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ACCOUNTING FOR STRUCTURAL PROPERTIES AND NUCLEOTIDE CO-VARIATIONS IN THE QUANTITATIVE PREDICTION OF BINDING AFFINITIES OF PROTEIN-DNA INTERACTIONS

机译：蛋白质-DNA相互作用的结合亲和力定量预测中的结构性质和核苷酸共变

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We describe a quantitative model for predicting the binding affinity of protein-DNA interactions. The described model is based on templates capable of providing a global representation of the modelled transcription factor (TF) binding sites. Templates can capture non independent nucleotide variations and structural properties present in these sites. Tests carried out on the p50p50 and p50p65 variants of the transcription factor NF-кB demonstrate a high correlation between the observed binding affinities and the binding affinities predicted by the templates. Only a small subset of training data spanning the space of the binding sites is required to train the templates.

机译：我们描述了预测蛋白质-DNA相互作用的结合亲和力的定量模型。所描述的模型基于能够提供建模的转录因子（TF）结合位点的整体表示的模板。模板可以捕获这些位点中存在的非独立核苷酸变异和结构特性。对转录因子NF-кB的p50p50和p50p65变体进行的测试表明，观察到的结合亲和力与模板预测的结合亲和力之间具有高度相关性。只需要跨越绑定位点空间的一小部分训练数据即可训练模板。

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来源
《Pacific Symposium on Biocomputing 2006》|2006年|379-390|共12页
会议地点 MauiHI(US)
作者
SUMEDHA GUNEWARDENA; ZHAOLEI ZHANG;
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作者单位

Charles H. Best Institute, University of Toronto, 112 College Street, Toronto, Ontario, M5G 1L6, Canada;

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原文格式 PDF
正文语种 eng
中图分类计算机的应用;生物工程学（生物技术）;
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专利

1. Quantitative parameters for amino acid-base interaction: implications for prediction of protein-DNA binding sites. [J] . Mandel-Gutfreund Y, Margalit H Nucleic Acids Research . 1998,第10期

机译：氨基酸-碱基相互作用的定量参数：预测蛋白质-DNA结合位点的含义。
2. Quantitative parameters for amino acid-base interaction: Implications for prediction of protein-DNA binding sites [J] . Hanah Margalit, Yael Mandel-Gutfreund Nucleic acids research . 1998,第10期

机译：氨基酸-碱基相互作用的定量参数：预测蛋白质-DNA结合位点的意义
3. QUANTITATIVE STRUCTURE―ACTIVITY RELATIONSHIP MODELS FOR PREDICTION OF ESTROGEN RECEPTOR BINDING AFFINITY OF STRUCTURALLY DIVERSE CHEMICALS [J] . PATRICIA K. SCHMIEDER, GERALD ANKLEY, OVANES MEKENYAN, Environmental toxicology and chemistry . 2003,第8期

机译：预测结构多样的化学物质的雌激素受体结合亲和力的定量结构-活性关系模型
4. ACCOUNTING FOR STRUCTURAL PROPERTIES AND NUCLEOTIDE CO-VARIATIONS IN THE QUANTITATIVE PREDICTION OF BINDING AFFINITIES OF PROTEIN-DNA INTERACTIONS [C] . SUMEDHA GUNEWARDENA, ZHAOLEI ZHANG Pacific Symposium on Biocomputing . 2006

机译：占蛋白质-DNA相互作用结合亲和力定量预测的结构性性质和核苷酸的共变化
5. Development of the property encoded shape distributions and their application to protein binding site comparison and protein-ligand binding affinity prediction. [D] . Das, Sourav. 2010

机译：该属性的编码形状分布的发展及其在蛋白质结合位点比较和蛋白质-配体结合亲和力预测中的应用。
6. Quantitative parameters for amino acid-base interaction: implications for prediction of protein-DNA binding sites. [O] . Y Mandel-Gutfreund, H Margalit 1998

机译：氨基酸-碱基相互作用的定量参数：预测蛋白质-DNA结合位点的含义。
7. Quantitative parameters for amino acid-base interaction: implications for prediction of protein-DNA binding sites. [O] . Mandel-Gutfreund, Y, Margalit, H 1998

机译：氨基酸-碱基相互作用的定量参数：预测蛋白质-DNA结合位点的含义。

ACCOUNTING FOR STRUCTURAL PROPERTIES AND NUCLEOTIDE CO-VARIATIONS IN THE QUANTITATIVE PREDICTION OF BINDING AFFINITIES OF PROTEIN-DNA INTERACTIONS

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