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Challenges in genomic analysis of model systems and primary tumors of pancreatic ductal adenocarcinomaoa mark
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dc.contributor.authorHyun, Sangyeop-
dc.contributor.authorPark, Daechan-
dc.date.issued2022-01-01-
dc.identifier.issn2001-0370-
dc.identifier.urihttps://aurora.ajou.ac.kr/handle/2018.oak/32890-
dc.identifier.urihttps://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=85137271175&origin=inward-
dc.description.abstractPancreatic ductal adenocarcinoma (PDAC) is characterized by aggressive tumor behavior and poor prognosis. Recent next-generation sequencing (NGS)-based genomic studies have provided novel treatment modes for pancreatic cancer via the identification of cancer driver variants and molecular subtypes in PDAC. Genome-wide approaches have been extended to model systems such as patient-derived xenografts (PDXs), organoids, and cell lines for pre-clinical purposes. However, the genomic characteristics vary in the model systems, which is mainly attributed to the clonal evolution of cancer cells during their construction and culture. Moreover, fundamental limitations such as low tumor cellularity and the complex tumor microenvironment of PDAC hinder the confirmation of genomic features in the primary tumor and model systems. The occurrence of these phenomena and their associated complexities may lead to false insights into the understanding of mechanisms and dynamics in tumor tissues of patients. In this review, we describe various model systems and discuss differences in the results based on genomics and transcriptomics between primary tumors and model systems. Finally, we introduce practical strategies to improve the accuracy of genomic analysis of primary tissues and model systems.-
dc.description.sponsorshipThis research was supported by Basic Science Research Program through the National Research Foundation of Korea funded by the Ministry of Science and ICT (NRF-2019R1C1C1008181) and the Ministry of Education (NRF-2021R1A6A1A10044950). We appreciate the helpful advice from Dr. Jae Yun Moon and clinical comments by Won-Gun Yun.-
dc.language.isoeng-
dc.publisherElsevier B.V.-
dc.subject.meshCancer genomics-
dc.subject.meshClonal evolution-
dc.subject.meshDuctal adenocarcinomas-
dc.subject.meshGenomic studies-
dc.subject.meshGenomics-
dc.subject.meshGenomics analysis-
dc.subject.meshModelling systems-
dc.subject.meshNext-generation sequencing-
dc.subject.meshPancreatic ductal adenocarcinoma-
dc.subject.meshTumor microenvironments-
dc.titleChallenges in genomic analysis of model systems and primary tumors of pancreatic ductal adenocarcinoma-
dc.typeArticle-
dc.citation.endPage4815-
dc.citation.startPage4806-
dc.citation.titleComputational and Structural Biotechnology Journal-
dc.citation.volume20-
dc.identifier.bibliographicCitationComputational and Structural Biotechnology Journal, Vol.20, pp.4806-4815-
dc.identifier.doi10.1016/j.csbj.2022.08.064-
dc.identifier.scopusid2-s2.0-85137271175-
dc.identifier.urlwww.csbj.org-
dc.subject.keywordBioinformatics-
dc.subject.keywordCancer genomics-
dc.subject.keywordClonal evolution-
dc.subject.keywordModel system-
dc.subject.keywordPancreatic ductal adenocarcinoma-
dc.subject.keywordTumor microenvironment-
dc.type.otherReview-
dc.description.isoatrue-
dc.subject.subareaBiotechnology-
dc.subject.subareaBiophysics-
dc.subject.subareaStructural Biology-
dc.subject.subareaBiochemistry-
dc.subject.subareaGenetics-
dc.subject.subareaComputer Science Applications-
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