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Relevant bibliographies by topics / Unamplified genomic DNA

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Journal articles

Academic literature on the topic 'Unamplified genomic DNA'

Author: Grafiati

Published: 10 March 2023

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Journal articles on the topic "Unamplified genomic DNA"

1

Fors, Lance, Kafryn W. Lieder, Stephanie H. Vavra, and Robert W. Kwiatkowski. "Large-scale SNP scoring from unamplified genomic DNA." Pharmacogenomics 1, no. 2 (May 2000): 219–29. http://dx.doi.org/10.1517/14622416.1.2.219.

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2

Bao, Y. P. "SNP identification in unamplified human genomic DNA with gold nanoparticle probes." Nucleic Acids Research 33, no. 2 (January 19, 2005): e15-e15. http://dx.doi.org/10.1093/nar/gni017.

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3

Larsen, Jacob, Anne Marie Ottesen, Maria Kirchhoff, Claes Lundsteen, and Jørgen K. Larsen. "High Resolution Comparative Genomic Hybridization Detects 7–8 Megabasepair Deletion in PCR Amplified DNA1." Analytical Cellular Pathology 23, no. 2 (2001): 61–64. http://dx.doi.org/10.1155/2001/301570.

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We investigated if any change in spatial resolution of comparative genomic hybridization analysis could be detected when using DNA amplified by degenerate oligonucleotide primed PCR (DOP‐PCR) as opposed to the use of unamplified DNA. Five DNA samples from B‐cell leukemias with small 11q deletions were amplified by DOP‐PCR and analysed by means of high resolution comparative genomic hybridization (HR‐CGH) for the evaluation of aberration size detection limit. By means of HR‐CGH, we found the detection limit of DOP‐PCR CGH for deletions to be between 3 Mbp and 7–8 Mbp.

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4

Castro, Alonso, and John G. K. Williams. "Single-Molecule Detection of Specific Nucleic Acid Sequences in Unamplified Genomic DNA." Analytical Chemistry 69, no. 19 (October 1997): 3915–20. http://dx.doi.org/10.1021/ac970389h.

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5

Jung, Ye Lim, Cheulhee Jung, Jung Hun Park, Moon Il Kim, and Hyun Gyu Park. "Direct detection of unamplified genomic DNA based on photo-induced silver ion reduction by DNA molecules." Chemical Communications 49, no. 23 (2013): 2350. http://dx.doi.org/10.1039/c3cc38552c.

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6

Caliskan-Aydogan, Oznur, Saad Asadullah Sharief, and Evangelyn C. Alocilja. "Nanoparticle-Based Plasmonic Biosensor for the Unamplified Genomic Detection of Carbapenem-Resistant Bacteria." Diagnostics 13, no. 4 (February 9, 2023): 656. http://dx.doi.org/10.3390/diagnostics13040656.

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Antimicrobial resistance (AMR) is a global public health issue, and the rise of carbapenem-resistant bacteria needs attention. While progress is being made in the rapid detection of resistant bacteria, affordability and simplicity of detection still need to be addressed. This paper presents a nanoparticle-based plasmonic biosensor for detecting the carbapenemase-producing bacteria, particularly the beta-lactam Klebsiella pneumoniae carbapenemase (blaKPC) gene. The biosensor used dextrin-coated gold nanoparticles (GNPs) and an oligonucleotide probe specific to blaKPC to detect the target DNA in the sample within 30 min. The GNP-based plasmonic biosensor was tested in 47 bacterial isolates: 14 KPC-producing target bacteria and 33 non-target bacteria. The stability of GNPs, confirmed by the maintenance of their red appearance, indicated the presence of target DNA due to probe-binding and GNP protection. The absence of target DNA was indicated by the agglomeration of GNPs, corresponding to a color change from red to blue or purple. The plasmonic detection was quantified with absorbance spectra measurements. The biosensor successfully detected and differentiated the target from non-target samples with a detection limit of 2.5 ng/μL, equivalent to ~103 CFU/mL. The diagnostic sensitivity and specificity were found to be 79% and 97%, respectively. The GNP plasmonic biosensor is simple, rapid, and cost-effective in detecting blaKPC-positive bacteria.

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7

Storhoff, James J., Adam D. Lucas, Viswanadham Garimella, Y. Paul Bao, and Uwe R. Müller. "Homogeneous detection of unamplified genomic DNA sequences based on colorimetric scatter of gold nanoparticle probes." Nature Biotechnology 22, no. 7 (May 30, 2004): 883–87. http://dx.doi.org/10.1038/nbt977.

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8

Mahon, A. R., M. A. Barnes, F. Li, S. P. Egan, C. E. Tanner, S. T. Ruggiero, J. L. Feder, and D. M. Lodge. "DNA-based species detection capabilities using laser transmission spectroscopy." Journal of The Royal Society Interface 10, no. 78 (January 6, 2013): 20120637. http://dx.doi.org/10.1098/rsif.2012.0637.

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Early detection of invasive species is critical for effective biocontrol to mitigate potential ecological and economic damage. Laser transmission spectroscopy (LTS) is a powerful solution offering real-time, DNA-based species detection in the field. LTS can measure the size, shape and number of nanoparticles in a solution and was used here to detect size shifts resulting from hybridization of the polymerase chain reaction product to nanoparticles functionalized with species-specific oligonucleotide probes or with the species-specific oligonucleotide probes alone. We carried out a series of DNA detection experiments using the invasive freshwater quagga mussel ( Dreissena bugensis ) to evaluate the capability of the LTS platform for invasive species detection. Specifically, we tested LTS sensitivity to (i) DNA concentrations of a single target species, (ii) the presence of a target species within a mixed sample of other closely related species, (iii) species-specific functionalized nanoparticles versus species-specific oligonucleotide probes alone, and (iv) amplified DNA fragments versus unamplified genomic DNA. We demonstrate that LTS is a highly sensitive technique for rapid target species detection, with detection limits in the picomolar range, capable of successful identification in multispecies samples containing target and non-target species DNA. These results indicate that the LTS DNA detection platform will be useful for field application of target species. Additionally, we find that LTS detection is effective with species-specific oligonucleotide tags alone or when they are attached to polystyrene nanobeads and with both amplified and unamplified DNA, indicating that the technique may also have versatility for broader applications.

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9

Brouard, Danny, Olivier Ratelle, A. Guillermo Bracamonte, Maryse St-Louis, and Denis Boudreau. "Direct molecular detection of SRY gene from unamplified genomic DNA by metal-enhanced fluorescence and FRET." Analytical Methods 5, no. 24 (2013): 6896. http://dx.doi.org/10.1039/c3ay41428k.

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10

Martins, R., P. Baptista, L. Silva, L. Raniero, G. Doria, R. Franco, and E. Fortunato. "Identification of unamplified genomic DNA sequences using gold nanoparticle probes and a novel thin film photodetector." Journal of Non-Crystalline Solids 354, no. 19-25 (May 2008): 2580–84. http://dx.doi.org/10.1016/j.jnoncrysol.2007.09.074.

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