Pheno-seq - linking visual features and gene expression in 3D cell culture systems.

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ID: 53485
2019
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Abstract
Patient-derived 3D cell culture systems are currently advancing cancer research since they potentiate the molecular analysis of tissue-like properties and drug response under well-defined conditions. However, our understanding of the relationship between the heterogeneity of morphological phenotypes and the underlying transcriptome is still limited. To address this issue, we here introduce "pheno-seq" to directly link visual features of 3D cell culture systems with profiling their transcriptome. As prototypic applications breast and colorectal cancer (CRC) spheroids were analyzed by pheno-seq. We identified characteristic gene expression signatures of epithelial-to-mesenchymal transition that are associated with invasive growth behavior of clonal breast cancer spheroids. Furthermore, we linked long-term proliferative capacity in a patient-derived model of CRC to a lowly abundant PROX1-positive cancer stem cell subtype. We anticipate that the ability to integrate transcriptome analysis and morphological patho-phenotypes of cancer cells will provide novel insight on the molecular origins of intratumor heterogeneity.
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tirier2019phenoseqscientific Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Tirier, Stephan M;Park, Jeongbin;Preußer, Friedrich;Amrhein, Lisa;Gu, Zuguang;Steiger, Simon;Mallm, Jan-Philipp;Krieger, Teresa;Waschow, Marcel;Eismann, Björn;Gut, Marta;Gut, Ivo G;Rippe, Karsten;Schlesner, Matthias;Theis, Fabian;Fuchs, Christiane;Ball, Claudia R;Glimm, Hanno;Eils, Roland;Conrad, Christian;
Journal Scientific reports
Year 2019
DOI
10.1038/s41598-019-48771-4
URL
Keywords
banking regulations dodd-frank act fdic insurance fiduciary activities financial reporting governmental oversight

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