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| Registros recuperados : 47 | |
| 4. |  | LOURENÇO, R. T.; CUNHA, A. F.; TSUKUMO, F.; PEREIRA, G. A. G.; GRATTAPAGLIA, D. Análise da composição e organização do genoma de Eucalyptus grandis com base em sequenciamento "shotgun" por amostragem ("sample sequencing"). In: ENCONTRO DO TALENTO ESTUDANTIL DA EMBRAPA RECURSOS GENÉTICOS E BIOTECNOLOGIA, 7., 2002, Brasília, DF. Anais: resumos dos trabalhos. Brasília, DF: Embrapa Recursos Genéticos e Biotecnologia, 2002. p. 30.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
|    |
| 6. | | ANDRADE, A. C.; VIEIRA, L. G. E.; COLOMBO, C. A.; PEREIRA, G. A. G. Coffee functional genomics in Brazil. In: INTERNATIONAL CONFERENCE ON COFFEE SCIENCE, 21., 2006, Montpellier, France. Table of contents... Montpellier, France: Association for Science and Information on Coffee, 2006.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 7. | | ANDRADE, A. C.; VIEIRA, L. G. E.; COLOMBO, C. A.; PEREIRA, G. A. G. Coffee functional genomics in Brazil. INTERNATIONAL CONFERENCE ON COFFEE SCIENCE, 21., 2006, Montpellier, France. Table of contents... Montpellier, France: Association for Science and Information on Coffee, 2006.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 8. | | BATISTA, A. R. S.; LOURENÇO, R. T.; PEREIRA, G. A. G.; GRATTAPAGLIA, D. Novos microssatélltes para eucalyptus a partir de clones "shotgun". ENCONTRO DO TALENTO ESTUDANTIL DA EMBRAPA RECURSOS GENETICOS E BIOTECNOLOGIA, 8., 2003, Brasília, DF. Anais: resumos dos trabalhos. Brasília, DF: Embrapa Recursos Genéticos e Biotecnologia, 2003. p. 79| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 9. | | LOURENÇO, R. T.; PAPPAS, G. J.; CUNHA, A. F.; PEREIRA, G. A. G.; GRATTAPAGLIA, D. Estrutura genômica de três megabases de dna genômico "shotgun" de eucalyptus: conteúdo nucleotídico, seouências repetitivas e genes. ENCONTRO DO TALENTO ESTUDANTIL DA EMBRAPA RECURSOS GENETICOS E BIOTECNOLOGIA, 8., 2003, Brasília, DF. Anais: resumos dos trabalhos. Brasília, DF: Embrapa Recursos Genéticos e Biotecnologia, 2003. p. 74| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 10. | | IVAMOTO, S. T.; REIS JUNIOR, O.; SAKURAY, L. M.; CARAZZOLLE, M. F.; PEREIRA, G. A. G.; PEREIRA, L. F. P. Transcriptome analysis in leaves, flowers and initial fruit development of Coffea arabica L. In: PLANT & ANIMAL GENOME CONFERENCE INTERNATIONAL, 23., 2015, San Diego, CA. Poster..., 2015.| Biblioteca(s): Embrapa Café. |
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| 11. | | NASCIMENTO, L. C. do; COSTA, G. G. L.; BINNECK, E.; PEREIRA, G. A. G.; CARAZZOLLE, M. F. A web-based bioinformatics interface applied to the GENOSOJA Project: databases and pipelines. Genetics and Molecular Biology, Ribeirão Preto, v. 35, n. 1, suppl., p. 203-211, May 2012.| Biblioteca(s): Embrapa Soja. |
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| 12. | | SALAZAR, M. S.; CAMARGO, E. L. O.; DECKMANN, A. C.; CARAZZOLLE, M. F.; LEPIKSON NETO, J.; MEDRANO, F. J.; GRATTAPAGLIA, D.; PEREIRA, G. A. G. Análise do genoma de espécies de eucalipto visando a identificação de genes/metabolismos chave para o incremento da sua produtividade para orientar o seu melhoramento. In: CONGRESSO BRASILEIRO DE GENÉTICA, 54., 2008, Salvador. Resumos... Salvador: SBG, 2008. p. 240. 1 CD-ROM.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 13. | | VIDAL, R.; LEROY, L.; BELLIS, F. de; POT, D.; RODRIGUES, G. C.; PEREIRA, G. A. G.; ANDRADE, A. C.; MARRACCINI, P. High-throughput sequencing of cDNA extracted from meristems of Coffea arabica cv. Rubi and Iapar59 submitted to different water field conditions. In: INTERNATIONAL CONFERENCE ON COFFEE SCIENCE, 2010, Bali. Preceedings... [S.l]: Association for Science and Information on Coee (ASIC), 2010. p. 708-712| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 14. | | VIDAL, R. O.; ALEKCEVETCH, J. C.; LEROY, T.; DE BELLIS, F.; POT, D.; RODRIGUES, G. C.; CARAZZOLLE, M. F.; PEREIRA, G. A. G.; ANDRADE, A. C.; MARRACCINI, P. High-through put sequencing of CDNA shows that CV. Rubi and IAPAR59 of Coffea Arabica have different molecular response to water privation. In: INTERNATIONAL CONFERENCE ON COFFEE SCIENCE, 2012, San José. Proceedings... [S.l]: Association for Science and Information on Coffee (ASIC), 2012. p. 61.| Biblioteca(s): Embrapa Agricultura Digital; Embrapa Recursos Genéticos e Biotecnologia. |
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| 15. | | ROJAS, T. C. G.; MALUTA, R. P.; PARIZZI, L. P.; KOENIGKAN, L. V.; YANG, J.; YU, J.; PEREIRA, G. A. G.; SILVEIRA, W. D. da. Genome sequences of avian pathogenic Escherichia coli strains isolated from Brazilian commercial poultry. Genome Announcements, v. 1, n. 2, p. 1-2, Mar./Apr. 2013. Article e00110-13.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 16. | | YUYAMA, P. M.; REIS JUNIOR, O.; IVAMOTO, S. T.; DOMINGUES, D. S.; CARAZZOLLE, M. F.; PEREIRA, G. A. G.; CHARMETANT, P.; LEROY, T.; PEREIRA, L. F. P. Transcriptome analysis in Coffea eugenioides, an Arabica coffee ancestor, reveals differentially expressed genes inleaves and fruits. Molecular Genetics and Genomics, v. 291, n. 1, p. 323-336. 2016| Biblioteca(s): Embrapa Café. |
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| 17. | | SOARES-CAVALCANTI, N. M.; BELARMINO, L. C.; KIDO, E. A.; PANDOLFI, V.; MARCELINO-GUIMARÃES, F. C.; RODRIGUES, F. A.; PEREIRA, G. A. G.; BENKO-ISEPPON, A. M. Overall picture of expressed Heat Shock Factors in Glycine max, Lotus japonicus and Medicago truncatula. Genetics and Molecular Biology, Ribeirão Preto, v. 35, n. 1, suppl., p. 247-259, May 2012.| Biblioteca(s): Embrapa Soja. |
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| 18. | | LOPES, F. R.; ANDRADE, A. C.; MARRACCINI, P.; TEIXEIRA, J. B.; CARAZZOLLE, M. F.; PEREIRA, G. A. G.; CARARETO, C. M. A. Evolutionary changes of the gene expression pattern mediated by exonized transposable element sequences in coffee genomes. In: INTERNATIONAL CONFERENCE ON COFFEE SCIENCE, 2010, Bali. Preceedings... [S.l]: Association for Science and Information on Coee (ASIC), 2010. p. 775-779| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 19. | | CARAZZOLLE, M. F.; RABELLO, F. R.; MARTINS, N. F.; SOUZA, A. A. de; AMARAL, A. M. do; FREITAS-ASTUA, J.; PEREIRA, G. A. G.; MACHADO, M. A.; MEHTA, A. Identification of defence-related genes expressed in coffee and citrus during infection by Xylella fastidiosa. European Journal of Plant Pathology , v. 130, n. 4, p. 529-540, 2011.| Biblioteca(s): Embrapa Mandioca e Fruticultura; Embrapa Recursos Genéticos e Biotecnologia. |
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| 20. | | NASCIMENTO, L. C.; VIDAL R. O.; MONDEGO, J. M. C.; COSTA, G. G. L.; JUNIOR, O. R.; RODRIGUES, F.; NEPOMUCENO, A. L.; MARCELINO-GUIMARÃES, F. C.; ABDELNOOR, R. V.; PEREIRA, G. A. G.; CARAZZOLLE, M. F. Genotipagem de cultivares brasileiros de soja através da detecção de SNPs. In: CONGRESSO BRASILEIRO DE SOJA, 6., 2012, Cuiabá. Soja: integração nacional e desenvolvimento sustentável: resumos. Brasília, DF: Embrapa, 2012. p. 15, res. 8.| Biblioteca(s): Embrapa Soja. |
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| Registros recuperados : 47 | |
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 | Acesso ao texto completo restrito à biblioteca da Embrapa Agricultura Digital. Para informações adicionais entre em contato com cnptia.biblioteca@embrapa.br. |
Registro Completo
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Biblioteca(s): |
Embrapa Agricultura Digital. |
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Data corrente: |
02/12/2010 |
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Data da última atualização: |
15/01/2020 |
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Tipo da produção científica: |
Resumo em Anais de Congresso |
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Autoria: |
REIS, O.; COSTA, G. G. L.; HERAI, R. H.; CARAZZOLLE, M. F.; PEREIRA, G. A. G. |
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Afiliação: |
LGE/UNICAMP; LGE/UNICAMP; LGE/UNICAMP, LBA/CNPTIA; LGE, CENAPAD/UNICAMP; LGE/UNICAMP. |
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Título: |
RNA-seq: the need for biological replicates. |
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Ano de publicação: |
2010 |
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Fonte/Imprenta: |
In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.], 2010. |
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Páginas: |
p. 194. |
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Idioma: |
Inglês |
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Notas: |
AB3C X-meeting 2010. |
|
Conteúdo: |
RNA-seq provides a way to analyze entire transcriptomes with deep coverage and base level resolution and it is gradually replacing microarrays for gene expression analyses. In the past few years, many statistical methods have been developed to improve the detection of differentially expressed genes from RNA-seq. However the replacing of microarrays by RNA-seq has been often accompanied by decline in experimental design quality, as many groups working with RNA-seq are not using biological replicates. For any statistical inference it is necessary replication, for example, if you ?nd a couple of genes that are upregulated in the treatment in comparison to the value in control, without replication you can not know if that is effect of random variability or an actual effect of the treatment. Furthermore, without biological replicates it is too dif?cult to estimate the sample variation. The authors of EdgeR and DESeq propose a similar method to work without replicates. They propose an approach to infer an upper limit for the sample variance that uses both treatment and control as they were biological replicates. If it is expected that the most genes are not differently regulated, the calculated sample variance should be close to real sample variance. In this work, we evaluate the effect of working with and without biological replicates on the list of differentially expressed genes obtained. We show that the use of proper biological replicates is important to get good sensitivity to detect differentially expressed genes, showing that the replacement of microarrays by RNA-seq does not justify the use of an inferior experimental design. MenosRNA-seq provides a way to analyze entire transcriptomes with deep coverage and base level resolution and it is gradually replacing microarrays for gene expression analyses. In the past few years, many statistical methods have been developed to improve the detection of differentially expressed genes from RNA-seq. However the replacing of microarrays by RNA-seq has been often accompanied by decline in experimental design quality, as many groups working with RNA-seq are not using biological replicates. For any statistical inference it is necessary replication, for example, if you ?nd a couple of genes that are upregulated in the treatment in comparison to the value in control, without replication you can not know if that is effect of random variability or an actual effect of the treatment. Furthermore, without biological replicates it is too dif?cult to estimate the sample variation. The authors of EdgeR and DESeq propose a similar method to work without replicates. They propose an approach to infer an upper limit for the sample variance that uses both treatment and control as they were biological replicates. If it is expected that the most genes are not differently regulated, the calculated sample variance should be close to real sample variance. In this work, we evaluate the effect of working with and without biological replicates on the list of differentially expressed genes obtained. We show that the use of proper biological replicates is important to get good sensitivity t... Mostrar Tudo |
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Palavras-Chave: |
Repetições biológicas; RNA sequences; Sequências de RNA. |
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Thesaurus NAL: |
Sequence analysis. |
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Categoria do assunto: |
-- |
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Marc: |
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100 1 $aREIS, O.
245 $aRNA-seq$bthe need for biological replicates.$h[electronic resource]
260 $aIn: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.]$c2010
300 $ap. 194.
500 $aAB3C X-meeting 2010.
520 $aRNA-seq provides a way to analyze entire transcriptomes with deep coverage and base level resolution and it is gradually replacing microarrays for gene expression analyses. In the past few years, many statistical methods have been developed to improve the detection of differentially expressed genes from RNA-seq. However the replacing of microarrays by RNA-seq has been often accompanied by decline in experimental design quality, as many groups working with RNA-seq are not using biological replicates. For any statistical inference it is necessary replication, for example, if you ?nd a couple of genes that are upregulated in the treatment in comparison to the value in control, without replication you can not know if that is effect of random variability or an actual effect of the treatment. Furthermore, without biological replicates it is too dif?cult to estimate the sample variation. The authors of EdgeR and DESeq propose a similar method to work without replicates. They propose an approach to infer an upper limit for the sample variance that uses both treatment and control as they were biological replicates. If it is expected that the most genes are not differently regulated, the calculated sample variance should be close to real sample variance. In this work, we evaluate the effect of working with and without biological replicates on the list of differentially expressed genes obtained. We show that the use of proper biological replicates is important to get good sensitivity to detect differentially expressed genes, showing that the replacement of microarrays by RNA-seq does not justify the use of an inferior experimental design.
650 $aSequence analysis
653 $aRepetições biológicas
653 $aRNA sequences
653 $aSequências de RNA
700 1 $aCOSTA, G. G. L.
700 1 $aHERAI, R. H.
700 1 $aCARAZZOLLE, M. F.
700 1 $aPEREIRA, G. A. G.
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