P. Ajithkumar, Gregory Gimenez, P. Stockwell, Suzan N. Almomani, Sarah A Bowden, A. Leichter, Antonio Ahn, Sharon Pattison, Sebastian Schmeier, Frank A. Frizelle, Michael R. Eccles, R. Purcell, Euan J. Rodger, Aniruddha Chatterjee
{"title":"DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis","authors":"P. Ajithkumar, Gregory Gimenez, P. Stockwell, Suzan N. Almomani, Sarah A Bowden, A. Leichter, Antonio Ahn, Sharon Pattison, Sebastian Schmeier, Frank A. Frizelle, Michael R. Eccles, R. Purcell, Euan J. Rodger, Aniruddha Chatterjee","doi":"10.3390/data9010008","DOIUrl":null,"url":null,"abstract":"Sequencing-based genome-wide DNA methylation, gene expression studies and associated data on paired colorectal cancer (CRC) primary and liver metastasis are very limited. We have profiled the DNA methylome and transcriptome of matched primary CRC and liver metastasis samples from the same patients. Genome-scale methylation and expression levels were examined using Reduced Representation Bisulfite Sequencing (RRBS) and RNA-Seq, respectively. To investigate DNA methylation and expression patterns, we generated a total of 1.01 × 109 RRBS reads and 4.38 x 108 RNA-Seq reads from the matched cancer tissues. Here, we describe in detail the sample features, experimental design, methods and bioinformatic pipeline for these epigenetic data. We demonstrate the quality of both the samples and sequence data obtained from the paired samples. The sequencing data obtained from this study will serve as a valuable resource for studying underlying mechanisms of distant metastasis and the utility of epigenetic profiles in cancer metastasis.","PeriodicalId":502371,"journal":{"name":"Data","volume":" 13","pages":""},"PeriodicalIF":0.0000,"publicationDate":"2023-12-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Data","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.3390/data9010008","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
引用次数: 0
Abstract
Sequencing-based genome-wide DNA methylation, gene expression studies and associated data on paired colorectal cancer (CRC) primary and liver metastasis are very limited. We have profiled the DNA methylome and transcriptome of matched primary CRC and liver metastasis samples from the same patients. Genome-scale methylation and expression levels were examined using Reduced Representation Bisulfite Sequencing (RRBS) and RNA-Seq, respectively. To investigate DNA methylation and expression patterns, we generated a total of 1.01 × 109 RRBS reads and 4.38 x 108 RNA-Seq reads from the matched cancer tissues. Here, we describe in detail the sample features, experimental design, methods and bioinformatic pipeline for these epigenetic data. We demonstrate the quality of both the samples and sequence data obtained from the paired samples. The sequencing data obtained from this study will serve as a valuable resource for studying underlying mechanisms of distant metastasis and the utility of epigenetic profiles in cancer metastasis.
基于测序的全基因组 DNA 甲基化、基因表达研究以及配对的结直肠癌(CRC)原发灶和肝转移灶的相关数据非常有限。我们对来自同一患者的配对原发 CRC 和肝转移样本的 DNA 甲基组和转录组进行了分析。我们分别使用还原表征亚硫酸氢盐测序(RRBS)和 RNA-Seq 对基因组范围内的甲基化和表达水平进行了检测。为了研究DNA甲基化和表达模式,我们从匹配的癌症组织中生成了总计1.01×109个RRBS读数和4.38×108个RNA-Seq读数。在此,我们详细介绍了这些表观遗传数据的样本特征、实验设计、方法和生物信息学管道。我们展示了从配对样本中获得的样本和序列数据的质量。这项研究获得的测序数据将成为研究远处转移潜在机制和表观遗传学特征在癌症转移中的应用的宝贵资源。