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About 10,000 papers for “DNA sequences”
Firdous Ahmad Deader · ScienceDB · 2025
The data provided is the sequence of DNAs used in the experiments. We have included a total of four DNA sequences, where two sequences are synthetic DNA oligos and 2 are actual human-based DNAs
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Ariel Cerda (17847302), Alejandro Aravena (21989815), Valentina Zapata (21989818) et al. · Figshare · 2025
<div> The urgent need to develop a more equitable bioeconomy has positioned biotechnology capacity building at the forefront of international priorities. However, in many educational institutions, particularly in low- and middle-income countries, this remains a major challenge due to limited access to reagents, equipment, and technical documentation. In this work, we describe Open Educational Resources (OER) composed of locally produced biological reagents, open source hardware and free software to teach fundamental techniques in biotechnology such as LAMP DNA amplification, RT-PCR RNA detection, enzyme kinetics and fluorescence imaging. The use of locally produced reagents and devices reduces costs by up to one order of magnitude. During the pandemic lockdowns, these tools were distributed nationwide to students’ homes as a lab-in-a-box for remote teaching of molecular biology. To test their performance, a total of 93 undergraduate students tested these resources during a biochemistry practical course. 27 out of 31 groups (~87%) successfully achieved the objectives of the PCR activity, while 28 out of 31 groups (~90%) correctly identified the target using LAMP reactions. To assess the potential application in secondary school, we organized three workshops for high school teachers from different institutions across Chile and performed an anonymous questionnaire, obtaining a strong agreement on how these OER broaden teachers’ perspectives on the techniques and facilitate the teaching of molecular biology topics. This effort was made possible through a close collaboration with open source technology advocates and members of DIYbio communities, whose work is paving the way for low-cost training in biology. All the protocols and design files are available under open source licenses. </div>
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Bemis, Katherine, Girard, Matthew G., D. Santos, Mudjekeewis et al. · Figshare · 2023
Biodiversity of Philippine marine fishes: A DNA barcode reference library based on voucher specimens. Species identifications were verified based on taxonomic, phenotypic, and genotypic data, and sequences are associated with voucher specimens, live-color photographs, and genetic samples catalogued at Smithsonian Institution, National Museum of Natural History. Specimens, photographs, and genetic samples are available for analyses; see contact information below. <br> Katherine E. Bemis (1,2), Matthew G. Girard (2,3), Mudjekeewis D. Santos (4), Kent E. Carpenter (5), Jonathan R. Deeds (6), Diane E. Pitassy (2), Nicko Amor L. Flores (4), Elizabeth S. Hunter (6), Amy C. Driskell (7), Kenneth S. Macdonald III (7), Lee A. Weigt (7), Jeffrey T. Williams (2) <br> 1. National Systematics Laboratory, Office of Science and Technology, NOAA Fisheries, Washington, D.C. 20560, U.S.A. <br> 2. Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, D.C. 20560, U.S.A. <br> 3. Biodiversity Institute, University of Kansas, Lawrence, Kansas, 66045, U.S.A. <br> 4. Genetic Fingerprinting Laboratory, National Fisheries Research and Development Institute, Quezon City, 1103, Philippines. <br> 5. Department of Biological Sciences, Old Dominion University, Norfolk, Virginia, 23529, U.S.A. <br> 6. Center for Food Safety and Applied Nutrition, United States Food and Drug Administration, College Park, Maryland, 20740, U.S.A. <br> 7. Laboratories of Analytical Biology, National Museum of Natural History, Smithsonian Institution, Washington, D.C. 20560, U.S.A. <br> Corresponding authors: Katherine E. Bemis (bemisk@si.edu), Matthew G. Girard (girardmg@si.edu), Jeffrey T. Williams (jtwfish@gmail.com)
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SpringerReference · 2011
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Auffray, Charles · DigitalGeorgetown (Georgetown University Library) · 2011
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Amanda van der Sijs (18824112), Thomas Visser (6489402), Pepijn Moerman (2603242) et al. · Figshare · 2024
<div><p>Quantitative transcription regulation studies <i>in vivo</i> and <i>in vitro</i> often make use of reporter proteins. Here we show that using Broccoli aptamers, quantitative study of transcription in various regulatory scenarios is possible without a translational step. To explore the method we studied several regulatory scenarios that we analyzed using thermodynamic occupancy-based models, and found excellent agreement with previous studies. In the next step we show that non-coding DNA can have a dramatic effect on the level of transcription, similar to the influence of the <i>lac</i> repressor with a strong affinity to operator sites. Finally, we point out the limitations of the method in terms of delay times coupled to the folding of the aptamer. We conclude that the Broccoli aptamer is suitable for quantitative transcription measurements.</p></div>
Cited by 0Open access
Bemis, Katherine, Girard, Matthew G., D. Santos, Mudjekeewis et al. · Figshare · 2023
Biodiversity of Philippine marine fishes: A DNA barcode reference library based on voucher specimens. Species identifications were verified based on taxonomic, phenotypic, and genotypic data, and sequences are associated with voucher specimens, live-color photographs, and genetic samples catalogued at Smithsonian Institution, National Museum of Natural History. Specimens, photographs, and genetic samples are available for analyses; see contact information below. <br> Katherine E. Bemis (1,2), Matthew G. Girard (2,3), Mudjekeewis D. Santos (4), Kent E. Carpenter (5), Jonathan R. Deeds (6), Diane E. Pitassy (2), Nicko Amor L. Flores (4), Elizabeth S. Hunter (6), Amy C. Driskell (7), Kenneth S. Macdonald III (7), Lee A. Weigt (7), Jeffrey T. Williams (2) <br> 1. National Systematics Laboratory, Office of Science and Technology, NOAA Fisheries, Washington, D.C. 20560, U.S.A. <br> 2. Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, D.C. 20560, U.S.A. <br> 3. Biodiversity Institute, University of Kansas, Lawrence, Kansas, 66045, U.S.A. <br> 4. Genetic Fingerprinting Laboratory, National Fisheries Research and Development Institute, Quezon City, 1103, Philippines. <br> 5. Department of Biological Sciences, Old Dominion University, Norfolk, Virginia, 23529, U.S.A. <br> 6. Center for Food Safety and Applied Nutrition, United States Food and Drug Administration, College Park, Maryland, 20740, U.S.A. <br> 7. Laboratories of Analytical Biology, National Museum of Natural History, Smithsonian Institution, Washington, D.C. 20560, U.S.A. <br> Corresponding authors: Katherine E. Bemis (bemisk@si.edu), Matthew G. Girard (girardmg@si.edu), Jeffrey T. Williams (jtwfish@gmail.com)
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Nicholas Guido (2822444), Elena Starostina (544081), Devin Leake (146327) et al. · Figshare · 2016
<p>MS-Excel spreadsheet containing DNA sequences used in this study.</p> <p>(XLSX)</p>
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Eliana Valencia-Lozano (18283955), José Luis Cabrera-Ponce (18283958), Aarón Barraza (12420868) et al. · Figshare · 2024
<p>(A) Selected target sequences at the <i>SlWRKY29</i> promoter region for dCas9 and dCas12. Highlighted sequences correspond to the PAM sequence. (B) Oligonucleotides used for vector construction. (C) <i>SlWRKY29</i> gRNA oligonucleotide cloning reference. (D) Linker sequence in the p143-L2 plasmid and synthetic DNA with the crRNAs (crRNA array) for dCas12. (E) List of oligos used for qPCR. (F) List of oligos used for PCR-genotyping.</p> <p>(DOCX)</p>
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Charles Auffray · DigitalGeorgetown (Georgetown University Library) · 1992
letters
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Biotechnology Advances · 1997
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Tuvi Etzion · Elsevier eBooks · 2024
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Ohtani, Masato, Kondo, Toshiaki, Tani, Naoki et al. · DRYAD · 2013
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Erin Mayhood, Courtney K. Soderberg, April Clyburne-Sherin · OSF Preprints (OSF Preprints) · 2016
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Tepe, Eric · Ohio Digital Resource Commons (University of Cincinnati) · 2017
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Rex A. Dwyer · Cambridge University Press eBooks · 2002
The human genome comprises approximately three billion (3 ×109) base pairs distributed among 23 pairs of chromosomes. The Human Genome Project commenced in the 1990s with the primary goal of determining the sequence of this DNA. The task was completed ahead of schedule a few months before this book was completed.
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Guisan, Antoine, Pitteloud, Camille, Salamin, Nicolas et al. · Figshare · 2023
The fasta file countains custom partial COI, COII and Cyt. B sequences from alpine orthopternans used to recontruct orthopteran phylogeny.
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M. O. Dayhoff, R. M. Schwartz, H.R. Chen et al. · Nature · 1980
Cited by 2Open access
SpringerReference · 2011
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Junling Yang (5642711), Yinchuan Li (1787296), Ambuj Bhalla (16541855) et al. · Figshare · 2023
<div><p>In order to study effects of macrophage-derived inflammatory mediators associated with systemic inflammation on brain endothelial cells, we have established a co-culture system consisting of bEnd.3 cells and LPS-activated Raw 264.7 cells and performed its cytokine profiling. The cytokine profile of the co-culture model was compared to that of mice treated with intraperitoneal LPS injection. We found that, among cytokines profiled, eight cytokines/chemokines were similarly upregulated in both in vivo mouse and in vitro co-culture model. In contrast to the co-culture model, the cytokine profile of a common mono-culture system consisting of only LPS-activated bEnd.3 cells had little similarity to that of the in vivo mouse model. These results indicate that the co-culture of bEnd.3 cells with LPS-activated Raw 264.7 cells is a better model than the common mono-culture of LPS-activated bEnd.3 cells to investigate the molecular mechanism in endothelial cells, by which systemic inflammation induces neuroinflammation. Moreover, fibrinogen adherence both to bEnd.3 cells in the co-culture and to brain blood vessels in a LPS-treated animal model of Alzheimer’s disease increased. To the best of our knowledge, this is the first to utilize bEnd.3 cells co-cultured with LPS-activated Raw 264.7 cells as an in vitro model to investigate the consequence of macrophage-derived inflammatory mediators on brain endothelial cells.</p></div>
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