用位置特异性核苷酸倾向特征方法把CAAAGGUGACCCACUUCGUUCAUGGACGUUCCCUGAAAUCAGGGACACUAU转为特征矩阵
时间: 2024-06-07 09:06:46 浏览: 68
位置特异性核苷酸倾向特征方法(Position-Specific Nucleotide Preference, PSNP)是一种将RNA序列转化为特征矩阵的方法。下面是将CAAAGGUGACCCACUUCGUUCAUGGACGUUCCCUGAAAUCAGGGACACUAU转化为特征矩阵的步骤:
1. 将RNA序列转化为单个核苷酸向量,即A、C、G、U分别表示为(1,0,0,0)、(0,1,0,0)、(0,0,1,0)、(0,0,0,1)四维向量。将CAAAGGUGACCCACUUCGUUCAUGGACGUUCCCUGAAAUCAGGGACACUAU转化为如下的二维矩阵:
| C | A | A | A | G | G | U | G | A | C | C | C | A | C | U | U | C | G | U | U | C | A | U | G | G | A | C | G | U | U | C | C | C | U | G | A | A | U | C | A | G | G | G | A | C | A | C | U | A | U |
| 0 1 1 1 0 0 0 1 1 0 0 0 1 0 0 0 1 0 1 1 0 1 0 1 1 0 1 0 1 1 0 0 0 1 1 1 0 0 1 1 0 1 1 1 0 1 0 1 0 0 1 |
2. 将PSNP矩阵初始值设为全0矩阵,矩阵的行对应着核苷酸的位置,列对应着四种核苷酸。将每个位置的向量加入到对应的PSNP矩阵行中,最终得到如下的PSNP矩阵:
| | A | C | G | U |
| - | - | - | - | - |
| 1 | 0 | 2 | 1 | 2 |
| 2 | 2 | 0 | 0 | 3 |
| 3 | 3 | 0 | 0 | 2 |
| 4 | 3 | 0 | 0 | 2 |
| 5 | 2 | 1 | 0 | 2 |
| 6 | 2 | 1 | 0 | 2 |
| 7 | 0 | 2 | 1 | 2 |
| 8 | 3 | 0 | 0 | 2 |
| 9 | 0 | 3 | 0 | 2 |
| 10 | 0 | 3 | 0 | 2 |
| 11 | 0 | 3 | 0 | 2 |
| 12 | 2 | 0 | 1 | 2 |
| 13 | 0 | 3 | 0 | 2 |
| 14 | 1 | 1 | 2 | 1 |
| 15 | 1 | 2 | 1 | 1 |
| 16 | 2 | 0 | 1 | 2 |
| 17 | 0 | 3 | 0 | 2 |
| 18 | 1 | 2 | 1 | 1 |
| 19 | 1 | 1 | 2 | 1 |
| 20 | 2 | 0 | 1 | 2 |
| 21 | 2 | 0 | 1 | 2 |
| 22 | 1 | 2 | 1 | 1 |
| 23 | 0 | 3 | 0 | 2 |
| 24 | 1 | 2 | 1 | 1 |
| 25 | 1 | 1 | 2 | 1 |
| 26 | 0 | 3 | 0 | 2 |
| 27 | 2 | 0 | 1 | 2 |