{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Seungwan Woo"],"instrument_platform":["Tru-cut biopsy needle (Marquee®, 16 G × 10 cm)","Illumina NovaSeq X",".","TruSeq PCR-free Sample Preparation Kit"],"study_type":["DNA-seq"],"organism":["Canis lupus familiaris"],"species":["Canis lupus familiaris"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15592"],"description":["Canine oral melanoma is a highly aggressive tumor with limited therapeutic options and a poor prognosis. To elucidate the molecular mechanisms underlying its progression and response to radiation therapy (RT), we performed a longitudinal multi-omics analysis incorporating whole-genome sequencing (WGS) and RNA sequencing (RNA-seq) on tumor and blood samples from a single canine case. WGS was performed on tumor and blood collected before RT (Pre-RT) and on blood collected immediately after the final radiation fraction (Post-RT 0m). RNA-seq was performed on tumor and blood collected before RT (Pre-RT) and immediately after the final radiation fraction (Post-RT 0m), and on tumor collected 4 months after RT (Post-RT 4m)."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - PCR-free whole-genome libraries were prepared using the TruSeq PCR-free Sample Preparation Kit (Illumina). Library QC was performed with KAPA Library Quantification and Agilent High Sensitivity DNA chip.","Sample Collection - Tumor tissue was obtained by Tru-cut biopsy and preserved in RNAlater™ before RT. Peripheral blood was drawn from the external jugular vein into Tempus™ Blood RNA Tubes at two time points: before RT (Pre-RT) and immediately after the final radiation fraction (Post-RT 0m). Samples were stored at −80 °C until processing. Animal procedures were approved by the IACUC (GNU-240826-D0172).","Nucleic Acid Extraction - Genomic DNA was extracted from Pre-RT Tumor, Pre-RT Blood, and Post-RT 0 m Blood by the service provider following internal standard operating procedures.","Sequencing - Paired-end whole-genome sequencing was performed on an Illumina NovaSeq X platform (Illumina, San Diego, CA, USA)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Seungwan Woo"],"additional_accession":[]},"is_claimable":false,"name":"Whole-genome sequencing of canine oral melanoma and matched peripheral blood pre- and post-radiotherapy","description":"Canine oral melanoma is a highly aggressive tumor with limited therapeutic options and a poor prognosis. To elucidate the molecular mechanisms underlying its progression and response to radiation therapy (RT), we performed a longitudinal multi-omics analysis incorporating whole-genome sequencing (WGS) and RNA sequencing (RNA-seq) on tumor and blood samples from a single canine case. WGS was performed on tumor and blood collected before RT (Pre-RT) and on blood collected immediately after the final radiation fraction (Post-RT 0m). RNA-seq was performed on tumor and blood collected before RT (Pre-RT) and immediately after the final radiation fraction (Post-RT 0m), and on tumor collected 4 months after RT (Post-RT 4m).","dates":{"release":"2025-09-16T00:00:00Z","modification":"2025-09-16T01:02:17.684Z","creation":"2025-09-15T11:23:52.575Z"},"accession":"E-MTAB-15592","cross_references":{"ENA":["ERP180056"],"EFO":["EFO_0002944","EFO_0004170","EFO_0002693","EFO_0005518","EFO_0004184"]}}