DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis
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....
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MDPI AG
2023-12-01
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| Online Access: | https://www.mdpi.com/2306-5729/9/1/8 |
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| author | Priyadarshana Ajithkumar Gregory Gimenez Peter A. Stockwell Suzan Almomani Sarah A. Bowden Anna L. Leichter Antonio Ahn Sharon Pattison Sebastian Schmeier Frank A. Frizelle Michael R. Eccles Rachel V. Purcell Euan J. Rodger Aniruddha Chatterjee |
| author_facet | Priyadarshana Ajithkumar Gregory Gimenez Peter A. Stockwell Suzan Almomani Sarah A. Bowden Anna L. Leichter Antonio Ahn Sharon Pattison Sebastian Schmeier Frank A. Frizelle Michael R. Eccles Rachel V. Purcell Euan J. Rodger Aniruddha Chatterjee |
| author_sort | Priyadarshana Ajithkumar |
| collection | DOAJ |
| description | 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 × 10<sup>9</sup> RRBS reads and 4.38 × 10<sup>8</sup> 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. |
| first_indexed | 2024-03-08T11:01:40Z |
| format | Article |
| id | doaj.art-f34097822278464bb35e8c3ac67bf4d0 |
| institution | Directory Open Access Journal |
| issn | 2306-5729 |
| language | English |
| last_indexed | 2024-03-08T11:01:40Z |
| publishDate | 2023-12-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Data |
| spelling | doaj.art-f34097822278464bb35e8c3ac67bf4d02024-01-26T15:59:27ZengMDPI AGData2306-57292023-12-0191810.3390/data9010008DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver MetastasisPriyadarshana Ajithkumar0Gregory Gimenez1Peter A. Stockwell2Suzan Almomani3Sarah A. Bowden4Anna L. Leichter5Antonio Ahn6Sharon Pattison7Sebastian Schmeier8Frank A. Frizelle9Michael R. Eccles10Rachel V. Purcell11Euan J. Rodger12Aniruddha Chatterjee13Department of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandDepartment of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandDepartment of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandDepartment of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandDepartment of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandDepartment of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandPeter MacCallum Cancer Centre, Melbourne, VIC 3052, AustraliaDepartment of Medicine, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandEvotec SE, 22419 Hamburg, GermanyDepartment of Surgery, University of Otago, Christchurch 8011, New ZealandDepartment of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandDepartment of Surgery, University of Otago, Christchurch 8011, New ZealandDepartment of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandDepartment of Pathology, Dunedin School of Medicine, University of Otago, Dunedin 9016, New ZealandSequencing-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 × 10<sup>9</sup> RRBS reads and 4.38 × 10<sup>8</sup> 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.https://www.mdpi.com/2306-5729/9/1/8colorectal cancerDNA methylationgene expressionliver metastasisRRBSRNA-Seq |
| spellingShingle | Priyadarshana Ajithkumar Gregory Gimenez Peter A. Stockwell Suzan Almomani Sarah A. Bowden Anna L. Leichter Antonio Ahn Sharon Pattison Sebastian Schmeier Frank A. Frizelle Michael R. Eccles Rachel V. Purcell Euan J. Rodger Aniruddha Chatterjee DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis Data colorectal cancer DNA methylation gene expression liver metastasis RRBS RNA-Seq |
| title | DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis |
| title_full | DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis |
| title_fullStr | DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis |
| title_full_unstemmed | DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis |
| title_short | DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis |
| title_sort | dna methylome and transcriptome maps of primary colorectal cancer and matched liver metastasis |
| topic | colorectal cancer DNA methylation gene expression liver metastasis RRBS RNA-Seq |
| url | https://www.mdpi.com/2306-5729/9/1/8 |
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