Готові списки джерел за темами / DNA systems

Добірка наукової літератури з теми "DNA systems"

Автор: Grafiati
Опубліковано: 6 вересня 2023

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Статті в журналах з теми "DNA systems"

1

Chakarov, Stoyan, Rumena Petkova, and George Russev. "DNA repair systems." BioDiscovery, no. 13 (September 22, 2014): 2. http://dx.doi.org/10.7750/biodiscovery.2014.13.2.

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2

Teo, Yin Nah, and Eric T. Kool. "DNA-Multichromophore Systems." Chemical Reviews 112, no. 7 (March 16, 2012): 4221–45. http://dx.doi.org/10.1021/cr100351g.

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3

Kaina, Bernd. "DNA repair systems." Toxicology Letters 164 (September 2006): S320. http://dx.doi.org/10.1016/j.toxlet.2006.07.328.

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4

Rao, D. N., and Yedu Prasad. "DNA repair systems." Resonance 21, no. 10 (October 2016): 925–36. http://dx.doi.org/10.1007/s12045-016-0401-x.

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5

Walker, G. C. "Inducible DNA Repair Systems." Annual Review of Biochemistry 54, no. 1 (June 1985): 425–57. http://dx.doi.org/10.1146/annurev.bi.54.070185.002233.

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6

Aerts, Diederik, and Marek Czachor. "Abstract DNA-type systems." Nonlinearity 19, no. 3 (January 31, 2006): 575–89. http://dx.doi.org/10.1088/0951-7715/19/3/003.

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7

Luo, Dan, and W. Mark Saltzman. "Synthetic DNA delivery systems." Nature Biotechnology 18, no. 1 (January 2000): 33–37. http://dx.doi.org/10.1038/71889.

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8

Ma, Ke, Alexander W. Harris, and Jennifer N. Cha. "DNA assembled photoactive systems." Current Opinion in Colloid & Interface Science 38 (November 2018): 18–29. http://dx.doi.org/10.1016/j.cocis.2018.08.003.

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9

Handelsman, Jo. "Call for Papers: Unique Model Systems." DNA and Cell Biology 27, no. 6 (June 2008): 287. http://dx.doi.org/10.1089/dna.2008.1504.

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10

Jolly, Pawan, Pedro Estrela, and Michael Ladomery. "Oligonucleotide-based systems: DNA, microRNAs, DNA/RNA aptamers." Essays in Biochemistry 60, no. 1 (June 30, 2016): 27–35. http://dx.doi.org/10.1042/ebc20150004.

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Анотація:
There are an increasing number of applications that have been developed for oligonucleotide-based biosensing systems in genetics and biomedicine. Oligonucleotide-based biosensors are those where the probe to capture the analyte is a strand of deoxyribonucleic acid (DNA), ribonucleic acid (RNA) or a synthetic analogue of naturally occurring nucleic acids. This review will shed light on various types of nucleic acids such as DNA and RNA (particularly microRNAs), their role and their application in biosensing. It will also cover DNA/RNA aptamers, which can be used as bioreceptors for a wide range of targets such as proteins, small molecules, bacteria and even cells. It will also highlight how the invention of synthetic oligonucleotides such as peptide nucleic acid (PNA) or locked nucleic acid (LNA) has pushed the limits of molecular biology and biosensor development to new perspectives. These technologies are very promising albeit still in need of development in order to bridge the gap between the laboratory-based status and the reality of biomedical applications.
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Дисертації з теми "DNA systems"

1

Oster, Christine. "Microparticular and nanoparticular DNA delivery systems as adjuvants for DNA immunization." [S.l.] : [s.n.], 2004. http://archiv.ub.uni-marburg.de/diss/z2004/0493/.

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2

Ma, Long. "Investigation of DNA conformation and enzyme-DNA systems using fluorescence techniques." Thesis, University of Edinburgh, 2012. http://hdl.handle.net/1842/7836.

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As a structural analogue of adenine (6-aminopurine), 2-aminopurine (2AP) is a powerful fluorescent probe, when substituted in DNA in place of the natural adenine. Time-resolved fluorescence measurements of 2AP-labeled oligonucleotides, together with steady-state spectroscopy give us an in-depth view of DNA-enzyme interactions, especially the conformational dynamics in solution phase. Herein, this technique has been extended to the study of the transient unzipping of DNA bases, to investigate the structure of three-way junction (3WJ), and the role of base unzipping in the mechanism of human flap endonuclease (FEN). Seven 2AP-labelled 3WJs were investigated, each containing only one 2AP base in place of adenine. In four of the 3WJs, 2AP was placed in the long duplex region of an arm; while in the other three 3WJs, 2AP was placed near or in the branch point. Comparative time-resolved fluorescence measurements on the 3WJs and corresponding ssDNA and dsDNA controls were made to study the base dynamics, in particular the possibility of unzipping in the vicinity of the branch point. In combination with single-molecule FRET measurements and molecular dynamics simulations, the local and global structure of a DNA 3WJ in solution could be unraveled. It was found to adopt a Y-shaped, pyramidal structure, in which the bases adjacent to the branch point are unzipped, despite the full Watson-Crick complementarity of the molecule. Human flap endonuclease (hFEN) is divalent metal ion-dependent phosphodiesterase. hFEN carries out structure-specific hydrolysis of 5’ bifurcated DNA endonucleolytically. Cleavage occurs at a position one nucleotide into the downstream duplex region. Previous structural, biochemical and modeling studies suggested a double-nucleotide unzipping mechanism at single/double strand junctions for scissile phosphate placement. To confirm this mechanism, 2AP time-resolved fluorescence spectroscopy was used to investigate nucleotide unzipping in hFEN substrates. 2AP was substituted at positions +1 and -1 (relative to the scissile phosphodiester) respectively, in double flap substrates. A series of hFEN mutants including Y40A, R100A, K93A, were used in this study. In the experiments, ssDNA, dsDNA substrates, DNA substrate-enzyme complexes were investigated in order to elucidate the enzyme-induced distortion of the substrate at the +1 and -1 positions. TseI is a thermophilic type II restriction enzyme which has ideal activity at an elevated temperature. It is able to recognise and cut the 5 bp palindromic sequence of 5’-GCWGC-3’ (W=A or T). A range of biophysical methods have been applied to investigate this enzyme, including size-exclusion chromatography; fluorescence anisotropy (Kd value determination); denaturing HPLC for DNA cleavage analysis on matched and mismatched substrates; fluorescence-based activity assay (KM, Vmax, kcat, specificity constant values determination); steady-state fluorescence measurements (DNA-enzyme interaction study). The DNA cleavage characteristics of TseI were fully studied and it was found that it cuts A:A and T:T mismatches in CAG and CTG repeats. This potentially makes it a useful tool for exploring unusual DNA structures containing super-long CAG and CTG repeats which are involved in the aetiology of some neurodegenerative diseases, such as Huntington’s disease (HD). EcoP15I is a type III restriction-modification enzyme whose recognition sequence is 5-CAGCAG-3’. Methyltransferase EcoP15I (M.EcoP15I) adds a methyl group to the second adenine, in the presence of cofactor S-adenosyl methionine (SAM). SDS-PAGE, densitometry and size-exclusion HPLC were applied to confirm that EcoP15I adopts a Res1Mod2 stoichiometry in solution. The large structural distortion of its substrate (base flipping) by M.EcoP15I was investigated by both steady-state and time-resolved fluorescence. Also, nine 120 mer DNA duplexes, each containing two reversely oriented recognition sites were used to study matched and mismatched sequence cleavage by R.EcoP15 and a cleavage pattern was revealed.
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3

Yanagishima, Taiki. "DNA-colloid systems and micro-rheology." Thesis, University of Cambridge, 2013. https://www.repository.cam.ac.uk/handle/1810/265566.

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We investigate the behaviour of DNA-colloid systems using micro-rheology, with a view to demonstrating the efficacy of passive particle-tracking methodologies and developing entirely new systems. Chapter 1 introduces the fields of DNA coated colloids (DNACCs) and passive micro-rheology, with a particular fo cus on the challenges of creating an equilibrating DNACC system and the practicalities and limitations of passive microrheology in gaining access to valid rheological information. In Chapter 2, we present a newly developed realtime monitoring algorithm for complex moduli in optical tweezer micro-rheology sys,tems. Further to eliminating high frequency artefacts, our method is memory light and computationally efficient. Chapter 3 investigates the dynamics of ADNA coated colloids using Brownian Dynamics simulation and a theoretical model, also applying the algorithm developed in Chapter 2. A two-regime diffusivity is identified, in contrast to previous works, which simply found an increased hydrodynamic size. Chapter 4 looks at tuning the hydrophobicity of silica particles using poly(L)lysinepolyethylene glycol (PLL-PEG). We find an incubation pH dependence on their coverage. From analysing video microscopy trajectories, PLL-PEG coated beads sedimented onto A-DNA brushes are found to be significantly more diffusive. In Chapter 5, we int roduce an entirely new DNACC system, the functionalised fd bacteriophage, where high aspect ratio filamentous virions are coated with short oligonucleotides. Aggregation behaviour is confirmed with Atomic Force Microscopy and Dynamic Light Scattering, and systems where rods can act as a linker between spherical particles are also briefly investigated.
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4

Ait-Ghezala, Ahmed 1976. "Software systems for a DNA sequencer." Thesis, Massachusetts Institute of Technology, 2000. http://hdl.handle.net/1721.1/8931.

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Анотація:
Thesis (M.Eng. and S.B.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2000.
Includes bibliographical references (leaf 49).
The initiative to complete the sequencing of the human genome is bringing the need for high-throughput sequencing capabilities to the forefront. We at the BioMEMS engineering group at the Whitehead Institute are designing and building a new sequencing machine that uses a 384 glass "chip" to dramatically increase sequencing rates. This thesis describes the design and implementation of two of the machine's software components. The first is a prototype application for the control of a robot used to automate sample loading. The second is a software filter that allows us to generate quality scores from data processed by Trout using Phred. I present the algorithm used to perform the filtering and show that the results are comparable to the processing of data with the Plan- Phred processing package.
by Ahmed Ait-Ghezala.
M.Eng.and S.B.
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5

Mok, Kenneth W. C. "Characterization of lipid-based DNA delivery systems." Thesis, National Library of Canada = Bibliothèque nationale du Canada, 1999. http://www.collectionscanada.ca/obj/s4/f2/dsk2/ftp02/NQ34590.pdf.

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6

Davies, Owen Richard. "DNA vaccine delivery systems for pulmonary administration." Thesis, University of Nottingham, 2004. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.415695.

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7

Turowski, Daniel J. "Assembly and characterization of mesoscale DNA material systems based on periodic DNA origami arrays." The Ohio State University, 2013. http://rave.ohiolink.edu/etdc/view?acc_num=osu1374169645.

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8

Chan, Michelle M. (Michelle Mei Wah). "DNA methylation in early mammalian development." Thesis, Massachusetts Institute of Technology, 2013. http://hdl.handle.net/1721.1/81580.

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Анотація:
Thesis (Ph. D.)--Massachusetts Institute of Technology, Computational and Systems Biology Program, 2013.
Cataloged from PDF version of thesis.
Includes bibliographical references.
All the cells in the body contain the same genome yet showcase drastically different phenotypes. This is the result of different transcriptional programs, which are partly controlled by epigenetic modifications, including DNA methylation. In this thesis, I analyze genome-scale DNA methylation profiles across pre-implantation development to identify the targets and characterize the dynamics of global demethylation that lead to totipotency and the subsequent changes to embryonic specification. In Chapter 1, I validate and refine the decades old model for DNA methylation in mouse embryogenesis, identify many retrotransposons with active DNA methylation signatures at fertilization, and discover many, novel differentially methylated regions between the gametes that exist transiently during early development. Notably, the majority of epigenetic events unique to mammalian pre-implantation development are characterized in mouse. In Chapter 2, 1 describe the DNA methylation dynamics in human preimplantation development and show that the regulatory principles that operate in mouse are conserved, though some of their targets are species-specific and define regions of local divergence. Finally, in Chapter 3, I compare DNA methylation dynamics of fertilization to an artificial reprogramming process, somatic cell nuclear transfer, in mouse, and find that most dynamics are conserved but occur at a smaller magnitude after artificial reprogramming. I conclude this thesis with a summary of the chapters and a brief discussion of ongoing and future work.
by Michelle M. Chan.
Ph.D.
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9

Sarella, Hananiel. "DNA Pattern Matching on Loosely Coupled figurable Systems." Cincinnati, Ohio : University of Cincinnati, 2004. http://www.ohiolink.edu/etd/view.cgi?acc%5Fnum=ucin1105408305.

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10

Jarvius, Jonas. "DNA Tools and Microfluidic Systems for Molecular Analysis." Doctoral thesis, Uppsala : Acta Universitatis Upsaliensis : Univ.-bibl. [distributör], 2006. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-7079.

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Книги з теми "DNA systems"

1

Dan, Luo, and Saltzman W. Mark, eds. Synthetic DNA delivery systems. Georgetown, Tex: Landes Bioscience, 2003.

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2

S, Henderson Daryl, ed. DNA repair protocols: Mammalian systems. 2nd ed. Totowa, N.J: Humana Press, 2006.

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3

Fishman, George S. Dna repair protocols: Prokaryotic systems. [Place of publication not identified]: Humana, 2010.

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4

Foreign DNA in mammalian systems. Weinheim: Wiley-VCH, 2000.

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5

Engel, Megan Clare. DNA Systems Under Internal and External Forcing. Cham: Springer International Publishing, 2019. http://dx.doi.org/10.1007/978-3-030-25413-1.

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6

Williams, Mark C. Biophysics of DNA-protein interactions: From single molecules to biological systems. New York: Springer, 2011.

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7

N, Floriano Pierre, ed. Microchip-based assay systems: Methods and applications. Totowa, N.J: Humana Press, 2007.

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8

service), SpringerLink (Online, ed. Coarse-Grained Modelling of DNA and DNA Self-Assembly. Berlin, Heidelberg: Springer Berlin Heidelberg, 2012.

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9

Hiroo, Imura, and Dong Y, eds. Recombinant DNA technologies in neuroendocrinology. Berlin: Springer-Verlag, 1993.

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10

Vekshin, N. L. Biophysics of DNA-antibiotic complexes. Hauppauge, N.Y: Nova Science Publishers, 2010.

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Частини книг з теми "DNA systems"

1

Păun, Gheorghe, Grzegorz Rozenberg, and Arto Salomaa. "Sticker Systems." In DNA Computing, 117–49. Berlin, Heidelberg: Springer Berlin Heidelberg, 1998. http://dx.doi.org/10.1007/978-3-662-03563-4_5.

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2

Păun, Gheorghe, Grzegorz Rozenberg, and Arto Salomaa. "Splicing Systems." In DNA Computing, 217–56. Berlin, Heidelberg: Springer Berlin Heidelberg, 1998. http://dx.doi.org/10.1007/978-3-662-03563-4_8.

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3

Frisco, Pierluigi, and Sungchul Ji. "Conformons-P Systems." In DNA Computing, 291–301. Berlin, Heidelberg: Springer Berlin Heidelberg, 2003. http://dx.doi.org/10.1007/3-540-36440-4_26.

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4

Păun, Gheorghe, Grzegorz Rozenberg, and Arto Salomaa. "Distributed H Systems." In DNA Computing, 319–54. Berlin, Heidelberg: Springer Berlin Heidelberg, 1998. http://dx.doi.org/10.1007/978-3-662-03563-4_11.

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Păun, Gheorghe, Grzegorz Rozenberg, and Arto Salomaa. "Insertion-Deletion Systems." In DNA Computing, 187–215. Berlin, Heidelberg: Springer Berlin Heidelberg, 1998. http://dx.doi.org/10.1007/978-3-662-03563-4_7.

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6

Yasbin, Ronald E., David Cheo, and David Bol. "DNA Repair Systems." In Bacillus subtilis and Other Gram-Positive Bacteria, 529–37. Washington, DC, USA: ASM Press, 2014. http://dx.doi.org/10.1128/9781555818388.ch37.

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Lozano-Kühne, Jingky. "DNA Sequencing." In Encyclopedia of Systems Biology, 615. New York, NY: Springer New York, 2013. http://dx.doi.org/10.1007/978-1-4419-9863-7_1294.

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8

Lygerou, Zoi. "DNA Polymerases." In Encyclopedia of Systems Biology, 610. New York, NY: Springer New York, 2013. http://dx.doi.org/10.1007/978-1-4419-9863-7_1442.

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Zhang, Yan. "DNA Methylation." In Encyclopedia of Systems Biology, 607–9. New York, NY: Springer New York, 2013. http://dx.doi.org/10.1007/978-1-4419-9863-7_351.

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Lygerou, Zoi, K. K. Koutroumpas, and John Lygeros. "DNA Replication." In Encyclopedia of Systems Biology, 610–14. New York, NY: Springer New York, 2013. http://dx.doi.org/10.1007/978-1-4419-9863-7_40.

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Тези доповідей конференцій з теми "DNA systems"

1

Zhang, Yunpeng, Dafang Zhang, Peng Sun, and Feng Guo. "DNA Sequencing Puzzle Based DNA Cryptography Algorithm." In Modelling, Simulation and Identification / 854: Intelligent Systems and Control. Calgary,AB,Canada: ACTAPRESS, 2017. http://dx.doi.org/10.2316/p.2017.853-022.

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2

Ben-Dor, Amir, Richard Karp, Benno Schwikowski, and Zohar Yakhini. "Universal DNA tag systems." In the fourth annual international conference. New York, New York, USA: ACM Press, 2000. http://dx.doi.org/10.1145/332306.332346.

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3

Li, Bingzhe, Li Ou, and David Du. "IMG-DNA." In SYSTOR '21: The 14th ACM International Systems and Storage Conference. New York, NY, USA: ACM, 2021. http://dx.doi.org/10.1145/3456727.3463771.

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4

"Activity of DNA glycosylases on non-canonical DNA substrates." In Bioinformatics of Genome Regulation and Structure/ Systems Biology. institute of cytology and genetics siberian branch of the russian academy of science, Novosibirsk State University, 2020. http://dx.doi.org/10.18699/bgrs/sb-2020-346.

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5

Yamamoto, Takatoki, Masao Washizu, Osamu Kurosawa, and Nobuo Shimamoto. "Molecular surgery of DNA." In Intelligent Systems & Advanced Manufacturing, edited by Armin Sulzmann. SPIE, 1998. http://dx.doi.org/10.1117/12.298041.

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6

Cashman, Mikaela, Justin Firestone, Myra B. Cohen, Thammasak Thianniwet, and Wei Niu. "DNA as Features." In SPLC 2019: 23rd International Systems and Software Product Line Conference. New York, NY, USA: ACM, 2019. http://dx.doi.org/10.1145/3336294.3336298.

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KAUFFMAN, LOUIS H., and S. LAMBROPOULOU. "UNKNOTS AND DNA." In Proceedings of the Conference on Mathematical Biology and Dynamical Systems. WORLD SCIENTIFIC, 2007. http://dx.doi.org/10.1142/9789812706799_0003.

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Boruchovsky, Avital, Daniella Bar-Lev, and Eitan Yaakobi. "DNA-Correcting Codes: End-to-end Correction in DNA Storage Systems." In 2023 IEEE International Symposium on Information Theory (ISIT). IEEE, 2023. http://dx.doi.org/10.1109/isit54713.2023.10206536.

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9

Baiesi, Marco. "Scaling in Denaturating DNA." In MODELING OF COMPLEX SYSTEMS: Seventh Granada Lectures. AIP, 2003. http://dx.doi.org/10.1063/1.1571321.

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Saleh, Omar A., Deborah K. Fygenson, Olivier J. N. Bertrand, and Chang Young Park. "Active DNA gels." In 4TH INTERNATIONAL SYMPOSIUM ON SLOW DYNAMICS IN COMPLEX SYSTEMS: Keep Going Tohoku. American Institute of Physics, 2013. http://dx.doi.org/10.1063/1.4794627.

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Звіти організацій з теми "DNA systems"

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Lee, Michael J. Systems-Level Analysis of EGFR Inhibition-DNA Damage Combination Treatment in Breast Cancer. Fort Belvoir, VA: Defense Technical Information Center, September 2012. http://dx.doi.org/10.21236/ada568739.

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2

Lee, Michael J. Systems-Level Analysis of EGFR Inhibition-DNA Damage Combination Treatment in Breast Cancer. Fort Belvoir, VA: Defense Technical Information Center, September 2011. http://dx.doi.org/10.21236/ada555032.

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3

Norelli, John L., Moshe Flaishman, Herb Aldwinckle, and David Gidoni. Regulated expression of site-specific DNA recombination for precision genetic engineering of apple. United States Department of Agriculture, March 2005. http://dx.doi.org/10.32747/2005.7587214.bard.

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Анотація:
Objectives: The original objectives of this project were to: 1) evaluate inducible promoters for the expression of recombinase in apple (USDA-ARS); 2) develop alternative selectable markers for use in apple to facilitate the positive selection of gene excision by recombinase (Cornell University); 3) compare the activity of three different recombinase systems (Cre/lox, FLP/FRT, and R/RS)in apple using a rapid transient assay (ARO); and 4) evaluate the use of recombinase systems in apple using the best promoters, selectable markers and recombinase systems identified in 1, 2 and 3 above (Collaboratively). Objective 2 was revised from the development alternative selectable markers, to the development of a marker-free selection system for apple. This change in approach was taken due to the inefficiency of the alternative markers initially evaluated in apple, phosphomannose-isomerase and 2-deoxyglucose-6-phosphate phosphatase, and the regulatory advantages of a marker-free system. Objective 3 was revised to focus primarily on the FLP/FRT recombinase system, due to the initial success obtained with this recombinase system. Based upon cooperation between researchers (see Achievements below), research to evaluate the use of the FLP recombinase system under light-inducible expression in apple was then conducted at the ARO (Objective 4). Background: Genomic research and genetic engineering have tremendous potential to enhance crop performance, improve food quality and increase farm profits. However, implementing the knowledge of genomics through genetically engineered fruit crops has many hurdles to be overcome before it can become a reality in the orchard. Among the most important hurdles are consumer concerns regarding the safety of transgenics and the impact this may have on marketing. The goal of this project was to develop plant transformation technologies to mitigate these concerns. Major achievements: Our results indicate activity of the FLP\FRTsite-specific recombination system for the first time in apple, and additionally, we show light- inducible activation of the recombinase in trees. Initial selection of apple transformation events is conducted under dark conditions, and tissue cultures are then moved to light conditions to promote marker excision and plant development. As trees are perennial and - cross-fertilization is not practical, the light-induced FLP-mediated recombination approach shown here provides an alternative to previously reported chemically induced recombinase approaches. In addition, a method was developed to transform apple without the use of herbicide or antibiotic resistance marker genes (marker free). Both light and chemically inducible promoters were developed to allow controlled gene expression in fruit crops. Implications: The research supported by this grant has demonstrated the feasibility of "marker excision" and "marker free" transformation technologies in apple. The use of these safer technologies for the genetic enhancement of apple varieties and rootstocks for various traits will serve to mitigate many of the consumer and environmental concerns facing the commercialization of these improved varieties.
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4

Harvey, S. D., T. W. Clauss, R. J. Fellows, and D. A. Cataldo. Evaluation of the metabolic fate of munitions material (TNT & RDX) in plant systems and initial assessment of material interaction with plant genetic material (DNA). Initial assessment of plant DNA adducts as biomarkers. Office of Scientific and Technical Information (OSTI), August 1995. http://dx.doi.org/10.2172/195771.

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5

Seale, Maria, Natàlia Garcia-Reyero, R. Salter, and Alicia Ruvinsky. An epigenetic modeling approach for adaptive prognostics of engineered systems. Engineer Research and Development Center (U.S.), July 2021. http://dx.doi.org/10.21079/11681/41282.

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Prognostics and health management (PHM) frameworks are widely used in engineered systems, such as manufacturing equipment, aircraft, and vehicles, to improve reliability, maintainability, and safety. Prognostic information for impending failures and remaining useful life is essential to inform decision-making by enabling cost versus risk estimates of maintenance actions. These estimates are generally provided by physics-based or data-driven models developed on historical information. Although current models provide some predictive capabilities, the ability to represent individualized dynamic factors that affect system health is limited. To address these shortcomings, we examine the biological phenomenon of epigenetics. Epigenetics provides insight into how environmental factors affect genetic expression in an organism, providing system health information that can be useful for predictions of future state. The means by which environmental factors influence epigenetic modifications leading to observable traits can be correlated to circumstances affecting system health. In this paper, we investigate the general parallels between the biological effects of epigenetic changes on cellular DNA to the influences leading to either system degradation and compromise, or improved system health. We also review a variety of epigenetic computational models and concepts, and present a general modeling framework to support adaptive system prognostics.
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Jung, Carina, Karl Indest, Matthew Carr, Richard Lance, Lyndsay Carrigee, and Kayla Clark. Properties and detectability of rogue synthetic biology (SynBio) products in complex matrices. Engineer Research and Development Center (U.S.), September 2022. http://dx.doi.org/10.21079/11681/45345.

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Synthetic biology (SynBio) aims to rationally engineer or modify traits of an organism or integrate the behaviors of multiple organisms into a singular functional organism through advanced genetic engineering techniques. One objective of this research was to determine the environmental persistence of engineered DNA in the environment. To accomplish this goal, the environmental persistence of legacy engineered DNA building blocks were targeted that laid the foundation for SynBio product development and application giving rise to “post-use products.” These building blocks include genetic constructs such as cloning and expression vectors, promoter/terminator elements, selectable markers, reporter genes, and multi-cloning sites. Shotgun sequencing of total DNA from water samples of pristine sites was performed and resultant sequence data mined for frequency of legacy recombinant DNA signatures. Another objective was to understand the fate of a standardized contemporary synthetic genetic construct (SC) in the context of various chassis systems/genetic configurations representing different degrees of “genetic bioavailability” to the environmental landscape. These studies were carried out using microcosms representing different environmental matrices (soils, waters, wastewater treatment plant (WWTP) liquor) and employed a novel genetic reporter system based on volatile organic compounds (VOC) detection to assess proliferation and persistence of the SC in the matrix over time.
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Leung, F., D. A. Cataldo, R. J. Fellows, A. E. Jarrell, and S. D. Harvey. Evaluation of the metabolic fate of munitions material (TNT & RDX) in plant systems. Initial assessment of plant DNA mutation spectra as a biomarker. Office of Scientific and Technical Information (OSTI), September 1995. http://dx.doi.org/10.2172/187260.

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Cucinotta, Francis A. Systems Biology Model of Interactions between Tissue Growth Factors and DNA Damage Pathways: Low Dose Response and Cross-Talk in TGFβ and ATM Signaling. Office of Scientific and Technical Information (OSTI), вересень 2016. http://dx.doi.org/10.2172/1335567.

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9

O'Neill, Peter, and Jennifer Anderson. Systems Biology Model of Interactions Between Tissue Growth Factors and DNA Damage Pathways: Low Dose Response and Cross-Talk in TGFbeta and ATM Signaling. Office of Scientific and Technical Information (OSTI), October 2014. http://dx.doi.org/10.2172/1158919.

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10

Eastlake, D. DSA KEYs and SIGs in the Domain Name System (DNS). RFC Editor, March 1999. http://dx.doi.org/10.17487/rfc2536.

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