An Interactive Tool for Extracting Exons and SNP from Genomic Sequence: Isolation of HCN1 and HCN3 Ion Channel Genes

Yuan Liu; Yuhong Wang; Kimberly Folander; Cuochun Xie; Richard Blevins

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An Interactive Tool for Extracting Exons and SNP from Genomic Sequence: Isolation of HCN1 and HCN3 Ion Channel Genes

机译：从基因组序列中提取外显子和SNP的交互式工具：HCN1和HCN3离子通道基因的分离

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摘要

Genome Analyzer (GenoA) with a relational database back-end, was developed to extract information from mammalian genomic sequences. This data mining and visualization tool-set enables laboratory bench scientists to identify and assemble virtual cDNA from genomic exon sequences, and provides a starting point to identify potential alternative splice variants and polymorphisms in silico. The study described in this paper demonstrates the use of GenoA to study human brain hyperpolarization-activated cation channel genes HCN1 and HCN3.

机译：具有后端关系数据库的Genome Analyzer（GenoA）被开发用于从哺乳动物基因组序列中提取信息。这种数据挖掘和可视化工具集使实验室工作人员能够从基因组外显子序列中识别和组装虚拟cDNA，并提供了一个起点，以识别计算机中潜在的替代剪接变体和多态性。本文所述的研究证明了GenoA在研究人脑超极化激活的阳离子通道基因HCN1和HCN3中的用途。

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《Journal of Bioinformatics and Computational Biology》 |2003年第3期|共14页
作者
Yuan Liu; Yuhong Wang; Kimberly Folander; Cuochun Xie; Richard Blevins;
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正文语种 eng
中图分类细胞生物学;
关键词
Genome; database; splice variant; potassium channel; SNP;

机译：基因组;数据库;剪接变体;钾通道;SNP;

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专利

1. An Interactive Tool for Extracting Exons and SNP from Genomic Sequence: Isolation of HCN1 and HCN3 Ion Channel Genes [J] . Yuan Liu, Yuhong Wang, Kimberly Folander, Journal of Bioinformatics and Computational Biology . 2003,第3期

机译：从基因组序列中提取外显子和SNP的交互式工具：HCN1和HCN3离子通道基因的分离
2. An Interactive Tool for Extracting Exons and SNP from Genomic Sequence: Isolation of HCN1 and HCN3 Ion Channel Genes [J] . Yuan Liu, Yuhong Wang, Kimberly Folander, Journal of Bioinformatics and Computational Biology . 2003,第3期

机译：从基因组序列中提取外显子和SNP的交互式工具：HCN1和HCN3离子通道基因的分离
3. Visualization portal for genetic variation (VizGVar): a tool for interactive visualization of SNPs and somatic mutations in exons, genes and protein domains [J] . Solano-Roman Antonio, Alfaro-Arias Veronica, Cruz-Castillo Carlos, Bioinformatics . 2018,第6期

机译：用于遗传变异的可视化门户（Vizgvar）：一种用于外显子，基因和蛋白质结构域的SNP和体细胞突变的互动性可视化的工具
4. Genomic Privacy Preserving Framework for High-Order SNPs Linkage Disequilibrium on Correlated Sequences [C] . Hai Liu, Zhenqiang Wu, Changgen Peng, International Conference on Networking and Network Applications . 2017

机译：相关序列上高阶SNP连锁不平衡的基因组隐私保护框架
5. Isolation and characterization of genomic DNA sequences that enhance the stability of plasmid DNA in mammalian cells. [D] . Manocha, Marcus M. S. 2006

机译：增强哺乳动物细胞中质粒DNA稳定性的基因组DNA序列的分离和表征。
6. A SNP Resource for Human Chromosome 22: Extracting Dense Clusters of SNPs From the Genomic Sequence [O] . Elisabeth Dawson, Yuan Chen, Sarah Hunt, 2001

机译：人类染色体22的SNP资源：从基因组序列中提取SNP的密集簇。
7. Ca2+-binding proteins in the retina: from discovery to etiology of human disease11The nucleotide sequences reported in this manuscript have been submitted to the GenBank™/EMBL databank with the following accession numbers: short form of human CaBP1, AF169148; long form of human CaBP1, AF169149; short form of bovine CaBP1, AF169150; long form of bovine CaBP1, AF169151; short form of mouse CaBP1, AF169153; long form of mouse CaBP1, AF1691152; human CaBP2, AF169154; bovine CaBP2, AF169155; short form of mouse CaBP2, AF169156; long form of mouse CaBP2, AF169157; human CaBP3, AF169158; human CaBP5, AF169159; bovine CaBP5, AF169160; mouse CaBP5, AF169161; human CaBP2 genomic sequence, AF170811; exons 1, 2-3-4, 5, 6 of human CaBP5 genomic sequence, AF170812, AF170813, AF170814, AF170815, respectively, and exons 1-2, 3-4, 5, 6 of human CaBP3 genomic sequence, AF170816, AF170817, AF170818, AF170815, respectively, and published recently F. Haeseleer et al. (2000) J. Biol. Chem. 275, 1247–1260. [O] . Sokal Izabela, Li Ning, Verlinde Christophe L.M.J., 2000

机译：视网膜中的Ca2 +结合蛋白：从人类疾病的发现到病因学11该手稿中报道的核苷酸序列已提交至GenBank™/ EMBL数据库，其登录号如下：人CaBP1的缩写形式，AF169148；人类CaBP1的长形式，AF169149；牛CaBP1的缩写，AF169150；牛CaBP1的长形式，AF169151；小鼠CaBP1，AF169153的缩写；长型小鼠CaBP1，AF1691152；人CaBP2，AF169154；牛CaBP2，AF169155;小鼠CaBP2的缩写，AF169156；长型小鼠CaBP2，AF169157；人CaBP3，AF169158；人CaBP5，AF169159；牛CaBP5，AF169160;小鼠CaBP5，AF169161；人CaBP2基因组序列，AF170811；人CaBP5基因组序列的外显子1、2-3-4、5、6，AF170812，AF170813，AF170814，AF170815和人CaBP3基因组序列的外显子1-2、3-4、5、6，AF170816，AF170817 ，AF170818，AF170815并在最近发表F. Haeseleer等。（2000）J.Biol。化学275，1247–1260。
8. Genomic Characterization of KIR2DL4 in Families and Unrelated Individuals Reveals Extensive Diversity in Exon and Intron Sequences Including a Common Frameshift Variation Occurring in Several Alleles [R] . Gedil, M. A. , Steiner, N. K. , Hurley, C. K. 2005

机译：KIR2DL4在家族和无关个体中的基因组表征揭示外显子和内含子序列的广泛多样性，包括在几个等位基因中发生的共同移码变异

An Interactive Tool for Extracting Exons and SNP from Genomic Sequence: Isolation of HCN1 and HCN3 Ion Channel Genes

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