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Identifying the degree of genetic interactions using Restricted Boltzmann Machine-A study on colorectal cancer.
IET Systems Biology ( IF 2.3 ) Pub Date : 2020-12-08 , DOI: 10.1049/syb2.12009
Sujay Saha 1 , Saikat Bandopadhyay 1 , Anupam Ghosh 2
Affiliation  

The phenomenon of two or more genes affecting the expression of each other in various ways in the development of a single character of an organism is known as gene interaction. Gene interaction not only applies to normal human traits but to the diseased samples as well. Thus, an analysis of gene interaction could help us to differentiate between the normal and the diseased samples or between the two/more phases any diseased samples. At the first stage of this work we have used restricted Boltzmann machine model to find such significant interactions present in normal and/or cancer samples of every gene pairs of 20 genes of colorectal cancer data set (GDS4382) along with the weight/degree of those interactions. Later on, we are looking for those interactions present in adenoma and/or carcinoma samples of the same 20 genes of colorectal cancer data set (GDS1777). The weight/degree of those interactions represents how strong/weak an interaction is. At the end we will create a gene regulatory network with the help of those interactions, where the regulatory genes are identified by using Naïve Bayes Classifier. Experimental results are validated biologically by comparing the interactions with NCBI databases.

中文翻译:

使用限制性Boltzmann机-大肠癌研究确定遗传相互作用的程度。

在生物体单个特征的发展过程中,两个或多个基因以各种方式相互影响表达的现象被称为基因相互作用。基因相互作用不仅适用于正常的人类特征,而且也适用于患病的样本。因此,对基因相互作用的分析可以帮助我们区分正常样品和患病样品,或两个/多个相之间的任何患病样品。在这项工作的第一阶段,我们使用了受限的Boltzmann机器模型来发现大肠癌数据集(GDS4382)的20个基因的每个基因对的正常和/或癌症样本中存在的显着相互作用以及这些基因的权重/程度互动。稍后的,我们正在寻找大肠癌数据集(GDS1777)的相同20个基因的腺瘤和/或癌变样本中存在的相互作用。这些互动的权重/程度代表互动的强弱。最后,我们将在这些相互作用的帮助下创建一个基因调控网络,其中通过使用朴素贝叶斯分类器来识别调控基因。通过与NCBI数据库进行交互比较,生物学上验证了实验结果。
更新日期:2020-12-08
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