ANÁLISE TRANSCRIPTÔMICA EM EXPERIMENTOS DE RNA-SEQ COM E SEM REPLICATAS BIOLÓGICAS: UMA REVISÃO
The discovery of nucleic acids opened new frontiers of knowledge, enabling researchers to access an enormous amount of data, through large-scale sequencing methodologies and bioinformatics tools. Amongst these new possibilities, RNA-Seq has been used to identify and quantify RNA molecules. To obtain...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | Portuguese |
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Universidade Federal Rural da Amazônia (UFRA)
2021-01-01
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| Series: | Revista de Ciências Agrárias |
| Subjects: | |
| Online Access: | https://periodicos.ufra.edu.br/index.php/ajaes/article/view/3319 |
| _version_ | 1818564024681365504 |
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| author | Mayla Daiane Correa Molinari Renata Fuganti-Pagliarini Jéssika Angelotti Mendonça Daniel de Amorim Barobosa Daniel Rockenbach Marin Liliane Mertz-Henning Alexandre Lima Nepomuceno |
| author_facet | Mayla Daiane Correa Molinari Renata Fuganti-Pagliarini Jéssika Angelotti Mendonça Daniel de Amorim Barobosa Daniel Rockenbach Marin Liliane Mertz-Henning Alexandre Lima Nepomuceno |
| author_sort | Mayla Daiane Correa Molinari |
| collection | DOAJ |
| description | The discovery of nucleic acids opened new frontiers of knowledge, enabling researchers to access an enormous amount of data, through large-scale sequencing methodologies and bioinformatics tools. Amongst these new possibilities, RNA-Seq has been used to identify and quantify RNA molecules. To obtain more accurate biological responses from RNA-Seq data some questions should be considered such as experimental design, type of synthesized library, size of the fragments generated, number of biological replicates, depth, and coverage of the sequencing, species genome availability and, the choice of software to properly perform the computational analyzes. Accurate bioinformatics analyzes allow the selection of genes with a lower error rate, increasing the validation assertiveness via RT-qPCR and thus, reducing costs. The objective of this review was to present the analysis stages of RNA-Seq data, from experimental design to systems biology, considering relevant points, as well as to pointed out some software currently available to carry these analyzes out. Besides, with this review, we aimed to help the academic community to understand all steps and biases involved in RNA-Seq data analysis, from experiments with or without biological replicates. |
| first_indexed | 2024-12-14T01:23:58Z |
| format | Article |
| id | doaj.art-30883ba929e84c0f833e2b81bfa0378b |
| institution | Directory Open Access Journal |
| issn | 2177-8760 2177-8760 |
| language | Portuguese |
| last_indexed | 2024-12-14T01:23:58Z |
| publishDate | 2021-01-01 |
| publisher | Universidade Federal Rural da Amazônia (UFRA) |
| record_format | Article |
| series | Revista de Ciências Agrárias |
| spelling | doaj.art-30883ba929e84c0f833e2b81bfa0378b2022-12-21T23:22:17ZporUniversidade Federal Rural da Amazônia (UFRA)Revista de Ciências Agrárias2177-87602177-87602021-01-0164ANÁLISE TRANSCRIPTÔMICA EM EXPERIMENTOS DE RNA-SEQ COM E SEM REPLICATAS BIOLÓGICAS: UMA REVISÃOMayla Daiane Correa Molinari0https://orcid.org/0000-0002-9135-0422Renata Fuganti-Pagliarini1https://orcid.org/0000-0001-9282-2826Jéssika Angelotti Mendonça2https://orcid.org/0000-0002-8147-5547Daniel de Amorim Barobosa3https://orcid.org/0000-0002-0071-1895Daniel Rockenbach Marin4https://orcid.org/0000-0002-4681-1832Liliane Mertz-Henning5https://orcid.org/0000-0001-7622-0649Alexandre Lima Nepomuceno6https://orcid.org/0000-0003-2012-6201EMBRAPA SOJA/UELEmbrapa SojaEmbrapa SojaEmbrapa SojaEmbrapa SojaEmbrapa SojaEmbrapa SojaThe discovery of nucleic acids opened new frontiers of knowledge, enabling researchers to access an enormous amount of data, through large-scale sequencing methodologies and bioinformatics tools. Amongst these new possibilities, RNA-Seq has been used to identify and quantify RNA molecules. To obtain more accurate biological responses from RNA-Seq data some questions should be considered such as experimental design, type of synthesized library, size of the fragments generated, number of biological replicates, depth, and coverage of the sequencing, species genome availability and, the choice of software to properly perform the computational analyzes. Accurate bioinformatics analyzes allow the selection of genes with a lower error rate, increasing the validation assertiveness via RT-qPCR and thus, reducing costs. The objective of this review was to present the analysis stages of RNA-Seq data, from experimental design to systems biology, considering relevant points, as well as to pointed out some software currently available to carry these analyzes out. Besides, with this review, we aimed to help the academic community to understand all steps and biases involved in RNA-Seq data analysis, from experiments with or without biological replicates.https://periodicos.ufra.edu.br/index.php/ajaes/article/view/3319sequencingbioinformaticspipelinerna |
| spellingShingle | Mayla Daiane Correa Molinari Renata Fuganti-Pagliarini Jéssika Angelotti Mendonça Daniel de Amorim Barobosa Daniel Rockenbach Marin Liliane Mertz-Henning Alexandre Lima Nepomuceno ANÁLISE TRANSCRIPTÔMICA EM EXPERIMENTOS DE RNA-SEQ COM E SEM REPLICATAS BIOLÓGICAS: UMA REVISÃO Revista de Ciências Agrárias sequencing bioinformatics pipeline rna |
| title | ANÁLISE TRANSCRIPTÔMICA EM EXPERIMENTOS DE RNA-SEQ COM E SEM REPLICATAS BIOLÓGICAS: UMA REVISÃO |
| title_full | ANÁLISE TRANSCRIPTÔMICA EM EXPERIMENTOS DE RNA-SEQ COM E SEM REPLICATAS BIOLÓGICAS: UMA REVISÃO |
| title_fullStr | ANÁLISE TRANSCRIPTÔMICA EM EXPERIMENTOS DE RNA-SEQ COM E SEM REPLICATAS BIOLÓGICAS: UMA REVISÃO |
| title_full_unstemmed | ANÁLISE TRANSCRIPTÔMICA EM EXPERIMENTOS DE RNA-SEQ COM E SEM REPLICATAS BIOLÓGICAS: UMA REVISÃO |
| title_short | ANÁLISE TRANSCRIPTÔMICA EM EXPERIMENTOS DE RNA-SEQ COM E SEM REPLICATAS BIOLÓGICAS: UMA REVISÃO |
| title_sort | analise transcriptomica em experimentos de rna seq com e sem replicatas biologicas uma revisao |
| topic | sequencing bioinformatics pipeline rna |
| url | https://periodicos.ufra.edu.br/index.php/ajaes/article/view/3319 |
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