2026-10-13T13:32:27Z https://api.figshare.com/v2/oai

oai:figshare.com:article/33951032 2026-09-21T07:44:20Z category_12 category_13 category_14 category_272 category_873 category_734 category_61 category_64 category_133 portal_87 item_type_3 month_year_09_2026

Genome-wide DNA methylation landscapes in gallbladder carcinoma: revealing shared and distinct epigenetic signatures across subtypes Devbrat Singh (25081259) Shubham Krushna Talware (25081262) Shridhar Mishra (25081265) Pallavi Srivastava (810837) Sayali Mukherjee (25081268) Anshuman Pandey (25081271) Mohammad Imran Siddiqi (514431) Vandana Tiwari (4282240) Nuzhat Husain (5573585) Cell Biology Genetics Molecular Biology Environmental Sciences not elsewhere classified Chemical Sciences not elsewhere classified Biological Sciences not elsewhere classified Developmental Biology Cancer Plant Biology Gallbladder carcinoma adenocarcinoma intracholecystic papillary neoplasm (ICPN) DNA methylation EPIC array CpG islands promoter remodeling epigenetic profiling <p>Gallbladder cancer is an aggressive malignancy with poor survival rates, there are biologically distinct subtypes, yet genome-wide epigenetic differences remain poorly understood. This study was designed as an exploratory investigation of subtype-specific DNA methylation patterns.</p> <p>The study included sixteen gallbladder tissue sample (adenocarcinoma, <i>n</i> = 6; ICPN with invasion, <i>n</i> = 6; controls, <i>n</i> = 4). Genome-wide DNA methylation profiling was performed using the Illumina Infinium MethylationEPIC (850K) array. Differential methylation was assessed using Δβ ≥ 0.2 and FDR < 0.05, with emphasis on effect sizes. Chromosomal distribution, CpG island annotation, Gene Ontology enrichment, protein–protein interaction networks, and promoter-specific methylation patterns were examined.</p> <p>GBC demonstrated predominant global hypomethylation, with adenocarcinoma showing marked promoter hypomethylation (79.2%), compared with ICPN (54.7%). Adenocarcinoma exhibited enrichment of transcriptional and proliferative pathways whereas ICPN showed stress-response, autophagy, and apoptotic pathway enrichment. A set of 543 consensus genes displayed recurrent methylation changes across all comparisons, suggesting shared epigenetic remodeling duringndisease progression.</p> <p>This exploratory study identifies distinct and shared epigenetic signatures across gallbladder carcinoma subtypes, highlighting subtype-specific promoter remodeling. These findings provide a foundation for future large-scale validation studies integrating methylation, transcriptomic, and clinical outcome.</p> <p>Gallbladder cancer is often diagnosed at a late stage, which makes treatment difficult and reduces survival. Two types of gallbladder tumors are commonly seen: adenocarcinoma, the usual form of cancer, and intracholecystic papillary neoplasm (ICPN), a growth that can become cancerous. Chemical changes in DNA, known as DNA methylation, may help explain how these tumors develop and why they behave differently.</p> <p>In this study, we examined gallbladder tissue from patients with cancer and compared it with non-cancerous tissue. Using a large-scale DNA test, we measured methylation at more than 850,000 sites across the genome. We found that gallbladder cancers lose methylation in many parts of their DNA, especially adenocarcinoma. ICPN showed a more balanced pattern of changes and signs of stress-response activity, while adenocarcinoma showed changes linked to rapid cell growth. These differences suggest that the two tumor types may develop through different biological pathways.</p> <p>Because this was a small exploratory study, the results should be viewed as early insights rather than final conclusions. Larger studies are needed to confirm these patterns. We also identified a group of genes that were consistently altered across all tumor samples. These shared changes may help researchers develop future tests to detect gallbladder cancer earlier or classify its subtypes more accurately.</p> <p>Overall, our findings highlight important differences in the molecular makeup of gallbladder tumor types and point toward new directions for research, diagnosis, and early detection.</p> 2026-09-21T07:44:20Z Dataset Dataset 10.6084/m9.figshare.33951032.v1 https://figshare.com/articles/dataset/Genome-wide_DNA_methylation_landscapes_in_gallbladder_carcinoma_revealing_shared_and_distinct_epigenetic_signatures_across_subtypes/33951032 CC BY 4.0