.The goal of our study was to determine the possible differential role of KRas A and B on MAPK Pathway. To examine the disparity in role of various isoforms of KRas on apoptosis, we evaluated the expression of these isoforms through different modalities in HeLa cells before and after silencing KRas through RNA interference. Study Design: In vitro study for isolation of protein molecules (Proteomics) and to study various genes (Genomics) through Polymerase chain reaction. Study Duration: December, 2011-September, 2014. Setting: Center for Research in Molecular Medicine, University of Lahore. Material & Methods: In present study, we studied the expression level and behavior of many sets of molecules such as KRasA, KrasB, Bad, Bcl2, BclxL and Mcl-1 through gene quantitation by Real Time PCR. We also analyzed the protein expression through Western blot immune-precipitation. All the tests were done before and after 48-hours of silencing of HeLa cells with shRNA designed for KRas. Results: We successfully downregulated KRasB (80%) but found upregulation of KRasA with continued cell proliferation. We also found overexpression of antiapoptotic genes, BclxL and Mcl1 and downregulation of proapoptotic molecule-Bad. Differences were considered significant at p< 0.01. Values were expressed as mean ± SEM from six separate experiments. Conclusion: We were able to show that in the absence of one proliferative gene, another sister gene upregulates and takes over the role of uncontrolled cell proliferation. This usually leads to failure of most cancer controltherapies.

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3

Selker, Eric U. "Gene Silencing." Cell 97, no. 2 (April 1999): 157–60. http://dx.doi.org/10.1016/s0092-8674(00)80725-4.

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4

Nashimoto, Masayuki. "TRUE Gene Silencing." International Journal of Molecular Sciences 23, no. 10 (May 11, 2022): 5387. http://dx.doi.org/10.3390/ijms23105387.

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TRUE gene silencing is an RNA-mediated gene expression control technology and is termed after tRNase ZL-utilizing efficacious gene silencing. In this review, I overview the potentiality of small guide RNA (sgRNA) for TRUE gene silencing as novel therapeutics. First, I describe the physiology of tRNase ZL and cellular small RNA, and then sgRNA and TRUE gene silencing. An endoribonuclease, tRNase ZL, which can efficiently remove a 3′ trailer from pre-tRNA, is thought to play the role in tRNA maturation in the nucleus and mitochondria. There exist various small RNAs including miRNA and fragments from tRNA and rRNA, which can function as sgRNA, in living cells, and human cells appear to be harnessing cytosolic tRNase ZL for gene regulation together with these small RNAs. By utilizing the property of tRNase ZL to recognize and cleave micro-pre-tRNA, a pre-tRNA-like or micro-pre-tRNA-like complex, as well as pre-tRNA, tRNase ZL can be made to cleave any target RNA at any desired site under the direction of an artificial sgRNA that binds a target RNA and forms the pre-tRNA-like or micro-pre-tRNA-like complex. This general RNA cleavage method underlies TRUE gene silencing. Various examples of the application of TRUE gene silencing are reviewed including the application to several human cancer cells in order to induce apoptosis. Lastly, I discuss the potentiality of sgRNA as novel therapeutics for multiple myeloma.

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5

Dove, Alan. "Silencing gene silence." Nature Biotechnology 17, no. 1 (January 1999): 9. http://dx.doi.org/10.1038/5352.

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6

Dudeja, V., S. Skube, R. Chugh, Y. Yokoyama, R. Talukdar, N. Majumdar, D. Borja-Cacho, et al. "HSF1 GENE SILENCING." Pancreas 37, no. 4 (November 2008): 467–68. http://dx.doi.org/10.1097/01.mpa.0000335443.07173.26.

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7

Richards, Kenneth E. "Plant Gene Silencing." Plant Science 162, no. 4 (April 2002): 643. http://dx.doi.org/10.1016/s0168-9452(02)00006-7.

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8

Unver, Turgay, and Hikmet Budak. "Virus-Induced Gene Silencing, a Post Transcriptional Gene Silencing Method." International Journal of Plant Genomics 2009 (June 15, 2009): 1–8. http://dx.doi.org/10.1155/2009/198680.

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Virus-induced gene silencing (VIGS) is one of the reverse genetics tools for analysis of gene function that uses viral vectors carrying a target gene fragment to produce dsRNA which trigger RNA-mediated gene silencing. There are a number of viruses which have been modified to silence the gene of interest effectively with a sequence-specific manner. Therefore, different types of methodologies have been advanced and modified for VIGS approach. Virus-derived inoculations are performed on host plants using different methods such as agro-infiltration and in vitro transcriptions. VIGS has many advantages compared to other loss-of-gene function approaches. The approach provides the generation of rapid phenotype and no need for plant transformation. The cost of VIGS experiment is relatively low, and large-scale analysis of screening studies can be achieved by the VIGS. However, there are still limitations of VIGS to be overcome. Nowadays, many virus-derived vectors are optimized to silence more than one host plant such as TRV-derived viral vectors which are used for Arabidopsis and Nicothiana benthamiana. By development of viral silencing systems monocot plants can also be targeted as silencing host in addition to dicotyledonous plants. For instance, Barley stripe mosaic virus (BSMV)-mediated VIGS allows silencing of barley and wheat genes. Here we summarize current protocols and recent modified viral systems to lead silencing of genes in different host species.

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9

Soni, Navneet Omprakash. "Biodegradable Nanoparticles for Delivering Drugs and Silencing Multiple Genes or Gene activation in Diabetic Nephropathy." International Journal of Life-Sciences Scientific Research 3, no. 5 (September 2017): 1329–38. http://dx.doi.org/10.21276/ijlssr.2017.3.5.11.

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10

Méndez, Catalina. "Post-transcriptional gene silencing, transcriptional gene silencing and human immunodeficiency virus." World Journal of Virology 4, no. 3 (2015): 219. http://dx.doi.org/10.5501/wjv.v4.i3.219.

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11

Furner, Ian J., Mazhar A. Sheikh, and Clare E. Collett. "Gene Silencing and Homology-Dependent Gene Silencing in Arabidopsis: Genetic Modifiers and DNA Methylation." Genetics 149, no. 2 (June 1, 1998): 651–62. http://dx.doi.org/10.1093/genetics/149.2.651.

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Abstract Transgenes inserted into the plant genome can become inactive (gene silencing) or result in silencing of homologous cellular genes [homology-dependent gene silencing (HDG silencing)]. In an earlier study we reported HDG silencing of chalcone synthase (CHS) in Arabidopsis. This study concerns genetic revertants of one of the CHS HDG -silencing transgenic homozygotes. Two monogenic recessive trans-acting mutations (hog1 and ddm1) that impair gene silencing and HDG silencing were identified. These mutations reduce genomic DNA methylation and affect the quantity and size of CHS mRNA. These results imply that DNA methylation is necessary for both gene silencing and HDG silencing. Two further monogenic, trans-acting, recessive mutations (sil1 and sil2) reduce gene silencing but not HDG silencing. The existence of this mutant class shows that gene silencing involves genes that are not necessary for HDG silencing. A further mutant (Catt) was isolated and has an attenuated HDG-silencing T-DNA.

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12

Burzynski, Stanislaw R. "Aging: gene silencing or gene activation?" Medical Hypotheses 64, no. 1 (January 2005): 201–8. http://dx.doi.org/10.1016/j.mehy.2004.06.010.

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13

Nattel, Stanley. "Allele-Specific Gene Silencing." Circulation Research 121, no. 5 (August 18, 2017): 480–82. http://dx.doi.org/10.1161/circresaha.117.311541.

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14

Vyakhireva, J. V., A. Yu Filatova, I. A. Krivosheeva, and M. Yu Skoblov. "siRNA-mediated gene silencing." Bulletin of Russian State Medical University, no. 3 (2017): 17–29. http://dx.doi.org/10.24075/brsmu.2017-03-02.

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15

Purnell, Beverly A. "Polycomb group gene silencing." Science 355, no. 6329 (March 9, 2017): 1035.13–1037. http://dx.doi.org/10.1126/science.355.6329.1035-m.

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16

Crunkhorn, Sarah. "Clinical gene-silencing success." Nature Reviews Drug Discovery 9, no. 5 (May 2010): 359. http://dx.doi.org/10.1038/nrd3161.

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17

Fire, Andrew. "RNA-triggered gene silencing." Trends in Genetics 15, no. 9 (September 1999): 358–63. http://dx.doi.org/10.1016/s0168-9525(99)01818-1.

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18

Le Page, Michael. "Gene-silencing farming revolution." New Scientist 233, no. 3108 (January 2017): 8. http://dx.doi.org/10.1016/s0262-4079(17)30057-x.

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19

Bruening, G. "Plant gene silencing regularized." Proceedings of the National Academy of Sciences 95, no. 23 (November 10, 1998): 13349–51. http://dx.doi.org/10.1073/pnas.95.23.13349.

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20

Wassenegger, M. "Signalling in gene silencing." Trends in Plant Science 4, no. 6 (June 1, 1999): 207–9. http://dx.doi.org/10.1016/s1360-1385(99)01416-8.

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21

Blackbourn, H. "Gene silencing and toadflax." Trends in Plant Science 4, no. 11 (November 1, 1999): 423. http://dx.doi.org/10.1016/s1360-1385(99)01496-x.

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22

Wilson, Clare. "Gene silencing treats preeclampsia." New Scientist 240, no. 3205 (November 2018): 9. http://dx.doi.org/10.1016/s0262-4079(18)32153-5.

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23

Mittal, P., R. Yadav, R. Devi, A. Tiwari, S. P. Upadhye, and S. S. Gosal. "Wondrous RNAi-Gene Silencing." Biotechnology(Faisalabad) 10, no. 1 (December 15, 2010): 41–50. http://dx.doi.org/10.3923/biotech.2011.41.50.

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24

Dorokhov, Yu L. "Gene silencing in plants." Molecular Biology 41, no. 4 (August 2007): 519–30. http://dx.doi.org/10.1134/s0026893307040012.

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25

Lowery, J. W., and V. Rosen. "Silencing the FOP gene." Gene Therapy 19, no. 7 (December 1, 2011): 701–2. http://dx.doi.org/10.1038/gt.2011.190.

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26

Matzke, M. "RNA: Guiding Gene Silencing." Science 293, no. 5532 (August 10, 2001): 1080–83. http://dx.doi.org/10.1126/science.1063051.

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27

Pressman, Sigal, Yanxia Bei, and Richard Carthew. "SnapShot: Posttranscriptional Gene Silencing." Cell 130, no. 3 (August 2007): 570.e1–570.e2. http://dx.doi.org/10.1016/j.cell.2007.07.042.

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28

Friedrich, M. J. "Gene Silencing and Vasculitis." JAMA 304, no. 17 (November 3, 2010): 1888. http://dx.doi.org/10.1001/jama.2010.1519.

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29

Pickford, A. S., and C. Cogoni. "RNA-mediated gene silencing." Cellular and Molecular Life Sciences 60, no. 5 (May 2003): 871–82. http://dx.doi.org/10.1007/s00018-003-2245-2.

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30

Rodríguez-Negrete, Edgar A., Jimena Carrillo-Tripp, and Rafael F. Rivera-Bustamante. "RNA Silencing against Geminivirus: Complementary Action of Posttranscriptional Gene Silencing and Transcriptional Gene Silencing in Host Recovery." Journal of Virology 83, no. 3 (November 19, 2008): 1332–40. http://dx.doi.org/10.1128/jvi.01474-08.

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ABSTRACT RNA silencing in plants is a natural defense system mechanism against invading nucleic acids such as viruses. Geminiviruses, a family of plant viruses characterized by a circular, single-stranded DNA genome, are thought to be both inducers and targets of RNA silencing. Some natural geminivirus-host interactions lead to symptom remission or host recovery, a process commonly associated with RNA silencing-mediated defense. Pepper golden mosaic virus (PepGMV)-infected pepper plants show a recovery phenotype, which has been associated with the presence of virus-derived small RNAs. The results presented here suggest that PepGMV is targeted by both posttranscriptional and transcriptional gene silencing mechanisms. Two types of virus-related small interfering RNAs (siRNAs) were detected: siRNAs of 21 to 22 nucleotides (nt) in size that are related to the coding regions (Rep, TrAP, REn, and movement protein genes) and a 24-nt population primarily associated to the intergenic regions. Methylation levels of the PepGMV A intergenic and coat protein (CP) coding region were measured by a bisulfite sequencing approach. An inverse correlation was observed between the methylation status of the intergenic region and the concentration of viral DNA and symptom severity. The intergenic region also showed a methylation profile conserved in all times analyzed. The CP region, on the other hand, did not show a defined profile, and its methylation density was significantly lower than the one found on the intergenic region. The participation of both PTGS and TGS mechanisms in host recovery is discussed.

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31

Leslie, M. "Odd Couple: Two mechanisms for gene silencing unexpectedly team up (Gene regulation; Silencing)." Science of Aging Knowledge Environment 2002, no. 25 (June 26, 2002): 87nw—87. http://dx.doi.org/10.1126/sageke.2002.25.nw87.

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32

García-Pérez, Rubén Darío, Helena Van Houdt, and Anna Depicker. "Spreading of post-transcriptional gene silencing along the target gene promotes systemic silencing." Plant Journal 38, no. 4 (May 2004): 594–602. http://dx.doi.org/10.1111/j.1365-313x.2004.02067.x.

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33

Chandler, Vicki L., and Hervé Vaucheret. "Gene Activation and Gene Silencing: Fig. 1." Plant Physiology 125, no. 1 (January 1, 2001): 145–48. http://dx.doi.org/10.1104/pp.125.1.145.

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34

Ramsay, Michèle. "Rett gene regulates gene expression through silencing." Molecular Medicine Today 6, no. 2 (February 2000): 49. http://dx.doi.org/10.1016/s1357-4310(99)01653-6.

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35

Gammelgård, Elin, Maradumane Mohan, and Jari P. T. Valkonen. "Potyvirus-induced gene silencing: the dynamic process of systemic silencing and silencing suppression." Journal of General Virology 88, no. 8 (August 1, 2007): 2337–46. http://dx.doi.org/10.1099/vir.0.82928-0.

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Potato virus A (PVA; genus Potyvirus) was used for virus-induced gene silencing in a model system that included transgenic Nicotiana benthamiana (line 16c) expressing the gfp transgene for green fluorescent protein (GFP) and chimeric PVA (PVA–GFP) carrying gfp in the P1-encoding region. Infection of the 16c plants with PVA–GFP in five experiments resulted in a reproducible pattern of systemic gfp transgene silencing, despite the presence of the strong silencing-suppressor protein, HC-Pro, produced by the virus. PVA–GFP was also targeted by silencing, and virus-specific short interfering RNA accumulated from the length of the viral genome. Viral deletion mutants lacking the gfp insert appeared in systemically infected leaves and reversed silencing of the gfp transgene in limited areas. However, systemic gfp silencing continued in newly emerging leaves in the absence of the gfp-carrying virus, which implicated a systemic silencing signal that moved from lower leaves without interference by HC-Pro. Use of GFP as a visual marker revealed a novel, mosaic-like recovery phenotype in the top leaves. The leaf areas appearing red or purple under UV light (no GFP expression) contained little PVA and gfp mRNA, and corresponded to the dark-green islands observed under visible light. The surrounding green fluorescent tissues contained actively replicating viral deletion mutants that suppressed GFP silencing. Taken together, systemic progression of gene silencing and antiviral defence (RNA silencing) and circumvention of the silencing by the virus could be visualized and analysed in a novel manner.

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36

Lin, Sitao, and Danqi Zhao. "Advances in Gene Silencing Technology." Theoretical and Natural Science 4, no. 1 (April 28, 2023): 554–58. http://dx.doi.org/10.54254/2753-8818/4/20220647.

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Gene silencing is an important means of regulating gene expression in an organism, and this technique can reduce or block the expression level of a target gene. There are many types of gene silencing techniques, among which the more widely used are CRISPR/Cas9, TALEN, RNAi and so on. In recent years, with the gradual improvement and popularization of biotechnology, gene silencing techniques are slowly becoming known and applied in many fields such as gene research, disease treatment and breeding of new plant varieties. However, not all gene silencing can achieve the desired effect, and there are many reasons affecting the outcome of gene silencing. The target gene is not the only gene that determines the phenotype and there is no significant effect after knocking out the target gene. The technique also has a certain off-target rate, which can also lead to operational failure. This paper describes the principles and applications of three gene silencing techniques and compares the advantages and disadvantages of the three gene silencing techniques in order to select the most suitable gene silencing method from multiple perspectives. The current problems of CRISPR/Cas9 technology are summarized to provide certain ideas for the future development and research of CRISPR/Cas9 technology

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37

Eady, C. C. "TOWARDS GENE SILENCING IN ONION." Acta Horticulturae, no. 688 (August 2005): 179–80. http://dx.doi.org/10.17660/actahortic.2005.688.22.

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38

Sun, Hong, Magdy Shamy, and Max Costa. "Nickel and Epigenetic Gene Silencing." Genes 4, no. 4 (October 25, 2013): 583–95. http://dx.doi.org/10.3390/genes4040583.

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39

Weinberg, Marc S., and Kevin V. Morris. "Transcriptional gene silencing in humans." Nucleic Acids Research 44, no. 14 (April 7, 2016): 6505–17. http://dx.doi.org/10.1093/nar/gkw139.

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40

Damelin, Marc, Steen K. T. Ooi, and Timothy H. Bestor. "Combing over heritable gene silencing." Nature Structural & Molecular Biology 13, no. 2 (February 2006): 100–101. http://dx.doi.org/10.1038/nsmb0206-100.

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41

Hoffer, Paul, Sergey Ivashuta, Olga Pontes, Alexa Vitins, Craig Pikaard, Andrew Mroczka, Nicholas Wagner, and Toni Voelker. "Posttranscriptional gene silencing in nuclei." Proceedings of the National Academy of Sciences 108, no. 1 (December 20, 2010): 409–14. http://dx.doi.org/10.1073/pnas.1009805108.

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In plants, small interfering RNAs (siRNAs) with sequence homology to transcribed regions of genes can guide the sequence-specific degradation of corresponding mRNAs, leading to posttranscriptional gene silencing (PTGS). The current consensus is that siRNA-mediated PTGS occurs primarily in the cytoplasm where target mRNAs are localized and translated into proteins. However, expression of an inverted-repeat double-stranded RNA corresponding to the soybeanFAD2-1Adesaturase intron is sufficient to silenceFAD2-1, implicating nuclear precursor mRNA (pre-mRNA) rather than cytosolic mRNA as the target of PTGS. SilencingFAD2-1using intronic or 3′-UTR sequences does not affect transcription rates of the target genes but results in the strong reduction of target transcript levels in the nucleus. Moreover, siRNAs corresponding to pre-mRNA–specific sequences accumulate in the nucleus. In Arabidopsis, we find that two enzymes involved in PTGS, Dicer-like 4 and RNA-dependent RNA polymerase 6, are localized in the nucleus. Collectively, these results demonstrate that siRNA-directed RNA degradation can take place in the nucleus, suggesting the need for a more complex view of the subcellular compartmentation of PTGS in plants.

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42

Hines, Pamela J. "Managing gene silencing through replication." Science 357, no. 6356 (September 14, 2017): 1108.1–1108. http://dx.doi.org/10.1126/science.357.6356.1108-a.

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43

Harman, Chloë. "Gene silencing for PTH suppression." Nature Reviews Nephrology 5, no. 5 (May 2009): 244. http://dx.doi.org/10.1038/nrneph.2009.36.

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44

Tycko, Benjamin. "Epigenetic gene silencing in cancer." Journal of Clinical Investigation 105, no. 4 (February 15, 2000): 401–7. http://dx.doi.org/10.1172/jci9462.

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45

de Felippes, Felipe Fenselau, Jia-wei Wang, and Detlef Weigel. "MIGS: miRNA-induced gene silencing." Plant Journal 70, no. 3 (February 14, 2012): 541–47. http://dx.doi.org/10.1111/j.1365-313x.2011.04896.x.

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46

Chen, Ling-Ling, Joshua N. DeCerbo, and Gordon G. Carmichael. "Alu element-mediated gene silencing." EMBO Journal 27, no. 12 (May 22, 2008): 1694–705. http://dx.doi.org/10.1038/emboj.2008.94.

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47

Rowan, Alison. "Gene silencing in Huntington's disease." Nature Reviews Neuroscience 6, no. 6 (May 13, 2005): 422. http://dx.doi.org/10.1038/nrn1688.

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48

Duxbury, Mark S., Evan Matros, Hiromichi Ito, Michael J. Zinner, Stanley W. Ashley, and Edward E. Whang. "Systemic siRNA-Mediated Gene Silencing." Transactions of the ... Meeting of the American Surgical Association CXXII, &NA; (2004): 265–74. http://dx.doi.org/10.1097/01.sla.0000140755.97224.9a.

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49

Voinnet, Olivier, and David C. Baulcombe. "Systemic signalling in gene silencing." Nature 389, no. 6651 (October 1997): 553. http://dx.doi.org/10.1038/39215.

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50

Marenkova, T. V., and E. V. Deineko. "Transcriptional gene silencing in plants." Russian Journal of Genetics 46, no. 5 (May 2010): 511–20. http://dx.doi.org/10.1134/s1022795410050017.

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