Relevant bibliographies by topics / Reverse chemical genetics

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  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers

Academic literature on the topic 'Reverse chemical genetics'

Author: Grafiati
Published: 4 June 2021
Last updated: 12 February 2022

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Journal articles on the topic "Reverse chemical genetics"

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Ross-Macdonald, Petra. "Forward in reverse: how reverse genetics complements chemical genetics." Pharmacogenomics 6, no. 4 (July 2005): 429–34. http://dx.doi.org/10.1517/14622416.6.4.429.

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Jansen, Gert, Esther Hazendonk, Karen L. Thijssen, and Ronald H. A. Plasterk. "Reverse genetics by chemical mutagenesis in Caenorhabditis elegans." Nature Genetics 17, no. 1 (September 1997): 119–21. http://dx.doi.org/10.1038/ng0997-119.

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Thorpe, David. "Forward & Reverse Chemical Genetics Using SPOS-Based Combinatorial Chemistry." Combinatorial Chemistry & High Throughput Screening 6, no. 7 (November 1, 2003): 623–47. http://dx.doi.org/10.2174/138620703771981205.

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Becattini, Barbara, and Maurizio Pellecchia. "SAR by ILOEs: An NMR-Based Approach to Reverse Chemical Genetics." Chemistry - A European Journal 12, no. 10 (March 20, 2006): 2658–62. http://dx.doi.org/10.1002/chem.200500636.

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Koga, Hisashi. "Establishment of the platform for reverse chemical genetics targeting novel protein–protein interactions." Mol. BioSyst. 2, no. 3-4 (2006): 159–64. http://dx.doi.org/10.1039/b517589e.

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Wong, Lai H., Sunita Sinha, Julien R. Bergeron, Joseph C. Mellor, Guri Giaever, Patrick Flaherty, and Corey Nislow. "Reverse Chemical Genetics: Comprehensive Fitness Profiling Reveals the Spectrum of Drug Target Interactions." PLOS Genetics 12, no. 9 (September 2, 2016): e1006275. http://dx.doi.org/10.1371/journal.pgen.1006275.

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Kanoh, Naoki, Kaori Honda, Siro Simizu, Makoto Muroi, and Hiroyuki Osada. "Photo-Cross-Linked Small-Molecule Affinity Matrix for Facilitating Forward and Reverse Chemical Genetics." Angewandte Chemie International Edition 44, no. 23 (June 6, 2005): 3559–62. http://dx.doi.org/10.1002/anie.200462370.

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Kanoh, Naoki, Kaori Honda, Siro Simizu, Makoto Muroi, and Hiroyuki Osada. "Photo-Cross-Linked Small-Molecule Affinity Matrix for Facilitating Forward and Reverse Chemical Genetics." Angewandte Chemie International Edition 44, no. 28 (July 11, 2005): 4282. http://dx.doi.org/10.1002/anie.200590096.

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Kanoh, Naoki, Kaori Honda, Siro Simizu, Makoto Muroi, and Hiroyuki Osada. "Photo-Cross-Linked Small-Molecule Affinity Matrix for Facilitating Forward and Reverse Chemical Genetics." Angewandte Chemie 117, no. 23 (June 6, 2005): 3625–28. http://dx.doi.org/10.1002/ange.200462370.

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Kanoh, Naoki, Kaori Honda, Siro Simizu, Makoto Muroi, and Hiroyuki Osada. "Photo-Cross-Linked Small-Molecule Affinity Matrix for Facilitating Forward and Reverse Chemical Genetics." Angewandte Chemie 117, no. 28 (July 11, 2005): 4354. http://dx.doi.org/10.1002/ange.200590095.

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Dissertations / Theses on the topic "Reverse chemical genetics"

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Decker, Daniel. "UDP-sugar metabolizing pyrophosphorylases in plants : formation of precursors for essential glycosylation-reactions." Doctoral thesis, Umeå universitet, Institutionen för fysiologisk botanik, 2017. http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-134087.

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UDP-sugar metabolizing pyrophosphorylases provide the primary mechanism for de novo synthesis of UDP-sugars, which can then be used for myriads of glycosyltranferase reactions, producing cell wall carbohydrates, sucrose, glycoproteins and glycolipids, as well as many other glycosylated compounds. The pyrophosphorylases can be divided into three families: UDP-Glc pyrophosphorylase (UGPase), UDP-sugar pyrophosphorylase (USPase) and UDP-N-acety lglucosamine pyrophosphorylase (UAGPase), which can be discriminated both by differences in accepted substrate range and amino acid sequences. This thesis focuses both on experimental examination (and re-examination) of some enzymatic/ biochemical properties of selected members of the UGPases and USPases and UAGPase families and on the design and implementation of a strategy to study in vivo roles of these pyrophosphorylases using specific inhibitors. In the first part, substrate specificities of members of the Arabidopsis UGPase, USPase and UAGPase families were comprehensively surveyed and kinetically analyzed, with barley UGPase also further studied with regard to itspH dependency, regulation by oligomerization, etc. Whereas all the enzymes preferentially used UTP as nucleotide donor, they differed in their specificity for sugar-1-P. UGPases had high activity with D-Glc-1-P, but could also react with Frc-1-P, whereas USPase reacted with arange of sugar-1-phosphates, including D-Glc-1-P, D-Gal-1-P, D-GalA-1-P, β-L-Ara-1-P and α-D-Fuc-1-P. In contrast, UAGPase2 reacted only with D-GlcNAc-1-P, D-GalNAc-1-P and, to some extent, with D-Glc-1-P. A structure activity relationship was established to connect enzyme activity, the examined sugar-1-phosphates and the three pyrophosphorylases. The UGPase/USPase/UAGPase active sites were subsequently compared in an attempt to identify amino acids which may contribute to the experimentally determined differences in substrate specificities. The second part of the thesis deals with identification and characterization of inhibitors of the pyrophosphorylases and with studies on in vivo effects of those inhibitors in Arabidopsis-based systems. A novel luminescence-based high-throughput assay system was designed, which allowed for quantitative measurement of UGPase and USPase activities, down to a pmol per min level. The assay was then used to screen a chemical library (which contained 17,500 potential inhibitors) to identify several compounds affecting UGPase and USPase. Hit-optimization on one of the compounds revealed even stronger inhibitors of UGPase and USPase which also strongly inhibited Arabidopsis pollen germination, by disturbing UDP-sugar metabolism. The inhibitors may represent useful tools to study in vivo roles of the pyrophosphorylases, as a complement to previous genetics-based studies. The thesis also includes two review papers on mechanisms of synthesis of NDP-sugars. The first review covered the characterization of USPase from both prokaryotic and eukaryotic organisms, whereas the second review was a comprehensive survey of NDP-sugar producing enzymes (not only UDP-sugar producing and not only pyrophosphorylases). All these enzymes were discussed with respect to their substrate specificities and structural features (if known) and their proposed in vivo functions.
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Huang, En. "Development of chemically mutagenized soybean populations for forward and reverse genetics analyses /." Available to subscribers only, 2009. http://proquest.umi.com/pqdweb?did=1885446561&sid=8&Fmt=2&clientId=1509&RQT=309&VName=PQD.

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HUANG, EN. "DEVELOPMENT OF CHEMICALLY MUTAGENIZED SOYBEAN POPULATIONS FOR FORWARD AND REVERSE GENETICS ANALYSES." OpenSIUC, 2009. https://opensiuc.lib.siu.edu/theses/36.

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Soybean [Glycine max (L.) Merr.] is one of the most economically important crop species in the world. Allelic series that increase genetic variability are very important resources for crop improvement and gene function studies by reverse genetics. Moreover, mutant varieties are not required to comply with the international Genetically Modified Organism (GMO) regulations, which makes them more acceptable to consumers. Two chemical mutagenized soybean populations of approximately 2,260 and 2,450 M2 families from cultivars `Forrest' and `Williams 82' were successfully developed in 2007 ~ 2008. These mutagenized populations with high genetic variability were useful resources for both forward and reverse screening of desired agronomic traits. A large number of visible morphological phenotypes were identified in the mutagenized population, such as albinism, abnormal leaflets and black seed coats, which suggested the success of generating genetic variability by mutagenesis. Additionally, a database was established consisting of the pictures of each plant at maturity, some of the morphological and yield characteristics of each plant. Targeting Induced Local Lesions IN Genomes (TILLING) was used to identify the induced mutations in this project. TILLING combines the advantages of conventional mutation breeding to increase the genetic variability with the high throughput screening of induced mutations for genes of interest. TILLING is a PCR-based method to identify mutations with the aid of the mismatch endonuclease enzyme ENDO1, which detects and cleaves the mismatches between mutant and wild-type DNA amplicons. The presence of a mutation can be visualized using denaturing polyacrylamide gel electrophoresis on a LI-COR 4300 DNA analysis system. The soybean Nodule Autoregulation Receptor Kinase (NARK) gene was targeted in this project to examine the mutation rate of the developed populations. Two mutants in the soybean NARK gene were identified after screening of 768 `Forrest' soybean mutant lines. The mutation rate of the NARK gene in the tested population was 1 mutation/ 540 kb. We obtained this mutation density using EMS at a dose of 0.78% (v/v), which resulted in ~50% seed lethality after treatment. One of the mutants (F262) carried a non-sense mutation in the targeted region of the NARK gene, which resulted in increased nodulation in soybean. Mutant line F262 produced 9 times more nodules than the experiment control. Therefore, TILLING is an efficient approach to identify allelic series in soybean for both gene function studies and crop improvement by providing germplasm with increased genetic variability. Allelic series identified by TILLING are useful resources to link the genotype to particular phenotype.
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Sener, Emine Cigdem. "Reversal Of Paclitaxel Resistance In Mcf-7 Cell Line By A Chemical Modulator Elacridar." Master's thesis, METU, 2012. http://etd.lib.metu.edu.tr/upload/12614644/index.pdf.

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The phenomenon called multi drug resistance (MDR) is the resistance of cancer cells to anticancer drugs before or during chemotherapy. One of the mechanisms causing MDR is the upregulation of efflux pumps. The overexpression of MDR1 and MRP1 results in increased efflux of anticancer agents. The aim of this study was to reverse MDR1-mediated paclitaxel resistance in MCF7 breast cancer cell line by a chemical MDR modulator elacridar. In this study, cytotoxicity and the reversal effect of elacridar on sensitive and paclitaxel resistant cells were investigated. The effect of elacridar on MDR1 and MRP1 gene expressions were also determined. Results indicated MDR1 gene was highly overexpressed (208 fold) in MCF7/Pac cells compared to MCF7/S cells. Elacridar was not found to be cytotoxic in MCF7/Pac cells up to 30µ
M. XTT results demonstrated 0.5µ
M elacridar concentration was able to restore the antiproliferative effect of paclitaxel by 94% in MCF7/Pac cells. Complete MDR reversal was achieved at 5µ
M elacridar concentration. qPCR results revealed dose dependent upregulations in MDR1 and MRP1 gene expression levels after elacridar treatment which did not prevent reversal of MDR by elacridar. Elacridar was shown to be very effective against paclitaxel resistance in MCF7/Pac cells at low concentrations. Therefore, it can be a suitable candidate for therapeutic applications in patients who developed paclitaxel resistance. Nevertheless, dose dependent upregulations in MDR1 and MRP1 gene expressions should be taken into consideration and overdose elacridar administration should be avoided.
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Alaswad, Alaa A. "DEVELOPMENT OF CHEMICALLY MUTAGENIZED SOYBEAN POPULATIONS FOR IMPROVING SOYBEAN SEED OIL CONTENT AND FORWARD AND REVERSE GENETICS SCREENING." OpenSIUC, 2014. https://opensiuc.lib.siu.edu/theses/1421.

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Soybeans are among seeds the common plant foods that contains high protein contents and high oil. The protein provides about 35 to 38 percent of the seeds calories compared to around 20 to 30 percent in other legumes and many animal products. The quality of soy protein is notable and approaches the quality of meat and milk. Unlike many other good sources of protein, soybeans are low in saturated fat and are cholesterol-free. Its proteins provide all the important amino acids, most the amounts needed by humans (NSRL, 2010). As the most consumed vegetable oil in the world, soybean oil has been used substantially in the food industry (Soystats, 2010). Its utilization is determined by its fatty acid composition, with commodity soybean oil typically 13% palmatic acid (16:0), 4% stearic acid (18:0), 20% oleic acid (18:1), 55% linoleic acid (18:2), and 8% linolenic acid (18:3). The change of fatty acid profiles to improve soybean oil quality has been a long time goal of many researchers throughout the world. Biodiesel is an up and coming trend in energy production. Breeding effort can be undertaken in order to produce a higher energy profile soybean oil. Using ethyl-methanesulfonate (EMS) mutagenesis effects on DNA, significant changes to the genes and gene network underlying the protein and oil profile can be achieved. These changes are hard to accomplish using standard breeding techniques. In addition, high amount of linolenic and stearic acid are very important for fuel and biodiesel production, but are not good for food production due to the fact that such oil is oxidized easily and the food goes rancid quickly. However, soybean oil with elevated amount of oleic acid is desirable for food, because this monounsaturated fatty acid improves the nutrition and oxidative stability of soybean oil compared to other oils. In order to improve the quality of soybean oil and processed foods, chemically mutagenized soybeans have been developed in this project. Seeds harvested from individual M3 and M4 plants (from 2 successive years 2012 and 2013) were analyzed for protein content, oil composition, and content. Moreover, seven phenotypic traits including oil analysis (stearic, palmitic, oleic, linolenic and linoleic), seed protein content, weight of the seeds (High yield), seeds color, stem length, germination rates, and branch architecture were collected and analyzed in this project of soybean `Forrest' mutagenized population. The result of this research showed that there were 25 significantly different lines (p< 0.05) compare to the wild type, which is useful for developing mutants with altered oil and fatty acid compositions in soybean.
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Books on the topic "Reverse chemical genetics"

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Koga, Hisashi, ed. Reverse Chemical Genetics. Totowa, NJ: Humana Press, 2009. http://dx.doi.org/10.1007/978-1-60761-232-2.

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Reverse chemical genetics: Methods and protocols. New York, NY: Humana Press, 2009.

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Book chapters on the topic "Reverse chemical genetics"

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DÉPREZ, Benoît. "High-Content Screening in Forward (Phenotypic Screening with Organisms) and Reverse (Structural Screening by NMR) Chemical Genetics." In Chemogenomics and Chemical Genetics, 103–12. Berlin, Heidelberg: Springer Berlin Heidelberg, 2011. http://dx.doi.org/10.1007/978-3-642-19615-7_9.

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"Reverse Chemical Genetics." In Encyclopedia of Cancer, 3297. Berlin, Heidelberg: Springer Berlin Heidelberg, 2011. http://dx.doi.org/10.1007/978-3-642-16483-5_5085.

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Sattelle, David B., Andrew K. Jones, Laurence A. Brown, Steven D. Buckingham, Christopher J. Mee, and Luanda Pym. "Nicotinic acetylcholine receptors as drug/chemical targets, contributions from comparative genomics, forward and reverse genetics." In Comparative Genomics and Proteomics in Drug Discovery, 93–113. Taylor & Francis, 2018. http://dx.doi.org/10.1201/9780203967294-4.

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Sayeed Md. Hasibuzzaman, Abu, Farzana Akter, Shamim Ara Bagum, Nilima Hossain, Tahmina Akter, and M. Shalim Uddin. "Morpho-Physiological Mechanisms of Maize for Drought Tolerance." In Plant Stress Physiology. IntechOpen, 2021. http://dx.doi.org/10.5772/intechopen.91197.

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Maize is one of the mostly consumed grains in the world. It possesses a greater potentiality of being an alternative to rice and wheat in the near future. In field condition, maize encounters abiotic stresses like salinity, drought, water logging, cold, heat, etc. Physiology and production of maize are largely affected by drought. Drought has become a prime cause of agricultural disaster because of the major occurrence records of the last few decades. It leads to immense losses in plant growth (plant height and stem), water relations (relative water content), gas exchange (photosynthesis, stomatal conductance, and transpiration rate), and nutrient levels in maize. To mitigate the effect of stress, plant retreats by using multiple morphological, molecular, and physiological mechanisms. Maize alters its physiological processes like photosynthesis, oxidoreductase activities, carbohydrate metabolism, nutrient metabolism, and other drought-responsive pathways in response to drought. Synthesis of some chemicals like proline, abscisic acid (ABA), different phenolic compounds, etc. helps to fight against stress. Inoculation of plant growth-promoting rhizobacteria (PGPR) can result to the gene expression involved in the biosynthesis of abscisic acid which also helps to resist drought. Moreover, adaptation to drought and heat stress is positively influenced by the activity of chaperone proteins and proteases, protein that responds to ethylene and ripening. Some modifications generated by clustered regularly interspaced short palindromic repeat (CRISPR)-Cas9 are able to improve maize yield in drought. Forward and reverse genetics and functional and comparative genomics are being implemented now to overcome stress conditions like drought. Maize response to drought is a multifarious physiological and biochemical process. Applying data synthesis approach, this study aims toward better demonstration of its consequences to provide critical information on maize tolerance along with minimizing yield loss.
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Conference papers on the topic "Reverse chemical genetics"

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Khalili, Nazanin, Yu-Chen Sun, Hani E. Naguib, and Roy H. Kwon. "Multiobjective Optimization of Trilayer Polypyrrole Conducting Polymer Actuators." In ASME 2013 Conference on Smart Materials, Adaptive Structures and Intelligent Systems. American Society of Mechanical Engineers, 2013. http://dx.doi.org/10.1115/smasis2013-3105.

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The main focus of this study is the optimization of a trilayer actuator comprising two layers of polypyrrole and a PVDF membrane core. Since the performance of these actuators is difficult to predict due to their mechanical and chemical properties, optimizing their output behavior such as the tip displacement and blocking force is of crucial importance for utilizing their full potentials and more significantly increasing predictability in their performance. For this purpose, two optimization techniques (multiobjective genetic algorithm and active set algorithm) have been carried out based on a developed mathematical model. Two nonlinear constrained equations representing the tip displacement and the blocking force are formulated and solved for a predetermined thickness of the PVDF core membrane. Both equations are subjected to a bound constraint and a nonlinear equality constraint. The output blocking force and the tip deformation act in a reverse manner and there is a trade-off between them. Accordingly, the results imply that there is no single solution to the problem and a range for each of the design variables should be determined so that there will be a sense of balance between the two objectives. Furthermore, the results obtained from the multiobjective optimization methodology have been verified experimentally.
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