Relevant bibliographies by topics / Phylogenetic analysis

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

Academic literature on the topic 'Phylogenetic analysis'

Author: Grafiati
Published: 4 June 2021
Last updated: 25 July 2025

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Journal articles on the topic "Phylogenetic analysis"

1

Petersen, G., and O. Seberg. "Phylogenetic Analysis of allopolyploid species." Czech Journal of Genetics and Plant Breeding 41, Special Issue (2012): 28–37. http://dx.doi.org/10.17221/6129-cjgpb.

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Brower, A. V. "Phylogenetic Analysis." Science 276, no. 5317 (1997): 1317b—1321. http://dx.doi.org/10.1126/science.276.5317.1317b.

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Hillis, David M. "Phylogenetic analysis." Current Biology 7, no. 3 (1997): R129—R131. http://dx.doi.org/10.1016/s0960-9822(97)70070-8.

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Wiesemüller, Bernhard, and Hartmut Rothe. "Interpretation of Bootstrap Values in Phylogenetic Analysis." Anthropologischer Anzeiger 64, no. 2 (2006): 161–65. http://dx.doi.org/10.1127/anthranz/64/2006/161.

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Mecham, Jesse, Mark Clement, Quinn Snell, Todd Freestone, Kevin Seppi, and Keith Crandall. "Jumpstarting phylogenetic analysis." International Journal of Bioinformatics Research and Applications 2, no. 1 (2006): 19. http://dx.doi.org/10.1504/ijbra.2006.009191.

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Tolkoff, Max R., Michael E. Alfaro, Guy Baele, Philippe Lemey, and Marc A. Suchard. "Phylogenetic Factor Analysis." Systematic Biology 67, no. 3 (2017): 384–99. http://dx.doi.org/10.1093/sysbio/syx066.

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Zavada, Michael S., and Muyeol Kim. "Phylogenetic analysis ofUlmaceae." Plant Systematics and Evolution 200, no. 1-2 (1996): 13–20. http://dx.doi.org/10.1007/bf00984745.

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Adams, Dean C. "PHYLOGENETIC META-ANALYSIS." Evolution 62, no. 3 (2008): 567–72. http://dx.doi.org/10.1111/j.1558-5646.2007.00314.x.

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Irinyi, László, György Kövics, and Erzsébet Sándor. "Phylogenetic analysis of Phoma species." Acta Agraria Debreceniensis, no. 26 (July 16, 2007): 100–107. http://dx.doi.org/10.34101/actaagrar/26/3062.

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The cosmopolitan Phoma genus contains mainly phytopathogenic, opportunistic parasites, and saprophyte fungal species. Up to now, the characterization of Phoma species and other taxa of Phoma has been determined on the basis of morphology on standardized media, and gene sequence analysis was only used as a confirmative or distinctive complement.In this study, we tried to find molecular markers which can be used as phylogenetics markers in the molecular based classification in the Phoma genus.We employed a part of the translation elongation factor 1 subunit alpha (EF-1α=tef1) containing both int
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Caldwell, Michael W. "Ichthyosauria: A preliminary phylogenetic analysis of diapsid affinities." Neues Jahrbuch für Geologie und Paläontologie - Abhandlungen 200, no. 3 (1996): 361–86. http://dx.doi.org/10.1127/njgpa/200/1996/361.

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Dissertations / Theses on the topic "Phylogenetic analysis"

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Krig, Kåre. "Methods for phylogenetic analysis." Thesis, Linköping University, Department of Mathematics, 2010. http://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-56814.

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<p>In phylogenetic analysis one study the relationship between different species. By comparing DNA from two different species it is possible to get a numerical value representing the difference between the species. For a set of species, all pair-wise comparisons result in a dissimilarity matrix <em>d</em>.</p><p>In this thesis I present a few methods for constructing a phylogenetic tree from <em>d</em>. The common denominator for these methods is that they do not generate a tree, but instead give a connected graph. The resulting graph will be a tree, in areas where the data perfectly matches a
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Gottschling, Marc. "Phylogenetic analysis of selected Boraginales." [S.l. : s.n.], 2003. http://www.diss.fu-berlin.de/2003/30/index.html.

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Boudko, Ekaterina. "Phylogenetic Analysis of Subtribe Alopecurinae (Poaceae)." Thèse, Université d'Ottawa / University of Ottawa, 2014. http://hdl.handle.net/10393/30696.

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Subtribe Alopecurinae (Poeae, Poaceae) sensu lato‘s seven genera share interesting morphological similarities (dense spicate panicles and one-flowered spikelets) that were widely thought to have a common origin. However, recent molecular evidence for three of the genera has suggested that the subtribe may be polyphyletic. To test this, five DNA regions were sequenced and analyzed using phylogenetic methods. Results confirm that Alopecurinae s.l. as presently treated is polyphyletic and should be dissolved. Additionally, the genus Cornucopiae may be just another Alopecurus. Limnas and Pseudophl
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Williams, Annette Mary. "Phylogenetic analysis of the genus Streptococcus." Thesis, University of Reading, 1992. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.333267.

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Högnabba, Filip. "Phylogenetic studies of cyanobacterial lichens /." Helsinki : Yliopistopaino, 2007. http://ethesis.helsinki.fi.

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Yu, Junjie, and 于俊杰. "Phylogenetic tree reconstruction with protein linkage." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2012. http://hub.hku.hk/bib/B49618167.

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Phylogenetic tree reconstruction for a set of species is an important problem for understanding the evolutionary history of the species. Existing algorithms usually represent each species as a binary string with each bit indicating whether a particular gene/protein exists in the species. Given the topology of a phylogenetic tree with each leaf representing a species (a binary string of equal length) and each internal node representing the hypothetical ancestor, the Fitch-Hartigan algorithm and the Sankoff algorithm are two polynomial-time algorithms which assign binary strings to internal nod
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Paquette, Lance. "Phylogenetic analysis of the bryozoan Suborder Rhabdomesina." Diss., Connect to online resource - MSU authorized users, 2008.

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Powell, Robyn Faye. "Systematics, diversification and ecology of the Conophytum-clade (Ruschieae; Aizoaceae)." University of the Western Cape, 2016. http://hdl.handle.net/11394/5453.

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Philosophiae Doctor - PhD<br>The Ruschieae is the most diverse and speciose tribe within the large subfamily Ruschioideae (Aizoaceae), with approximately 71 genera and a distribution centred in the arid parts of the Greater Cape Floristic Region (GCFR) of South Africa. Recent phylogenetic analyses provided the first insights into generic relationships within the tribe, with a number of novel generic relationships discovered. The tribal phylogeny recovered 12 large clades, of which the Conophytum-clade was one the most morphologically diverse based on leaf and capsule characters. The Conophytum
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Park, Hyun Jung. "Large-scale analysis of phylogenetic search behavior." [College Station, Tex. : Texas A&M University, 2007. http://hdl.handle.net/1969.1/ETD-TAMU-1452.

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Msimanga, Wela Patrick. "Phylogenetic analysis of HIV-1 in Mpumalanga." Thesis, Stellenbosch : Stellenbosch University, 2013. http://hdl.handle.net/10019.1/80344.

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Thesis (MScMedSc)--Stellenbosch University, 2013.<br>The diversity of HIV-1 sequences derived from patients in Bushbuckridge, Mpumalanga, was investigated. The gag p24, pol p10 and p66/p51, pol p31 and env gp41 gene fragments from 51 patients were amplified and sequenced. Quality control on the sequences was carried out using the LANL QC online tool. HIV-1 subtype was assigned using the LANL QC (RIP), REGA and jpHMM online tools. Subtype for the pol gene fragment was further designated using the SCUEAL online tool. Most of the sequences, that is 89%, belonged to HIV-1 subtype C. LANL QC (RIP),
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Books on the topic "Phylogenetic analysis"

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J, Wiens John, ed. Phylogenetic analysis of morphological data. Smithsonian Institution Press, 2000.

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M, Miyamoto Michael, and Cracraft Joel, eds. Phylogenetic analysis of DNA sequences. Oxford University Press, 1991.

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1968-, Salemi Marco, Vandamme Anne-Mieke 1960-, and Lemey Philippe, eds. The phylogenetic handbook: A practical approach to phylogenetic analysis and hypothesis testing. 2nd ed. Cambridge University Press, 2009.

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Burns-Balogh, Pamela. A phylogenetic analysis of the Orchidaceae. Smithsonian Institution Press, 1986.

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1968-, Salemi Marco, Vandamme Anne-Mieke 1960-, and Lemey Philippe, eds. The phylogenetic handbook: A practical approach to phylogenetic analysis and hypothesis testing. 2nd ed. Cambridge University Press, 2009.

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Scotland, Robert W. Homology and systematics: Coding characters for phylogenetic analysis. Taylor & Francis, 2000.

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Coates, Kathryn. Phylogenetic analysis of some Enchytraeidae (Annelida: Oligochaeta): Parsimony analysis of structural characters. The author, 1987.

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O, Wiley E., ed. The Compleat cladist: A primer of phylogenetic procedures. Museum of Natural History, University of Kansas, 1991.

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Frost, Darrel R. A phylogenetic analysis and taxonomy of iguanian lizards (Reptilia:Squamata). University of Kansas, 1989.

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Weyer-Menkhoff, Jan. New quartet methods in phylogenetic combinatiorics. Universität Bielefeld, 2003.

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Book chapters on the topic "Phylogenetic analysis"

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Brinkman, Fiona S. L., and Detlef D. Leipe. "Phylogenetic Analysis." In Methods of Biochemical Analysis. John Wiley & Sons, Inc., 2002. http://dx.doi.org/10.1002/0471223921.ch14.

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Hershkovitz, Mark A., and Detlef D. Leipe. "Phylogenetic Analysis." In Methods of Biochemical Analysis. John Wiley & Sons, Inc., 2006. http://dx.doi.org/10.1002/9780470110607.ch9.

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Gupta, Manoj Kumar, Gayatri Gouda, S. Sabarinathan, et al. "Phylogenetic Analysis." In Bioinformatics in Rice Research. Springer Singapore, 2021. http://dx.doi.org/10.1007/978-981-16-3993-7_9.

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Akhøj, Morten, Xavier Pennec, and Stefan Sommer. "Tangent Phylogenetic PCA." In Image Analysis. Springer Nature Switzerland, 2023. http://dx.doi.org/10.1007/978-3-031-31438-4_6.

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Lamprecht, Anna-Lena. "Phylogenetic Analysis Workflows." In Lecture Notes in Computer Science. Springer Berlin Heidelberg, 2013. http://dx.doi.org/10.1007/978-3-642-45389-2_3.

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Torres Ortiz, Arturo, and Louis Grandjean. "Phylogenetic Survival Analysis." In Methods in Molecular Biology. Springer US, 2024. http://dx.doi.org/10.1007/978-1-0716-3981-8_12.

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Subbotin, Sergei A. "Phylogenetic analysis of DNA sequence data." In Techniques for work with plant and soil nematodes. CABI, 2021. http://dx.doi.org/10.1079/9781786391759.0265.

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Abstract The goal of phylogenetics is to construct relationships that are true representations of the evolutionary history of a group of organisms or genes. The history inferred from phylogenetic analysis is usually depicted as branching in tree-like diagrams or networks. In nematology, phylogenetic studies have been applied to resolve a wide range of questions dealing with improving classifications and testing evolution processes, such as co-evolution, biogeography and many others. There are several main steps involved in a phylogenetic study: (i) selection of ingroup and outgroup taxa for a
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Subbotin, Sergei A. "Phylogenetic analysis of DNA sequence data." In Techniques for work with plant and soil nematodes. CABI, 2021. http://dx.doi.org/10.1079/9781786391759.0015.

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Abstract The goal of phylogenetics is to construct relationships that are true representations of the evolutionary history of a group of organisms or genes. The history inferred from phylogenetic analysis is usually depicted as branching in tree-like diagrams or networks. In nematology, phylogenetic studies have been applied to resolve a wide range of questions dealing with improving classifications and testing evolution processes, such as co-evolution, biogeography and many others. There are several main steps involved in a phylogenetic study: (i) selection of ingroup and outgroup taxa for a
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Yashaswini, D. M., Andrea Michelle, U. Monisha, and Lokesh Ravi. "Phylogenetic Analysis of Actinomycetes." In Protocols of Actinomycetes. CRC Press, 2024. http://dx.doi.org/10.1201/9781003398400-38.

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Ramos-Sobrinho, Roberto. "Phylogenetic Analysis of Geminiviruses." In Methods in Molecular Biology. Springer US, 2025. https://doi.org/10.1007/978-1-0716-4454-6_10.

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Conference papers on the topic "Phylogenetic analysis"

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Bardhan, Shamik, Anjishnu Dey, Saanjali Mitra, et al. "Enhancing Phylogenetic Analysis: A New Genome Sequence Comparison Approach Using Bray-Curtis Dissimilarity Metric." In 2024 International Conference on Big Data Analytics in Bioinformatics (DABCon). IEEE, 2024. https://doi.org/10.1109/dabcon63472.2024.10919344.

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Sacramento, Cibele Vale, Ilze Santos Guimarães, Raíssa Raquel Oliveira Alves, et al. "Phylogenetic Analysis: An Auxiliary Tool For The Study Of Molecular Identification Of Plants." In X Simpósio Internacional de Inovação e Tecnologia. Editora Blucher, 2024. https://doi.org/10.5151/siintec2024-383503.

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Berry, Vincent, and David Bryant. "Faster reliable phylogenetic analysis." In the third annual international conference. ACM Press, 1999. http://dx.doi.org/10.1145/299432.299457.

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Blackburn, Michael B. "Phylogenetic analysis of insecticidalChromobacterium." In 2016 International Congress of Entomology. Entomological Society of America, 2016. http://dx.doi.org/10.1603/ice.2016.112826.

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Halgaswaththa, Thilini, Ajantha S. Atukorale, Mahen Jayawardena, and Jagathpriya Weerasena. "Neural network based phylogenetic analysis." In 2012 International Conference on Biomedical Engineering (ICoBE). IEEE, 2012. http://dx.doi.org/10.1109/icobe.2012.6178974.

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Lameri, Silvia, Paolo Bestagini, and Stefano Tubaro. "Video alignment for phylogenetic analysis." In 2016 24th European Signal Processing Conference (EUSIPCO). IEEE, 2016. http://dx.doi.org/10.1109/eusipco.2016.7760650.

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Lu, Wei, and Mike Hanrahan. "Phylogenetic analysis using Bayesian model." In 2014 Zone 1 Conference of the American Society for Engineering Education (ASEE Zone 1). IEEE, 2014. http://dx.doi.org/10.1109/aseezone1.2014.6820677.

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Das, Bilitcr, and Suat Toroman. "Deep Learning Based Phylogenetic Analysis." In 2020 5th International Conference on Computer Science and Engineering (UBMK). IEEE, 2020. http://dx.doi.org/10.1109/ubmk50275.2020.9219386.

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Rodrigues, Marcus Vinicius da Silva, João Paulo de Oliveira, Sandriele Aparecida Noriler, et al. "Genomic and phylogenetic analysis of plant growth-promoting bacteria." In Simpósio Brasileiro de Bioinformática. Sociedade Brasileira de Computação, 2024. https://doi.org/10.5753/bsb.2024.245593.

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This study aims to analyze the genomic characteristics of a plant growth-promoting bacterium, focusing on genome assembly and annotation, as well as phylogenetic and metabolic analyses. The primary objective is to identify and validate genes related to potassium and phosphate solubilization, as well as other primary and secondary metabolic pathways. The research involves the selection of a strain, cultivation, DNA extraction, sequencing, genome assembly and annotation, followed by phylogenetic and comparative analyses. The analyzed Bacillus nitratireducensLABIM48 strain shows high genomic cons
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Jilcott, Steven. "Scalable malware forensics using phylogenetic analysis." In 2015 IEEE International Symposium on Technologies for Homeland Security (HST). IEEE, 2015. http://dx.doi.org/10.1109/ths.2015.7225311.

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Reports on the topic "Phylogenetic analysis"

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Pace, Norman R. Phylogenetic Analysis of Marine Picoplankton Using rRNA Sequences. Defense Technical Information Center, 1989. http://dx.doi.org/10.21236/ada209595.

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Pace, Norman R. Phylogenetic Analysis of Marine Picoplankton Using Tau RNA Sequences. Defense Technical Information Center, 1991. http://dx.doi.org/10.21236/ada254451.

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Biffinger, Justin C., Lisa A. Fitzgerald, Emily R. Petersen, et al. Analysis of Fatty Acid and Growth Profiles in Ten Shewanella spp. to Associate Phylogenetic Relationships. Defense Technical Information Center, 2015. http://dx.doi.org/10.21236/ad1000479.

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Ksepka, Daniel, and Kristin Lamm. Systematics and Biodiversity Conservation. American Museum of Natural History, 2012. http://dx.doi.org/10.5531/cbc.ncep.0024.

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This exercise uses a fictional group of turtles to demonstrate how to implement cladistic methodology. Using a step-by-step guide, students work to find the most parsimonious cladogram for these fictional turtles. Part I involves delineating characters and building a most parsimonious cladogram based on the distribution of character states, while Part II presents additional challenges by introducing homoplasy. This exercise is designed to familiarize students with the concepts of phylogeny and cladistics, expand their skills of phylogenetic analysis, and use phylogenetic information to determi
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Pace, N. R. Phylogenetic analysis of hyperthermophilic natural populations using ribosomal RNA sequences. Final report, July 15, 1995--July 14, 1996. Office of Scientific and Technical Information (OSTI), 1997. http://dx.doi.org/10.2172/491420.

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Wu, Liyou, T. Y. Yi, Joy Van Nostrand, and Jizhong Zhou. Phylogenetic Analysis of Shewanella Strains by DNA Relatedness Derived from Whole Genome Microarray DNA-DNA Hybridization and Comparison with Other Methods. Office of Scientific and Technical Information (OSTI), 2010. http://dx.doi.org/10.2172/986917.

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Perk, Shimon, Maricarmen Garcia, Alexander Panshin, et al. Avian Influenza Virus H9N2: Characterization and Control Strategies. United States Department of Agriculture, 2007. http://dx.doi.org/10.32747/2007.7709882.bard.

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Control of Avian Influenza (AI) infection is a highly topical subject of major economicimportance for the worldwide poultry industry at the national level and for international trade.H9N2 viruses are endemic in poultry throughout Asia and the Middle East, causing major losses inproduction. Moreover, these viruses pose wider threats since they have been isolated from bothswine and humans. At the same time, study of the AI viruses affords an opportunity to explore anumber of problems of intriguing scientific interest. The overall goal of this project was to developa sound control strategy for av
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Mizrahi, Itzhak, and Bryan A. White. Uncovering rumen microbiome components shaping feed efficiency in dairy cows. United States Department of Agriculture, 2015. http://dx.doi.org/10.32747/2015.7600020.bard.

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Ruminants provide human society with high quality food from non-human-edible resources, but their emissions negatively impact the environment via greenhouse gas production. The rumen and its resident microorganisms dictate both processes. The overall goal of this project was to determine whether a causal relationship exists between the rumen microbiome and the host animal's physiology, and if so, to isolate and examine the specific determinants that enable this causality. To this end, we divided the project into three specific parts: (1) determining the feed efficiency of 200 milking cows, (2)
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Vakharia, Vikram, Shoshana Arad, Yonathan Zohar, Yacob Weinstein, Shamila Yusuff, and Arun Ammayappan. Development of Fish Edible Vaccines on the Yeast and Redmicroalgae Platforms. United States Department of Agriculture, 2013. http://dx.doi.org/10.32747/2013.7699839.bard.

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Betanodaviruses are causative agents of viral nervous necrosis (VNN), a devastating disease of cultured marine fish worldwide. Betanodavirus (BTN) genome is composed of two single-stranded, positive-sense RNA molecules. The larger genomic segment, RNA1 (3.1 kb), encodes the RNA-dependent RNA polymerase, while the smaller genomic segment, RNA 2 (1.4kb), encodes the coat protein. This structural protein is the host-protective antigen of VNN which assembles to form virus-like particles (VLPs). BTNs are classified into four genotypes, designated red-spotted grouper nervous necrosis virus (RGNNV),
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ตั้งกิจวานิชย์, พิสิฐ, อัญชลี อวิหิงสานนท์, วรพจน์ ทรัพย์ศิริสวัสดิ์ та ін. การศึกษาธรรมชาติการดำเนินโรคของการติดเชื้อไวรัสตับอักเสบซี ความสำคัญทางคลินิคปัจจัยที่เกี่ยวข้องในการรักษาการตอบสนองต่อการรักษา และผลข้างเคียงในผู้ติดเชื้อเอชไอวีที่มีการติดเชื้อไวรัสตับอักเสบซี. จุฬาลงกรณ์มหาวิทยาลัย, 2015. https://doi.org/10.58837/chula.res.2015.24.

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การศึกษานี้เป็นแบบไปข้างหน้าในผู้ป่วยที่ติดเชื้อเอชไอวีร่วมกับการติดเชื้อไวรัสตับอักเสบซีในพื้นที่กรุงเทพมหานคร ประเทศไทย โดยมีการตรวจสายพันธุ์ของไวรัสตับอักเสบซี ปริมาณไวรัสตับอักเสบซีในเลือด ยีน IL-288 และการเกิดพังผืดในตับด้วยเครื่องไฟโบรสแกน และได้แบ่งระยะของพังผืดในตับได้ดังนี้ ระยะแรก (Metavir F0-F1) เป็นระยะที่มีค่า stiffness น้อยกว่าหรือเท่ากับ 7.1 kPa ระยะที่ 2 หรือระยะปานกลาง (F2) เป็นระยะที่มีค่า stiffness ระหว่าง 7.2-9.4 kPa ระยะที่ 3 หรือระยะรุนแรง (F3) เป็นระยะที่มีค่า stiffness ระหว่าง 9.5-14 kPa และระยะสุดท้าย (F4) หรือ โรคตับแข็งที่มีค่า stiffness มากกว่า 14 kPa การตรวจประเมิน
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