OSP: a computer program for choosing PCR and DNA sequencing primers.
OSP: a computer program for choosing PCR and DNA sequencing primers.
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OSP：用于选择 PCR 和 DNA 测序引物的计算机程序。
DOI：
10.1101/gr.1.2.124
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发表时间：
1991
期刊：
影响因子：
--
通讯作者：
Green,P
中科院分区：
文献类型：
--
作者：
Hillier,L;Green,P
OSP （Oligonucleotide Selection Program）为DNA测序和聚合酶链反应（PCR）选择寡核苷酸引物。用户可以指定（或使用默认）引物和扩增产物长度，%(G+C),（绝对或相对）熔化温度和引物3'核苷酸的限制。为了帮助减少非特异性引物和引物二级结构，OSP筛选候选引物序列，使用用户指定的截止点，防止与反应中存在的各种序列进行潜在的碱基配对，包括引物本身，其他引物（用于PCR），扩增产物和任何其他所需的序列（例如，基因组模板中的重复元件序列，克隆模板中的载体序列或多重PCR反应中的其他引物对序列）。涉及引物3'端的碱基配对与涉及内部序列的碱基配对分开考虑。满足所有约束的引物按“组合分数”排序，“组合分数”是用户可定义的上述任何参数的加权和。OSP被常规和广泛地用于秀丽隐杆线虫基因组测序项目和华盛顿大学基因组中心测绘项目的人类基因组PCR引物对的测序，成功率分别超过96%和81%。作者可以免费提供文本输出和交互式图形（X窗口）版本，用于研究目的。
OSP (Oligonucleotide Selection Program) selects oligonucleotide primers for DNA sequencing and the polymerase chain reaction (PCR). The user can specify (or use default) constraints for primer and amplified product lengths, %(G+C), (absolute or relative) melting temperatures, and primer 3' nucleotides. To help minimize nonspecific priming and primer secondary structure, OSP screens candidate primer sequences, using user-specifiable cutoffs, against potential base-pairing with a variety of sequences present in the reaction, including the primer itself, the other primer (for PCR), the amplified product, and any other sequences desired (e.g., repetitive element sequences in genomic templates, vector sequence in cloned templates, or other primer pair sequences in multiplexed PCR reactions). Base-pairing involving the primer 3' end is considered separately from base-pairing involving internal sequences. Primers meeting all constraints are ranked by a "combined score," a user-definable weighted sum of any of the above parameters. OSP is being routinely and extensively used to select sequencing primers for the Caenorhabditis elegans genome sequencing project and human genomic PCR primer pairs for the Washington University Genome Center mapping project, with success rates exceeding 96% and 81%, respectively. It is available for research purposes from the authors, at no cost, in both text output and interactive graphics (X windows) versions.