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

Tirier SM, Park J, PreuSSer F, Amrhein L, Gu Z, Steiger S, Mallm J-P, Krieger T, Waschow M, Eismann B, Gut M, et al. (2019)
Scientific reports 9: 12367 .

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Abstract / Bemerkung
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.
Erscheinungsjahr
2019
Zeitschriftentitel
Scientific reports
Band
9
Art.-Nr.
12367
eISSN
2045-2322
Page URI
https://pub.uni-bielefeld.de/record/2937239

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Tirier SM, Park J, PreuSSer F, et al. Pheno-seq - linking visual features and gene expression in 3D cell culture systems. Scientific reports. 2019;9: 12367 .
Tirier, S. M., Park, J., PreuSSer, F., Amrhein, L., Gu, Z., Steiger, S., Mallm, J. - P., et al. (2019). Pheno-seq - linking visual features and gene expression in 3D cell culture systems. Scientific reports, 9, 12367 . doi:10.1038/s41598-019-48771-4
Tirier, S. M., Park, J., PreuSSer, F., Amrhein, L., Gu, Z., Steiger, S., Mallm, J. - P., Krieger, T., Waschow, M., Eismann, B., et al. (2019). Pheno-seq - linking visual features and gene expression in 3D cell culture systems. Scientific reports 9:12367 .
Tirier, S.M., et al., 2019. Pheno-seq - linking visual features and gene expression in 3D cell culture systems. Scientific reports, 9: 12367 .
S.M. Tirier, et al., “Pheno-seq - linking visual features and gene expression in 3D cell culture systems”, Scientific reports, vol. 9, 2019, : 12367 .
Tirier, S.M., Park, J., PreuSSer, F., Amrhein, L., Gu, Z., Steiger, S., Mallm, J.-P., Krieger, T., Waschow, M., Eismann, B., Gut, M., Gut, I.G., Rippe, K., Schlesner, M., Theis, F., Fuchs, C., Ball, C.R., Glimm, H., Eils, R., Conrad, C.: Pheno-seq - linking visual features and gene expression in 3D cell culture systems. Scientific reports. 9, : 12367 (2019).
Tirier, Stephan M, Park, Jeongbin, PreuSSer, Friedrich, Amrhein, Lisa, Gu, Zuguang, Steiger, Simon, Mallm, Jan-Philipp, Krieger, Teresa, Waschow, Marcel, Eismann, Bjorn, Gut, Marta, Gut, Ivo G, Rippe, Karsten, Schlesner, Matthias, Theis, Fabian, Fuchs, Christiane, Ball, Claudia R, Glimm, Hanno, Eils, Roland, and Conrad, Christian. “Pheno-seq - linking visual features and gene expression in 3D cell culture systems”. Scientific reports 9 (2019): 12367 .

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