Alternative Polyadenylation: Methods, Findings, and Impacts
Alternative polyadenylation (APA), a phenomenon that RNA molecules with different 3â² ends originate from distinct polyadenylation sites of a single gene, is emerging as a mechanism widely used to regulate gene expression. In the present review, we first summarized various methods prevalently adopte...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Oxford University Press
2017-10-01
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| Series: | Genomics, Proteomics & Bioinformatics |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S1672022917301341 |
| _version_ | 1827158672322592768 |
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| author | Wei Chen Qi Jia Yifan Song Haihui Fu Gang Wei Ting Ni |
| author_facet | Wei Chen Qi Jia Yifan Song Haihui Fu Gang Wei Ting Ni |
| author_sort | Wei Chen |
| collection | DOAJ |
| description | Alternative polyadenylation (APA), a phenomenon that RNA molecules with different 3â² ends originate from distinct polyadenylation sites of a single gene, is emerging as a mechanism widely used to regulate gene expression. In the present review, we first summarized various methods prevalently adopted in APA study, mainly focused on the next-generation sequencing (NGS)-based techniques specially designed for APA identification, the related bioinformatics methods, and the strategies for APA study in single cells. Then we summarized the main findings and advances so far based on these methods, including the preferences of alternative polyA (pA) site, the biological processes involved, and the corresponding consequences. We especially categorized the APA changes discovered so far and discussed their potential functions under given conditions, along with the possible underlying molecular mechanisms. With more in-depth studies on extensive samples, more signatures and functions of APA will be revealed, and its diverse roles will gradually heave in sight. Keywords: Alternative polyadenylation, Next-generation sequencing, 3â²UTR, Alternative splicing, Gene regulation |
| first_indexed | 2024-03-08T17:58:55Z |
| format | Article |
| id | doaj.art-1a33bc54e90847ca9f456a7b93528fa7 |
| institution | Directory Open Access Journal |
| issn | 1672-0229 |
| language | English |
| last_indexed | 2025-03-20T23:44:57Z |
| publishDate | 2017-10-01 |
| publisher | Oxford University Press |
| record_format | Article |
| series | Genomics, Proteomics & Bioinformatics |
| spelling | doaj.art-1a33bc54e90847ca9f456a7b93528fa72024-08-03T12:48:40ZengOxford University PressGenomics, Proteomics & Bioinformatics1672-02292017-10-01155287300Alternative Polyadenylation: Methods, Findings, and ImpactsWei Chen0Qi Jia1Yifan Song2Haihui Fu3Gang Wei4Ting Ni5State Key Laboratory of Genetic Engineering & MOE Key Laboratory of Contemporary Anthropology, Collaborative Innovation Center of Genetics and Development, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai 200438, ChinaState Key Laboratory of Genetic Engineering & MOE Key Laboratory of Contemporary Anthropology, Collaborative Innovation Center of Genetics and Development, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai 200438, ChinaState Key Laboratory of Genetic Engineering & MOE Key Laboratory of Contemporary Anthropology, Collaborative Innovation Center of Genetics and Development, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai 200438, ChinaState Key Laboratory of Genetic Engineering & MOE Key Laboratory of Contemporary Anthropology, Collaborative Innovation Center of Genetics and Development, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai 200438, ChinaCorresponding authors.; State Key Laboratory of Genetic Engineering & MOE Key Laboratory of Contemporary Anthropology, Collaborative Innovation Center of Genetics and Development, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai 200438, ChinaCorresponding authors.; State Key Laboratory of Genetic Engineering & MOE Key Laboratory of Contemporary Anthropology, Collaborative Innovation Center of Genetics and Development, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai 200438, ChinaAlternative polyadenylation (APA), a phenomenon that RNA molecules with different 3â² ends originate from distinct polyadenylation sites of a single gene, is emerging as a mechanism widely used to regulate gene expression. In the present review, we first summarized various methods prevalently adopted in APA study, mainly focused on the next-generation sequencing (NGS)-based techniques specially designed for APA identification, the related bioinformatics methods, and the strategies for APA study in single cells. Then we summarized the main findings and advances so far based on these methods, including the preferences of alternative polyA (pA) site, the biological processes involved, and the corresponding consequences. We especially categorized the APA changes discovered so far and discussed their potential functions under given conditions, along with the possible underlying molecular mechanisms. With more in-depth studies on extensive samples, more signatures and functions of APA will be revealed, and its diverse roles will gradually heave in sight. Keywords: Alternative polyadenylation, Next-generation sequencing, 3â²UTR, Alternative splicing, Gene regulationhttp://www.sciencedirect.com/science/article/pii/S1672022917301341 |
| spellingShingle | Wei Chen Qi Jia Yifan Song Haihui Fu Gang Wei Ting Ni Alternative Polyadenylation: Methods, Findings, and Impacts Genomics, Proteomics & Bioinformatics |
| title | Alternative Polyadenylation: Methods, Findings, and Impacts |
| title_full | Alternative Polyadenylation: Methods, Findings, and Impacts |
| title_fullStr | Alternative Polyadenylation: Methods, Findings, and Impacts |
| title_full_unstemmed | Alternative Polyadenylation: Methods, Findings, and Impacts |
| title_short | Alternative Polyadenylation: Methods, Findings, and Impacts |
| title_sort | alternative polyadenylation methods findings and impacts |
| url | http://www.sciencedirect.com/science/article/pii/S1672022917301341 |
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