{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Seongjun Kim"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["methylation profiling by high throughput sequencing"],"organism":["Sus scrofa"],"species":["Sus scrofa"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14776"],"description":["This study utilized methylome data to comprehensively analyze the epigenetic landscape across five tissues (heart, liver, kidney, back fat, and loin) of minipigs. As the demand for organ transplantation continues to rise, xenotransplantation has gained significant attention as a promising solution to address the critical shortage of organ donors. Minipigs are considered a highly promising animal model for xenotransplantation research due to their remarkable physiological and anatomical similarities to humans. To evaluate the potential of minipigs, this study identified tissue-specific methylation patterns and differentially methylated regions (DMRs) related to body size, offering an in-depth exploration of their epigenetic characteristics. The findings revealed that tissue-specific methylation markers, such as those associated with MYH7B in the heart and ITIH4 in the liver, play pivotal roles in physiological and pathological processes. Additionally, DMRs associated with body size, such as those linked to DES in the heart and NRAP in the loin, provided valuable insights into the relationship between organ size and functionality. Notably, the methylation patterns of immune-related regions, such as those associated with IFI30, NCK2, NFKB1, and SOS2, demonstrated that minipigs exhibit a greater similarity to humans than to conventional pigs, highlighting their potential as an indispensable model for xenotransplantation and biomedical research."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sequencing - Sequencing was performed using the NovaSeq platform (Illumina).","Sample Collection - To identify tissue-specific body size-related genes, approximately 10 samples representing 5 different tissues were collected from MiniPig individuals with varying body sizes. This comprehensive sampling aimed to capture the relationship between tissue expression patterns and body size variations. All experimental procedures were thoroughly reviewed and approved by the National Institute of Animal Science (NIAS) under approval number NIAS20181295.","Library Construction - Individual libraries were generated using the Accel-NGS Methyl-Seq DNA Library Kit (Swift BioSciences) following the manufacturer's protocol. The bisulfite-converted DNA fragments were repaired, adapter-ligated, and amplified to prepare the WGBS libraries.","Nucleic Acid Extraction - Genomic DNA was extracted from tissue samples using the QIAamp DNA Mini Kit (Qiagen, Cat. No. 51306) following the manufacturer’s protocol. DNA concentration and purity were assessed, and only samples meeting quality standards were used for library preparation."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Seongjun Kim"],"additional_accession":[]},"is_claimable":false,"name":"Multi-Tissue WGBS Analysis in Mini Pigs: Body Size and Tissue-Specific Comparisons","description":"This study utilized methylome data to comprehensively analyze the epigenetic landscape across five tissues (heart, liver, kidney, back fat, and loin) of minipigs. As the demand for organ transplantation continues to rise, xenotransplantation has gained significant attention as a promising solution to address the critical shortage of organ donors. Minipigs are considered a highly promising animal model for xenotransplantation research due to their remarkable physiological and anatomical similarities to humans. To evaluate the potential of minipigs, this study identified tissue-specific methylation patterns and differentially methylated regions (DMRs) related to body size, offering an in-depth exploration of their epigenetic characteristics. The findings revealed that tissue-specific methylation markers, such as those associated with MYH7B in the heart and ITIH4 in the liver, play pivotal roles in physiological and pathological processes. Additionally, DMRs associated with body size, such as those linked to DES in the heart and NRAP in the loin, provided valuable insights into the relationship between organ size and functionality. Notably, the methylation patterns of immune-related regions, such as those associated with IFI30, NCK2, NFKB1, and SOS2, demonstrated that minipigs exhibit a greater similarity to humans than to conventional pigs, highlighting their potential as an indispensable model for xenotransplantation and biomedical research.","dates":{"release":"2025-09-11T00:00:00Z","modification":"2025-09-11T07:48:23.517Z","creation":"2025-01-24T17:37:15.353Z"},"accession":"E-MTAB-14776","cross_references":{"ENA":["ERP168645"],"Biostudies":["E-MTAB-14775"],"EFO":["EFO_0002944","EFO_0004170","EFO_0002761","EFO_0005518","EFO_0004184"]}}