北京生物醫(yī)學工程

一種面向芯片合成技術的寡核苷酸設計方法

Oligonucleotide design for biochip synthesis technology

作者：吳世軍鄭浩然

單位：                                 中國科學技術大學計算機科學與技術學院(合肥230027)            

關鍵詞：芯片合成技術；寡核苷酸設計；交叉匹配；酶切位點

分類號：

出版年·卷·期（頁碼）：2015·34·5（495-498）

摘要：

目的研發(fā)適用于芯片合成技術的寡核苷酸設計方法。方法面對芯片合成技術的需求，提出新方法，對需要處理的核苷酸序列，通過交叉匹配及酶切位點消除算法對序列中的交叉匹配片段及酶切位點進行密碼子替換，盡可能減少交叉匹配及酶切位點序列的出現，對處理后的序列采用近似Tm值優(yōu)化方法進行切割。結果比對相同序列在該方法和Tmprime兩種方法中的結果，從寡核苷酸長度、Tm值范圍、錯配片段數等因素進行比較，驗證了新方法在處理交叉匹配上有很好的效果。結論該方法符合適用于芯片合成技術的寡核苷酸設計的需求，大大減少了交叉匹配及酶切位點的出現情況，為芯片合成技術的寡核苷酸設計提供了一種有效方法。

Objective To develop a new method for designing oligonucleotides for biochip synthesis technology. Methods Facing the needs of biochip synthesis technology, we use mismatch and restrictions’ revision algorithm to do with fragment sequences to reduce the mismatches and restriction sites with synonymous codon, and then cut the sequences into oligonucleotides by using a method approximate to Equi-Tm method. Results The lengths, Tm range, mismatches of oligonucleotides are compared between this method and TmPrime. The new method does well in avoiding mismatches. Conclusions This method satisfies the need of oligonucleotide design for biochip synthesis technology and avoids mismatches and restriction sites as much as possible.

參考文獻：

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