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Doctoral Thesis
DOI
https://doi.org/10.11606/T.95.2012.tde-24092013-211625
Document
Author
Full name
Alexandre Rossi Paschoal
E-mail
Institute/School/College
Knowledge Area
Date of Defense
Published
São Paulo, 2012
Supervisor
Committee
Durham, Alan Mitchell (President)
Costa Filho, Ivan Gesteira
Fujita, André
Pereira, Tiago Campos
Vitorello, Claudia Barros Monteiro
Title in Portuguese
Bioinformática aplicada em RNomics: estratégias computacionais para caracterização de RNAs não-codificadores
Keywords in Portuguese
Bioinformática
Biologia Computacional dos RNAs
Hymenoptera
Non-Coding RNA
RNAs não-codifcadores
Abstract in Portuguese
A visao sobre o dogma central da biologia molecular passou por aperfeicoamentos na virada deste seculo. Muito se deve ao interesse por pesquisas feitas para compreensao do que ate entao eram regioes do genoma conhecidas como DNA Lixo. Neste contexto, projetos de transcriptoma, avancos em tecnologias de sequenciamento, bem como analises em bioinformatica, contribuiram para elucidar o que estava sendo transcrito. Tais regioes foram denominadas como RNAs nao-codificadores ou non-coding RNA (ncRNA) que eram transcritas, mas nao traduzidas em proteinas. Apesar da quantidade de metodos para o estudo in silico dos ncRNAs, existem lacunas a serem preenchidas nas pesquisas desta molecula, tais como: metodos de anotacao em geral, caracterizacao de novas classes e mecanismos alternativos de busca por similaridade de sequencia primaria. Alem disso, nao se havia uma ferramenta que reunisse num unico local as informacoes dos bancos de dados publicos de ncRNA disponiveis. Neste trabalho, buscou-se preencher tais lacunas, contribuindo para o desenvolvimento de metodos computacionais nas pesquisas em ncRNAs. Foram utilizados os genomas de Hymenoptera e Diptera como sistema biologico para aplicar e testar os metodos desenvolvidos.
Title in English
Bioinformatics in RNomics: Computational characterization of non-coding RNAs
Keywords in English
Bioinformatics
Non-coding RNAs
Abstract in English
The classical vision of the central dogma of molecular biology was not changes dramatic until the end of the 20th century. At this time the scientific communities were interesting to understand what have in the regions of the genome known as "Junk DNA". Transcriptome projects together with sequencing Technologies anda bioinformatics analysis help to elucidate that this transcripts were regions that do not coding proteins and maybe has function. These transcripts are called non-coding RNA (ncRNA). Although there are a lot of computational approaches to the in silico research of ncRNA, there is a gap of research about this molecule such: approaches to the general annotation of ncRNA; identification of new classes of ncRNA; and alternatives search mechanisms of ncRNA. Besides that, there are not any central repository of public non-coding RNA databases that could help search for the information about it. In this report, we fill this gap. We tried to contributing to the development of computational methods in research on ncRNAs. We also used the Hymenoptera and Diptera genomes as a biological system to apply and test our developed approaches.
 
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2011RNABIOL0205R.pdf (2.07 Mbytes)
Publishing Date
2013-09-25
 
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