Дисертації з теми "Comparative Genomics Analysis"
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Prakash, Amol. "Algorithms for comparative sequence analysis and comparative proteomics /." Thesis, Connect to this title online; UW restricted, 2006. http://hdl.handle.net/1773/6904.
Повний текст джерелаKaranam, Suresh Kumar. "Automation of comparative genomic promoter analysis of DNA microarray datasets." Thesis, Available online, Georgia Institute of Technology, 2004:, 2003. http://etd.gatech.edu/theses/available/etd-04062004-164658/unrestricted/karanam%5Fsuresh%5Fk%5F200312%5Fms.pdf.
Повний текст джерелаJordan, Gregory. "Analysis of alignment error and sitewise constraint in mammalian comparative genomics." Thesis, University of Cambridge, 2012. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.610693.
Повний текст джерелаJentzsch, Iris Miriam Vargas. "Comparative genomics of microsatellite abundance: a critical analysis of methods and definitions." Thesis, University of Canterbury. Biological Sciences, 2009. http://hdl.handle.net/10092/4282.
Повний текст джерелаChen, Lu. "Comparative and functional analysis of alternative splicing in eukaryotic genomes." Thesis, University of Bath, 2012. https://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.558885.
Повний текст джерелаNelson, A. D. L., E. S. Forsythe, U. K. Devisetty, D. S. Clausen, A. K. Haug-Batzell, A. M. R. Meldrum, M. R. Frank, E. Lyons, and M. A. Beilstein. "A Genomic Analysis of Factors Driving lincRNA Diversification: Lessons from Plants." GENETICS SOCIETY AMERICA, 2016. http://hdl.handle.net/10150/621708.
Повний текст джерелаJiang, Xiaofang. "Genomics and Transcriptomics Analysis of the Asian Malaria Mosquito Anopheles stephensi." Diss., Virginia Tech, 2016. http://hdl.handle.net/10919/79959.
Повний текст джерелаPh. D.
Motro, Yair. "Comparative genomics analysis and development of bioinformatics tools for two newly sequenced spirochaete species." Thesis, Motro, Yair (2008) Comparative genomics analysis and development of bioinformatics tools for two newly sequenced spirochaete species. PhD thesis, Murdoch University, 2008. https://researchrepository.murdoch.edu.au/id/eprint/41679/.
Повний текст джерелаSturgill, David Matthew. "Comparative Genome Analysis of Three Brucella spp. and a Data Model for Automated Multiple Genome Comparison." Thesis, Virginia Tech, 2003. http://hdl.handle.net/10919/10163.
Повний текст джерелаMaster of Science
McAdam, Paul R. "Population analysis of bacterial pathogens on distinct temporal and spatial scales." Thesis, University of Edinburgh, 2014. http://hdl.handle.net/1842/17852.
Повний текст джерелаPlass, Pórtulas Mireya 1982. "Comparative analysis of splicing in eukaryotes." Doctoral thesis, Universitat Pompeu Fabra, 2011. http://hdl.handle.net/10803/78124.
Повний текст джерелаSplicing is the mechanism by which introns are removed from the pre-mRNA to create a mature transcript. This process is performed by a macromolecular complex, the spliceosome, and involves the recognition of the splicing signals in the premRNA. These signals are not always perfectly recognized, which allows the production of different mature transcripts from a single pre-mRNA through a process called alternative splicing. This process can be regulated by specific protein factors or by other mechanisms that affect the recognition of the splicing signals, such as the secondary structure adopted by the pre-mRNA. In this thesis we have investigated the mechanisms of splicing regulation in eukaryotes using computational approaches. Moreover, we have also studied the relationship that exists between protein factors involved in splicing regulation and splicing signals, and how they have co-evolved across species. Finally, and considering the possibilities that alternative splicing can offer from the evolutionary point of view, he have also analyzed the impact of alternative splicing in gene evolution.
Plass, Pórtulas Mireya. "Comparative analysis of splicing in eukaryotes." Doctoral thesis, Universitat Pompeu Fabra, 2011. http://hdl.handle.net/10803/78124.
Повний текст джерелаSplicing is the mechanism by which introns are removed from the pre-mRNA to create a mature transcript. This process is performed by a macromolecular complex, the spliceosome, and involves the recognition of the splicing signals in the premRNA. These signals are not always perfectly recognized, which allows the production of different mature transcripts from a single pre-mRNA through a process called alternative splicing. This process can be regulated by specific protein factors or by other mechanisms that affect the recognition of the splicing signals, such as the secondary structure adopted by the pre-mRNA. In this thesis we have investigated the mechanisms of splicing regulation in eukaryotes using computational approaches. Moreover, we have also studied the relationship that exists between protein factors involved in splicing regulation and splicing signals, and how they have co-evolved across species. Finally, and considering the possibilities that alternative splicing can offer from the evolutionary point of view, he have also analyzed the impact of alternative splicing in gene evolution.
Stephan, Taylorlyn. "What's In A Neanderthal: A Comparative Analysis." Oberlin College Honors Theses / OhioLINK, 2017. http://rave.ohiolink.edu/etdc/view?acc_num=oberlin159282580067034.
Повний текст джерелаPage, Justin Thomas. "Bioinformatics for the Comparative Genomic Analysis of the Cotton (Gossypium) Polyploid Complex." BYU ScholarsArchive, 2015. https://scholarsarchive.byu.edu/etd/5557.
Повний текст джерелаau, kryan@ccg murdoch edu, and Karon Magdalene Leanne Ryan. "Variation of flour colour in Western Australia adapted wheat: comparative genomics, molecular markers and QTL analysis." Murdoch University, 2005. http://wwwlib.murdoch.edu.au/adt/browse/view/adt-MU20061019.130337.
Повний текст джерелаBonnardeaux, Yumiko Graciela. "Seed dormancy in barley (Hordeum vulgare L.) : comparative genomics, quantitative trait loci analysis and molecular genetics." University of Western Australia. Faculty of Natural and Agricultural Sciences, 2008. http://theses.library.uwa.edu.au/adt-WU2009.0019.
Повний текст джерелаRyan, Karon Magadalene Leanne. "Variation of flour colour in Western Australia adapted wheat : comparative genomics, molecular markers and QTL analysis /." Access via Murdoch University Digital Theses Project, 2005. http://wwwlib.murdoch.edu.au/adt/browse/view/adt-MU20061019.130337.
Повний текст джерелаRyan, Karon Magdalene Leanne. "Variation of flour colour in Western Australia adapted wheat: comparative genomics, molecular markers and QTL analysis." Thesis, Ryan, Karon Magdalene Leanne (2005) Variation of flour colour in Western Australia adapted wheat: comparative genomics, molecular markers and QTL analysis. PhD thesis, Murdoch University, 2005. https://researchrepository.murdoch.edu.au/id/eprint/285/.
Повний текст джерелаRyan, Karon Magdalene Leanne. "Variation of flour colour in Western Australia adapted wheat: comparative genomics, molecular markers and QTL analysis." Ryan, Karon Magdalene Leanne (2005) Variation of flour colour in Western Australia adapted wheat: comparative genomics, molecular markers and QTL analysis. PhD thesis, Murdoch University, 2005. http://researchrepository.murdoch.edu.au/285/.
Повний текст джерелаShoja, Valia. "A Broad Analysis of Tandemly Arrayed Genes in the Genomes of Human, Mouse, and Rat." Thesis, Virginia Tech, 2006. http://hdl.handle.net/10919/35800.
Повний текст джерелаMaster of Science
Wang, Jixin. "Bioinformatic analysis of chicken chemokines, chemokine receptors, and Toll-like receptor 21." Texas A&M University, 2006. http://hdl.handle.net/1969.1/4212.
Повний текст джерелаHåfström, Therese. "Genome closure and bioinformatic analysis of the parallel sequenced bacterium Brachyspira intermedia PWS/AT." Thesis, Uppsala universitet, Institutionen för biologisk grundutbildning, 2011. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-164335.
Повний текст джерелаTanaka, Sunao. "In silico analysis-based identification of the target residue of integrin α6 for metastasis inhibition of basal-like breast cancer". Kyoto University, 2020. http://hdl.handle.net/2433/253190.
Повний текст джерелаRaborn, R. Taylor. "Genome-wide analysis of transcription initiation and promoter architecture in eukaryotes." Diss., University of Iowa, 2012. https://ir.uiowa.edu/etd/4728.
Повний текст джерелаFindeiß, Sven. "Expanding the repertoire of bacterial (non-)coding RNAs." Doctoral thesis, Universitätsbibliothek Leipzig, 2011. http://nbn-resolving.de/urn:nbn:de:bsz:15-qucosa-67816.
Повний текст джерелаJean, Géraldine. "In silico methods for genome rearrangement analysis : from identification of common markers to ancestral reconstruction." Thesis, Bordeaux 1, 2008. http://www.theses.fr/2008BOR13704/document.
Повний текст джерелаAbstract
Valles, Ibáñez Guillem de 1986. "Evolutionary analysis of the genome load of loss-of-function variants and their contribution to immunodeficiencies." Doctoral thesis, Universitat Pompeu Fabra, 2016. http://hdl.handle.net/10803/565404.
Повний текст джерелаRecentment s'ha descobert que els genomes humans contenen unes inesperades ~100 variants que causen pèrdua de funció (LoF), ~20 de les quals es troben en homozigosi, sense causar cap efecte visible malgrat el seu potencial per esguerrar una proteïna. Això suggereix que algunes d'aquestes variants han de ser neutres, però també que una fracció podrien ser al·lels letals. En aquesta tesis estudiem les implicacions de les LoF variants en dos camps diferents: en la genòmica comparativa explorant per primer cop la carrega mutacional de les variants LoF segregant en 79 genomes que pertanyen a sis poblacions diferents de grans simis i els seus possibles efectes deleteris, i en el camp de la genòmica mèdica per la seva implicació, junt amb altres tipus de variants, en 36 pacients diagnosticats amb Immunodeficiència Comú Variable, una malaltia heterogènia amb varis gens implicats en la seva etiologia, utilitzant models monogènics i poligènics per estudiar aquesta deficiència d'anticossos.
Paschoal, Alexandre Rossi. "GINGA - Graphical Interface for Comparative Genome Analysis: o desenvolvimento de um sistema computacional de visualização gráfica para a análise comparativa de genomas de bactérias." Laboratório Nacional de Computação Científica, 2007. http://www.lncc.br/tdmc/tde_busca/arquivo.php?codArquivo=124.
Повний текст джерелаThis study aimed to develop a computational system applied to the comparative analysis of prokaryotic genomes in a graphical view. The system named GINGA Graphical Interface for comparative Genome Analysis was developed to analyse a draft genome sequence in comparison to a complete genome. The system shows the alignment between sequence of reads, contigs and scaffolds from partial sequenced genomes and the complete sequence of another genome and allows the identification shared and unique regions as well as rearrangements. GINGA is a web-based system developed using the PERL language to access a MySQL database where all the information regard to the comparative analysis is stored. The module of the interface to GD (Graphics Library) was used to help the construction of the graphical tool. The graphical view allows zoom in/out on the information on assembly, annotation and the organization of the sequences. Supplementary information can be accessed in the form of reports. GINGA system was used to compare the genomes of Leifsonia xyli subsp. cynodontis (Lxc draft genome sequence) and Leifsonia xyli subsp. xyli (Lxx complete genome sequence). The mail goal was to identify genetic differences that may help to understand the pathogeniciy of Lxx towards sugarcane. A total of 9.754 reads assembled in 1.064 contigs and 317 scaffolds produced 1.470.731 of no redundant bases of Lxc genome and were used in the analysis. GINGA allowed the identification of 206.320 bp (~20%) of Lxc specific sequences organized in contigs and 56.884 bp organized in 19 scaffolds (5,9%), around 1 milion bp aligned to Lxx genome and at least 6 large scale genomic rearrangements. These results were presented in a graphical interface and allowed to guide the partial genome sequencing, helping to decide which regions should be further sequenced and at the same time allowing the formulation of hypothesis related to important biological aspects of these microorganisms
Martin, Kyle. "Investigating the evolutionary impact of the teleost genome duplication through comparative genomics and phylogenetic analysis of homeobox genes in the Osteoglossomorpha." Thesis, University of Oxford, 2016. https://ora.ox.ac.uk/objects/uuid:7c2df1c9-0aa6-4a63-a38b-757b3f12f664.
Повний текст джерелаZhou, Bin. "Construction of a minimal tiling path across the euchromatic arms of sorghum chromosome 3 and comparative analysis with the rice chromosome 1 pseudomolecule." [College Station, Tex. : Texas A&M University, 2006. http://hdl.handle.net/1969.1/ETD-TAMU-1162.
Повний текст джерелаAbril, Ferrando Josep Francesc. "Comparative analysis of eukaryotic gene sequence features." Doctoral thesis, Universitat Pompeu Fabra, 2005. http://hdl.handle.net/10803/7108.
Повний текст джерелаl'increment del nombre de tècniques experimentals de les que es disposa,
permetrà obtenir el catàleg complet de les funcions cel.lulars de
diferents organismes, incloent-hi la nostra espècie. Aquest catàleg
definirà els fonaments sobre els que es podrà entendre millor com els
organismes funcionen a nivell molecular. Al mateix temps es tindran més
pistes sobre els canvis que estan associats amb les malalties. Per tant,
la seqüència en brut, tal i com s'obté dels projectes de seqüenciació de
genomes, no té cap valor sense les anàlisis i la subsegüent anotació de
les característiques que defineixen aquestes funcions. Aquesta tesi
presenta la nostra contribució en tres aspectes relacionats de
l'anotació dels gens en genomes eucariotes.
Primer, la comparació a nivell de seqüència entre els genomes humà i de
ratolí es va dur a terme mitjançant un protocol semi-automàtic. El
programa de predicció de gens SGP2 es va desenvolupar a partir
d'elements d'aquest protocol. El concepte al darrera de l'SGP2 és que
les regions de similaritat obtingudes amb el programa TBLASTX, es fan
servir per augmentar la puntuació dels exons predits pel programa
geneid, amb el que s obtenen conjunts d'anotacions més acurats
d'estructures gèniques. SGP2 té una especificitat que és prou gran com
per que es puguin validar experimentalment via RT-PCR. La validació de
llocs d'splicing emprant la tècnica de la RT-PCR és un bon exemple de
com la combinació d'aproximacions computacionals i experimentals
produeix millors resultats que per separat.
S'ha dut a terme l'anàlisi descriptiva a nivell de seqüència dels llocs
d'splicing obtinguts sobre un conjunt fiable de gens ortòlegs per humà,
ratolí, rata i pollastre. S'han explorat les diferències a nivell de
nucleòtid entre llocs U2 i U12, pel conjunt d'introns ortòlegs que se'n
deriva d'aquests gens. S'ha trobat que els senyals d'splicing ortòlegs
entre humà i rossegadors, així com entre rossegadors, estan més
conservats que els llocs no relacionats. Aquesta conservació addicional
pot ser explicada però a nivell de conservació basal dels introns.
D'altra banda, s'ha detectat més conservació de l'esperada entre llocs
d'splicing ortòlegs entre mamífers i pollastre. Els resultats obtinguts
també indiquen que les classes intròniques U2 i U12 han evolucionat
independentment des de l'ancestre comú dels mamífers i les aus. Tampoc
s'ha trobat cap cas convincent d'interconversió entre aquestes dues
classes en el conjunt d'introns ortòlegs generat, ni cap cas de
substitució entre els subtipus AT-AC i GT-AG d'introns U12. Al contrari,
el pas de GT-AG a GC-AG, i viceversa, en introns U2 no sembla ser inusual.
Finalment, s'han implementat una sèrie d'eines de visualització per
integrar anotacions obtingudes pels programes de predicció de gens i per
les anàlisis comparatives sobre genomes. Una d'aquestes eines, el
gff2ps, s'ha emprat en la cartografia dels genomes humà, de la mosca del
vinagre i del mosquit de la malària, entre d'altres. El programa
gff2aplot i els filtres associats, han facilitat la tasca d'integrar
anotacions de seqüència amb els resultats d'eines per la cerca
d'homologia, com ara el BLAST. S'ha adaptat també el concepte de
pictograma a l'anàlisi comparativa de llocs d splicing ortòlegs, amb el
desenvolupament del programa compi.
El aumento incesante del número de secuencias genómicas, junto con el
incremento del número de técnicas experimentales de las que se dispone,
permitirá la obtención del catálogo completo de las funciones celulares
de los diferentes organismos, incluida nuestra especie. Este catálogo
definirá las bases sobre las que se pueda entender mejor el
funcionamiento de los organismos a nivel molecular. Al mismo tiempo, se
obtendrán más pistas sobre los cambios asociados a enfermedades. Por
tanto, la secuencia en bruto, tal y como se obtiene en los proyectos de
secuenciación masiva, no tiene ningún valor sin los análisis y la
posterior anotación de las características que definen estas funciones.
Esta tesis presenta nuestra contribución a tres aspectos relacionados de
la anotación de los genes en genomas eucariotas.
Primero, la comparación a nivel de secuencia entre el genoma humano y el
de ratón se llevó a cabo mediante un protocolo semi-automático. El
programa de predicción de genes SGP2 se desarrolló a partir de elementos
de dicho protocolo. El concepto sobre el que se fundamenta el SGP2 es
que las regiones de similaridad obtenidas con el programa TBLASTX, se
utilizan para aumentar la puntuación de los exones predichos por el
programa geneid, con lo que se obtienen conjuntos más precisos de
anotaciones de estructuras génicas. SGP2 tiene una especificidad
suficiente como para validar esas anotaciones experimentalmente vía
RT-PCR. La validación de los sitios de splicing mediante el uso de la
técnica de la RT-PCR es un buen ejemplo de cómo la combinación de
aproximaciones computacionales y experimentales produce mejores
resultados que por separado.
Se ha llevado a cabo el análisis descriptivo a nivel de secuencia de los
sitios de splicing obtenidos sobre un conjunto fiable de genes ortólogos
para humano, ratón, rata y pollo. Se han explorado las diferencias a
nivel de nucleótido entre sitios U2 y U12 para el conjunto de intrones
ortólogos derivado de esos genes. Se ha visto que las señales de
splicing ortólogas entre humanos y roedores, así como entre roedores,
están más conservadas que las no ortólogas. Esta conservación puede ser
explicada en parte a nivel de conservación basal de los intrones. Por
otro lado, se ha detectado mayor conservación de la esperada entre
sitios de splicing ortólogos entre mamíferos y pollo. Los resultados
obtenidos indican también que las clases intrónicas U2 y U12 han
evolucionado independientemente desde el ancestro común de mamíferos y
aves. Tampoco se ha hallado ningún caso convincente de interconversión
entre estas dos clases en el conjunto de intrones ortólogos generado, ni
ningún caso de substitución entre los subtipos AT-AC y GT-AG en intrones
U12. Por el contrario, el paso de GT-AG a GC-AG, y viceversa, en
intrones U2 no parece ser inusual.
Finalmente, se han implementado una serie de herramientas de
visualización para integrar anotaciones obtenidas por los programas de
predicción de genes y por los análisis comparativos sobre genomas. Una
de estas herramientas, gff2ps, se ha utilizado para cartografiar los
genomas humano, de la mosca del vinagre y del mosquito de la malaria. El
programa gff2aplot y los filtros asociados, han facilitado la tarea de
integrar anotaciones a nivel de secuencia con los resultados obtenidos
por herramientas de búsqueda de homología, como BLAST. Se ha adaptado
también el concepto de pictograma al análisis comparativo de los sitios
de splicing ortólogos, con el desarrollo del programa compi.
The constantly increasing amount of available genome sequences, along
with an increasing number of experimental techniques, will help to
produce the complete catalog of cellular functions for different
organisms, including humans. Such a catalog will define the base from
which we will better understand how organisms work at the molecular
level. At the same time it will shed light on which changes are
associated with disease. Therefore, the raw sequence from genome
sequencing projects is worthless without the complete analysis and
further annotation of the genomic features that define those functions.
This dissertation presents our contribution to three related aspects of
gene annotation on eukaryotic genomes.
First, a comparison at sequence level of human and mouse genomes was
performed by developing a semi-automatic analysis pipeline. The SGP2
gene-finding tool was developed from procedures used in this pipeline.
The concept behind SGP2 is that similarity regions obtained by TBLASTX
are used to increase the score of exons predicted by geneid, in order to
produce a more accurate set of gene structures. SGP2 provides a
specificity that is high enough for its predictions to be experimentally
verified by RT-PCR. The RT-PCR validation of predicted splice junctions
also serves as example of how combined computational and experimental
approaches will yield the best results.
Then, we performed a descriptive analysis at sequence level of the
splice site signals from a reliable set of orthologous genes for human,
mouse, rat and chicken. We have explored the differences at nucleotide
sequence level between U2 and U12 for the set of orthologous introns
derived from those genes. We found that orthologous splice signals
between human and rodents and within rodents are more conserved than
unrelated splice sites. However, additional conservation can be
explained mostly by background intron conservation. Additional
conservation over background is detectable in orthologous mammalian and
chicken splice sites. Our results also indicate that the U2 and U12
intron classes have evolved independently since the split of mammals and
birds. We found neither convincing case of interconversion between these
two classes in our sets of orthologous introns, nor any single case of
switching between AT-AC and GT-AG subtypes within U12 introns. In
contrast, switching between GT-AG and GC-AG U2 subtypes does not appear
to be unusual.
Finally, we implemented visualization tools to integrate annotation
features for gene- finding and comparative analyses. One of those tools,
gff2ps, was used to draw the whole genome maps for human, fruitfly and
mosquito. gff2aplot and the accompanying parsers facilitate the task of
integrating sequence annotations with the output of homologybased tools,
like BLAST.We have also adapted the concept of pictograms to the
comparative analysis of orthologous splice sites, by developing compi.
Shaw, Daniel 1993. "Streamlining minimal bacterial genomes : Analysis of the pan bacterial essential genome, and a novel strategy for random genome deletions in Mycoplasma pneumoniae." Doctoral thesis, Universitat Pompeu Fabra, 2019. http://hdl.handle.net/10803/668244.
Повний текст джерелаDiscernir cuales son los componentes que podrían constituir una célula mínima es un desafío clave para la Biología Sintética. En esta tesis, se presentan dos nuevas herramientas para facilitar esta tarea. (i) Una nueva metodología para minimizar el genoma de Mycoplasma pneumoniae mediante la deleción aleatoria de material genético. Esta técnica combina el sistema Cre/lox con la mutagénesis aleatoria mediada por transposones para generar poblaciones bacterianas en las que los sitios lox están distribuidos de manera aleatoria a lo largo de su genoma. Esto permite la generación de poblaciones bacterianas en las que el tamaño de las deleciones efectuadas varia desde 50 pb hasta 25 kb. (ii) El primer análisis a gran escala de la esencialidad genética en múltiples especies bacterianas, y cómo la composición y función del grupo de genes esenciales de una bacteria cambia en función de la complejidad de su genoma.
Brandström, Mikael. "Bioinformatic Analysis of Mutation and Selection in the Vertebrate Non-coding Genome." Doctoral thesis, Uppsala University, Department of Evolution, Genomics and Systematics, 2007. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-8240.
Повний текст джерелаThe majority of the vertebrate genome sequence is not coding for proteins. In recent years, the evolution of this noncoding fraction of the genome has gained interest. These studies have been greatly facilitated by the availability of full genome sequences. The aim of this thesis is to study evolution of the noncoding vertebrate genome through bioinformatic analysis of large-scale genomic datasets.
In a first analysis we addressed the use of conservation of sequence between highly diverged genomes to infer function. We provided evidence for a turnover of the patterns of negative selection. Hence, measures of constraint based on comparisons of diverged genomes might underestimate the functional proportion of the genome.
In the following analyses we focused on length variation as found in small-scale insertion and deletion (indel) polymorphisms and microsatellites. For indels in chicken, replication slippage is a likely mutation mechanism, as a large proportion of the indels are parts of tandem-duplicates. Using a set of microsatellite polymorphisms in chicken, where we avoid ascertainment bias, we showed that polymorphism is positively correlated with microsatellite length and AT-content. Furthermore, interruptions in the microsatellite sequence decrease the levels of polymorphism.
We also analysed the association between microsatellite polymorphism and recombination in the human genome. Here we found increased levels of microsatellite polymorphism in human recombination hotspots and also similar increases in the frequencies of single nucleotide polymorphisms (SNPs) and indels. This points towards natural selection shaping the levels of variation. Alternatively, recombination is mutagenic for all three kinds of polymorphisms.
Finally, I present the program ILAPlot. It is a tool for visualisation, exploration and data extraction based on BLAST.
Our combined results highlight the intricate connections between evolutionary phenomena. It also emphasises the importance of length variability in genome evolution, as well as the gradual difference between indels and microsatellites.
Zhong, Cuncong. "Computational Methods for Comparative Non-coding RNA Analysis: From Structural Motif Identification to Genome-wide Functional Classification." Doctoral diss., University of Central Florida, 2013. http://digital.library.ucf.edu/cdm/ref/collection/ETD/id/5894.
Повний текст джерелаPh.D.
Doctorate
Computer Science
Engineering and Computer Science
Computer Science
Cragun, Deborah Le. "Universal Tumor Screening for Lynch Syndrome: Identification of system-level implementation factors influencing patient reach." Scholar Commons, 2013. http://scholarcommons.usf.edu/etd/4658.
Повний текст джерелаWilkinson, Tracey Nicole. "Evolutionary analysis of the relaxin peptide family and their receptors." Connect to thesis, 2006. http://repository.unimelb.edu.au/10187/2315.
Повний текст джерелаUllrich, Sophie. "Genomic and transcriptomic characterization of novel iron oxidizing bacteria of the genus “Ferrovum“." Doctoral thesis, Technische Universitaet Bergakademie Freiberg Universitaetsbibliothek "Georgius Agricola", 2016. http://nbn-resolving.de/urn:nbn:de:bsz:105-qucosa-205981.
Повний текст джерелаSahlqvist, Anna-Stina. "Genetic Characterization of Chicken Models for Autoimmune Disease." Doctoral thesis, Uppsala universitet, Autoimmunitet, 2012. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-182843.
Повний текст джерелаSeibert, Sara Rose. "Host-parasite interactions: comparative analyses of population genomics, disease-associated genomic regions, and host use." Wright State University / OhioLINK, 2020. http://rave.ohiolink.edu/etdc/view?acc_num=wright1590585260282244.
Повний текст джерелаHerzog, Rebecca [Verfasser]. "Global change genomics - comparative genomic analyses on environmental associated speciation and adaptation processes in Odonata / Rebecca Herzog." Hannover : Gottfried Wilhelm Leibniz Universität, 2021. http://d-nb.info/1238221785/34.
Повний текст джерелаSoares, Siomar de Castro. "Pan-genomic analyses of Corynebacterium pseudotuberculosis and characterization of the biovars ovis and equi through comparative genomics." Universidade Federal de Minas Gerais, 2013. http://hdl.handle.net/1843/BUOS-9B8JTZ.
Повний текст джерелаPethick, Florence Elizabeth. "Comparative genomic analyses of Corynebacterium pseudotuberculosis." Thesis, University of Glasgow, 2013. http://theses.gla.ac.uk/4287/.
Повний текст джерелаWilson, Ian. "Comparative genomic analyses of Entamoeba species." Thesis, University of Liverpool, 2014. http://livrepository.liverpool.ac.uk/2007270/.
Повний текст джерелаMoreno, Luisa Zanolli. "Caracterização e análise comparativa de genomas de estirpes de Leptospira isoladas no Brasil." Universidade de São Paulo, 2017. http://www.teses.usp.br/teses/disponiveis/10/10134/tde-03082017-155135/.
Повний текст джерелаThe present study aimed to characterize the genome of Leptospira strains isolated in Brazil and to perform their comparative analysis with GenBank available genomes. 17 strains isolated from distinct species, in different regions of Brazil, from 1998 to 2012 were characterized. These were previously typified through 16S rRNA sequencing and microscopic agglutination into six species (L. interrogans, L. santarosai, L. inadai, L. kirschneri, L. borgpetersenii and L. noguchii) and over eight serogroups. Illumina™ MiSeq sequencing and genome assembly with ab initio algorithm were performed. For ordering and annotation, reference genomes of the respective species were used. The in silico analysis of Multilocus Sequencing Typing (MLST) was performed for the three current Leptospira protocols. The comparative genomic analysis, including wgSNP, was performed intra-species evaluating the existing variations between the serogroups of the studied Leptospira species. The L. interrogans strains presented MLST results congruent with their previous identification. In the case of L. kirschneri, only one strain presented new alleles in the three MLST protocols and distanced itself from the other Brazilian L. kirschneri strains. The L. santarosai strains, as well as L. borgpetersenii and L. noguchii, presented new alleles and/or allelic profiles for at least two of the current MLST protocols, and still stand out in a separate group of Brazilian origin. Even though the L. interrogans genomes presented high identity and synteny with serovar Copenhageni reference, they also presented regions of difference between the respective serogroups. Serogroups Australis and Serjoe genomes stood out for having insertions and deletions, respectively, mainly in chromosome 2. The L. borgpetersenii genome also presented great variation of composition, as expected for the species, which is provided by insertion sequences and transposition of mobile elements. The serogroups Canicola and Pomona presented higher proximity in the wgSNP analysis. Two plasmids were also identified in the serogroup Canicola genomes with high identity to the plasmids described in the Chinese strain of the same serovar. In the L. kirschneri species, the strain 47 (M36/05) presented high identity and synteny with the serovar Mozdok genomes, as expected, including the Brazilian strain of human origin. The strain 55 (M110/06) differed from other L. kirschneri genomes in both MLST and wgSNP. The Brazilian L. inadai genome presented high identity to the American reference of human origin including the presence of bacteriophage specific for the species. The distinction of the Brazilian L. santarosai strains in the MLST was also evidenced in the comparative analysis and in the wgSNP, and the strain 68 (M52 / 8-19), which showed no reactivity to the tested serogroups, also differs from the others reaffirming the possibility of a new serogroup/serovar. Therefore, the genomic study allowed the identification of particularities of Brazilian Leptospira strains, including the existence of extrachromosomal elements, proximity to strains of human origin indicating a greater risk for public health, in addition to the possibility of a new L. santarosai serogroup.
Waterhouse, Robert Michael. "Computational comparative analysis of insect genomes." Thesis, Imperial College London, 2009. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.512005.
Повний текст джерелаDehal, Paramvir Singh. "Comparative evolutionary analysis of chordate genomes /." For electronic version search Digital dissertations database. Restricted to UC campuses. Access is free to UC campus dissertations, 2003. http://uclibs.org/PID/11984.
Повний текст джерелаWasbrough, Elizabeth. "Comparative genomic and evolutionary analysis of sperm proteomes." Thesis, University of Bath, 2011. https://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.538135.
Повний текст джерелаAnastasi, Elisa. "Comparative genomics and emerging antibiotic resistance in Rhodococcus equi." Thesis, University of Edinburgh, 2016. http://hdl.handle.net/1842/25887.
Повний текст джерелаItou, Junji. "Functional and comparative genomics analyses of pmp22 in medaka fish." Kyoto University, 2009. http://hdl.handle.net/2433/126464.
Повний текст джерелаOngen, Halit. "Comparative Genomic Analysis of Susceptibility to Coronary Artery Disease." Thesis, University of Oxford, 2008. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.514975.
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