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1. 发明专利

JP2012239430A Gene identification method and expression analysis method in comprehensive fragment analysis 有权
标题翻译：基因识别方法和综合分析中的表达分析方法
公开(公告)号：JP2012239430A
公开(公告)日：2012-12-10
申请号：JP2011112887
申请日：2011-05-19
申请人： Natl Inst Of Radiological Sciences , 独立行政法人放射線医学総合研究所 , Maze:Kk , 株式会社メイズ
发明人： ABE MASUMI , YUNOKAWA HARUNOBU , SATO SHINJI , KONDO KAZUHIRO , HINAGATA TAKASHI
IPC分类号： C12Q1/68 , C12N15/09 , G01N33/53 , G01N37/00
CPC分类号： C12Q1/6809 , C12Q2521/301
摘要： PROBLEM TO BE SOLVED: To provide a gene identification method and an expression analysis method that are simple and easy while holding high reliability, and a database construction method for a comprehensive fragment analysis for use in the methods.SOLUTION: The database construction method includes steps for fragmenting genomic DNA contained in a sample or cDNA obtained from a transcription product and imparting an identifiable indicator sequence to obtain a fragment DNA mixture; carrying out high-speed DNA sequencing of a portion of the fragment DNA mixture and acquiring lead sequence data on all fragment DNA contained therein; examining the presence of indicator sequence portions on all the lead sequence data and extracting the lead sequence data having the indicator sequence; carrying out clustering and assembling of the sequences using sequence similarity and sequence length parameters on all the extracted lead sequence data to form a plurality of clusters, and acquiring the number of structural sequences of the clusters, consensus sequence and consensus sequence length, and alignment information on the clusters.
摘要翻译：要解决的问题：提供简单易行且保持高可靠性的基因鉴定方法和表达分析方法，以及用于该方法的全面片段分析的数据库构建方法。解决方案：数据库构建方法包括将样本中包含的基因组DNA片段化或从转录产物获得的cDNA，并赋予可识别的指示序列以获得片段DNA混合物的步骤; 对片段DNA混合物的一部分进行高速DNA测序，并获取其中所含的所有片段DNA的引导序列数据; 检查所有引导序列数据上的指示符序列部分的存在并提取具有指示符序列的引导序列数据; 使用序列相似性和序列长度参数对所有提取的引导序列数据进行序列的聚类和组合以形成多个簇，并获取簇的结构序列数，共有序列和共有序列长度以及对齐信息在集群上。版权所有（C）2013，JPO＆INPIT

2. 发明专利

JP2013226104A Program for determining read error in base sequence 有权
标题翻译：用于确定基本序列读取错误的程序
公开(公告)号：JP2013226104A
公开(公告)日：2013-11-07
申请号：JP2012101755
申请日：2012-04-26
申请人： Natl Inst Of Radiological Sciences , 独立行政法人放射線医学総合研究所 , Maze:Kk , 株式会社メイズ
发明人： ABE MASUMI , KASAMA KOJI , YUNOKAWA HARUNOBU , SATO SHINJI , KONDO KAZUHIRO , HINAGATA TAKASHI
IPC分类号： C12Q1/68
CPC分类号： G06F19/22 , G06F19/24 , G06F19/70
摘要： PROBLEM TO BE SOLVED: To provide a program for determining whether the difference in base sequences is due to a read error or a mutation.SOLUTION: In step S101, a reference sequence and a first sequence of interest having homology to the reference sequence are obtained. In step S102, the edit distance between the reference sequence and the first sequence of interest is calculated. In step S103, for the first sequence of interest, a sequence of 3 or more consecutive identical bases is substituted for a sequence of 2 consecutive identical bases, and a second sequence of interest is made. In step S104, the edit distance of the second sequence of interest to the reference sequence substituted is calculated. In step S105, whether the difference is due to a read error or a mutation is determined on the basis of the calculated edit distance.
摘要翻译：要解决的问题：提供用于确定基本序列的差异是否是由于读取错误或突变引起的程序。解决方案：在步骤S101中，获得与参考序列具有同源性的参考序列和第一序列。在步骤S102中，计算参考序列与第一关注序列之间的编辑距离。在步骤S103中，对于第一感兴趣序列，将3个或更多个连续相同碱基的序列替换为2个连续相同碱基的序列，并且进行第二感兴趣的序列。在步骤S104中，计算第二感兴趣序列与被替换的参考序列的编辑距离。在步骤S105中，根据计算出的编辑距离来确定差异是由于读取错误还是突变。

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