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首页> 外文会议>2017 IEEE 3rd International Conference on Engineering Technologies and Social Sciences >Effects of T-stackprobes On Affymetrix human genechip® data
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Effects of T-stackprobes On Affymetrix human genechip® data

机译：T-stackprobes对Affymetrix人类Genechip®数据的影响

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The Karst Hoogsteen theory, that bases can also pair up in many different ways, opens up another door of research for scientists. It is found that nucleotide sequences having continuous guanines (G-stack probes) form unusual structures called G-Quadruplex structures due to guanine-guanine (G-G) bindings. Researchers have found that some abnormal behaviors are seen on microarray particularly on Affymetrix GeneChipn®nand they associated these abnormal behaviors with the formation of G-quadruplex structures due to the presence of G-stack probes. Hence, G-stack probes were suggested unreliable for gene expression measurement. This left another question that if G-G can affect GeneChipn®nthen interaction among other bases like A-A, T-T and C-C may also be problematic for GeneChipsn®n. The main objective of this research is to analyze the effects of T-T binding at probe level data of Affymetrix GeneChipn®n. Data of HG_U95C GeneChipn®ndesigned for Homo Sapiens (Human) is downloaded from NCBI-GEO repository. The abnormal behavior of G-stack probes was shown as the G-stack probes were not correlated with their other member probes while they were correlated with each other regardless of their genes/probe sets. Similarly, the correlation among the T-stack probes is calculated to verify if they are behaving like G-stack probes. The results suggest that thymine-thymine binding does not affect the human chip. Hence it is all fine if T-stack probes are present on any GeneChipn®ndesign.
机译：喀斯特霍格斯汀理论也可以以许多不同的方式配对，这为科学家打开了另一扇研究之门。发现具有连续鸟嘌呤的核苷酸序列（G-stack探针）由于鸟嘌呤-鸟嘌呤（G-G）结合而形成称为G-四链体结构的异常结构。研究人员发现，在微阵列上，特别是在Affymetrix GeneChipn ® n，并且由于存在G-stack探针，他们将这些异常行为与G-四链体结构的形成联系起来。因此，建议使用G-stack探针进行基因表达测量不可靠。这就提出了另一个问题，即GG是否可以影响GeneChipn ® n。这项研究的主要目的是分析TT结合对Affymetrix GeneChipn ® n。 HG_U95C GeneChipn ®® ndesign。

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