RaacLogo: a new sequence logo generator by using reduced amino acid clusters
文献类型：期刊论文
| 作者 | Zheng, Lei; Liu, Dongyang2; Yang, Wuritu; Yang, Lei1; Zuo, Yongchun |
| 刊名 | BRIEFINGS IN BIOINFORMATICS
 |
| 出版日期 | 2021 |
| 卷号 | 22期号:3 |
| 关键词 | sequence logo reduced amino acid alphabets protein design web server |
| ISSN号 | 1467-5463 |
| DOI | 10.1093/bib/bbaa096 |
| 文献子类 | Article |
| 英文摘要 | Sequence logos give a fast and concise display in visualizing consensus sequence. Protein exhibits greater complexity and diversity than DNA, which usually affects the graphical representation of the logo. Reduced amino acids perform powerful ability for simplifying complexity of sequence alignment, which motivated us to establish RaacLogo. As a new sequence logo generator by using reduced amino acid alphabets, RaacLogo can easily generate many different simplified logos tailored to users by selecting various reduced amino acid alphabets that consisted of more than 40 clustering algorithms. This current web server provides 74 types of reduced amino acid alphabet, which were manually extracted to generate 673 reduced amino acid clusters (RAAC5) for dealing with protein alignment. A two-dimensional selector was proposed for easily selecting desired RAAC5 with underlying biology knowledge. It is anticipated that the RaacLogo web server will play more high-potential roles for protein sequence alignment, topological estimation and protein design experiments. RaacLogo is freely available at http://bioinfor.imu.edu.cn/raaclogo. |
| 学科主题 | Biochemical Research Methods ; Mathematical & Computational Biology |
| 出版地 | OXFORD |
| 电子版国际标准刊号 | 1477-4054 |
| WOS关键词 | PROTEINS ; ALPHABET |
| WOS研究方向 | Science Citation Index Expanded (SCI-EXPANDED) |
| 语种 | 英语 |
| WOS记录号 | WOS:000709461300045 |
| 出版者 | OXFORD UNIV PRESS |
| 资助机构 | National Natural Science Foundation of China [61702290, 61861036] ; Program for Young Talents of Science and Technology in Universities of Inner Mongolia Autonomous Region [NJYT-18-B01] ; Fund for Excellent Young Scholars of Inner Mongolia [2017JQ04] |
| 源URL | [http://ir.ibcas.ac.cn/handle/2S10CLM1/26529]  |
| 专题 | 中科院光生物学重点实验室 |
| 作者单位 | 1.Inner Mongolia Univ, Coll Life Sci, State Key Lab Reprod Regulat & Breeding Grassland, Hohhot 010070, Peoples R China 2.Harbin Med Univ, Coll Bioinformat Sci & Technol, Harbin 150081, Peoples R China 3.Chinese Acad Sci, Inst Bot, Beijing, Peoples R China |
| 推荐引用方式 GB/T 7714 | Zheng, Lei,Liu, Dongyang,Yang, Wuritu,et al. RaacLogo: a new sequence logo generator by using reduced amino acid clusters[J]. BRIEFINGS IN BIOINFORMATICS,2021,22(3). |
| APA | Zheng, Lei,Liu, Dongyang,Yang, Wuritu,Yang, Lei,&Zuo, Yongchun.(2021).RaacLogo: a new sequence logo generator by using reduced amino acid clusters.BRIEFINGS IN BIOINFORMATICS,22(3). |
| MLA | Zheng, Lei,et al."RaacLogo: a new sequence logo generator by using reduced amino acid clusters".BRIEFINGS IN BIOINFORMATICS 22.3(2021). |
入库方式： OAI收割
来源：植物研究所
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