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タイトル: | Comparative Analysis of DNA-Binding Selectivity of Hairpin and Cyclic Pyrrole-Imidazole Polyamides Based on Next-Generation Sequencing |
著者: | Kashiwazaki, Gengo Chandran, Anandhakumar Asamitsu, Sefan Kawase, Takashi Kawamoto, Yusuke https://orcid.org/0000-0001-9655-8241 (unconfirmed) Sawatani, Yoshito Hashiya, Kaori Bando, Toshikazu Sugiyama, Hiroshi https://orcid.org/0000-0001-8923-5946 (unconfirmed) |
著者名の別形: | 柏﨑, 玄伍 朝光, 世煌 橋谷, かおり 板東, 俊和 杉山, 弘 |
キーワード: | Bind-n-Seq DNA recognition NGS polyamide sequence determination small molecule |
発行日: | 15-Sep-2016 |
出版者: | Wiley-VCH Verlag |
誌名: | ChemBioChem |
巻: | 17 |
号: | 18 |
開始ページ: | 1752 |
終了ページ: | 1758 |
抄録: | Many long pyrrole-imidazole polyamides (PIPs) have been synthesized in the search for higher specificity, with the aim of realizing the great potential of such compounds in biological and clinical areas. Among several types of PIPs, we designed and synthesized hairpin and cyclic PIPs targeting identical sequences. Bind-n-Seq analysis revealed that both bound to the intended sequences. However, adenines in the data analyzed by the previously reported Bind-n-Seq method appeared to be significantly higher in the motif ratio than thymines, even though the PIPs were not expected to distinguish A from T. We therefore examined the experimental protocol and analysis pipeline in detail and developed a new method based on Bind-n-Seq motif identification with a reference sequence (Bind-n-Seq-MR). High-throughput sequence analysis of the PIP-enriched DNA data by Bind-n-Seq-MR presented A and T comparably. Surface plasmon resonance assays were performed to validate the new method. |
著作権等: | This is the accepted version of the following article: [Gengo Kashiwazaki, Anandhakumar Chandran, Sefan Asamitsu, Takashi Kawase, Yusuke Kawamoto, Yoshito Sawatani, Kaori Hashiya, Toshikazu Bando, Hiroshi Sugiyama. Comparative Analysis of DNA‐Binding Selectivity of Hairpin and Cyclic Pyrrole‐Imidazole Polyamides Based on Next‐Generation Sequencing. ChemBioChem (2016), 17, 18, 1752-1758], which has been published in final form at https://doi.org/10.1002/cbic.201600282. This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Self-Archiving. The full-text file will be made open to the public on 13 September 2017 in accordance with publisher's 'Terms and Conditions for Self-Archiving'. This is not the published version. Please cite only the published version. この論文は出版社版でありません。引用の際には出版社版をご確認ご利用ください。 |
URI: | http://hdl.handle.net/2433/230876 |
DOI(出版社版): | 10.1002/cbic.201600282 |
PubMed ID: | 27387250 |
出現コレクション: | 学術雑誌掲載論文等 |
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