MSAID: multiple sequence alignment based on a measure of information discrepancy
文献类型：期刊论文
| 作者 | Zhang, M; Fang, WW; Zhang, JH ; Chi, ZX
|
| 刊名 | COMPUTATIONAL BIOLOGY AND CHEMISTRY
 |
| 出版日期 | 2005-04-01 |
| 卷号 | 29期号:2页码:175-181 |
| 关键词 | multiple sequence alignment progressive alignment iterative strategy FDOD measure |
| ISSN号 | 1476-9271 |
| DOI | 10.1016/j.compbiolchem.2004.12.005 |
| 英文摘要 | We propose an algorithm of global multiple sequence alignment that is based on a measure of what we call information discrepancy. The algorithm follows a progressive alignment iteration strategy that makes use of what we call a function of degree of disagreement (FDOD). MSAID begins with distance calculation of pairwise sequences, based on FDOD as a numerical scoring measure. In the next step, the resulting distance matrix is used to construct a guide tree via the neighbor-joining method. The tree is then used to produce a multiple alignment. Current alignment is next used to produce a new matrix and a new tree (with FDOD scoring measure again). This iterative process continues until convergence criteria (or a stopping rule) are satisfied. MSAID was tested and compared with other prior methods by using reference alignments from BAliBASE 2.01. For the alignments with no large N/C-terminal extensions or internal insertions MSAID received the top overall average in the tests. Moreover, the results of testing indicate that MSAID performs as well as other alignment methods with an occasional tendency to perform better than these prior techniques. We, therefore, believe that MSAID is a solid and reliable method of choice, which is often (if not always) superior to other global alignment techniques. (c) 2004 Published by Elsevier Ltd. |
| WOS研究方向 | Life Sciences & Biomedicine - Other Topics ; Computer Science |
| 语种 | 英语 |
| WOS记录号 | WOS:000228764000011 |
| 出版者 | ELSEVIER SCI LTD |
| 源URL | [http://ir.amss.ac.cn/handle/2S8OKBNM/1176]  |
| 专题 | 应用数学研究所 |
| 通讯作者 | Zhang, M |
| 作者单位 | 1.Dalian Univ Technol, Dept Comp Sci & Engn, Dalian 116024, Peoples R China 2.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100080, Peoples R China 3.Dalian Univ, Coll Informat Engn, Dalian 116622, Peoples R China |
| 推荐引用方式 GB/T 7714 | Zhang, M,Fang, WW,Zhang, JH,et al. MSAID: multiple sequence alignment based on a measure of information discrepancy[J]. COMPUTATIONAL BIOLOGY AND CHEMISTRY,2005,29(2):175-181. |
| APA | Zhang, M,Fang, WW,Zhang, JH,&Chi, ZX.(2005).MSAID: multiple sequence alignment based on a measure of information discrepancy.COMPUTATIONAL BIOLOGY AND CHEMISTRY,29(2),175-181. |
| MLA | Zhang, M,et al."MSAID: multiple sequence alignment based on a measure of information discrepancy".COMPUTATIONAL BIOLOGY AND CHEMISTRY 29.2(2005):175-181. |
入库方式： OAI收割
来源：数学与系统科学研究院
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