Protocol for functional profiling of patient-derived organoids for precision oncology
Summary: Functional precision oncology—a strategy based on perturbing primary tumor cells from cancer patients—could provide a road forward for personalized treatment. Here, we present a comprehensive protocol covering generation and culture of patient-derived colorectal organoids, isolation and exp...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2024-03-01
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| Series: | STAR Protocols |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2666166724000522 |
| _version_ | 1797304443382792192 |
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| author | Niloofar Nemati Nina Boeck Giorgia Lamberti Rebecca Lisandrelli Zlatko Trajanoski |
| author_facet | Niloofar Nemati Nina Boeck Giorgia Lamberti Rebecca Lisandrelli Zlatko Trajanoski |
| author_sort | Niloofar Nemati |
| collection | DOAJ |
| description | Summary: Functional precision oncology—a strategy based on perturbing primary tumor cells from cancer patients—could provide a road forward for personalized treatment. Here, we present a comprehensive protocol covering generation and culture of patient-derived colorectal organoids, isolation and expansion of tumor-infiltrating lymphocytes (TILs), and isolation and culture of peripheral blood mononuclear cells (PBMCs). With this protocol, samples fulfilling the demands for performing multi-omics analysis, e.g., RNA sequencing (RNA-seq), whole-exome sequencing (WES), single-cell RNA sequencing (scRNA-seq), and (phospho-)proteomics, can be generated.For complete details on the use and execution of this protocol, please refer to Plattner et al. (2023).1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. |
| first_indexed | 2024-03-08T00:09:36Z |
| format | Article |
| id | doaj.art-d5638cdb5ea84d4ba16efc736d3c3b99 |
| institution | Directory Open Access Journal |
| issn | 2666-1667 |
| language | English |
| last_indexed | 2024-03-08T00:09:36Z |
| publishDate | 2024-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj.art-d5638cdb5ea84d4ba16efc736d3c3b992024-02-17T06:42:18ZengElsevierSTAR Protocols2666-16672024-03-0151102887Protocol for functional profiling of patient-derived organoids for precision oncologyNiloofar Nemati0Nina Boeck1Giorgia Lamberti2Rebecca Lisandrelli3Zlatko Trajanoski4Biocenter, Institute of Bioinformatics, Medical University of Innsbruck, 6020 Innsbruck, AustriaBiocenter, Institute of Bioinformatics, Medical University of Innsbruck, 6020 Innsbruck, AustriaBiocenter, Institute of Bioinformatics, Medical University of Innsbruck, 6020 Innsbruck, AustriaBiocenter, Institute of Bioinformatics, Medical University of Innsbruck, 6020 Innsbruck, AustriaBiocenter, Institute of Bioinformatics, Medical University of Innsbruck, 6020 Innsbruck, Austria; Corresponding authorSummary: Functional precision oncology—a strategy based on perturbing primary tumor cells from cancer patients—could provide a road forward for personalized treatment. Here, we present a comprehensive protocol covering generation and culture of patient-derived colorectal organoids, isolation and expansion of tumor-infiltrating lymphocytes (TILs), and isolation and culture of peripheral blood mononuclear cells (PBMCs). With this protocol, samples fulfilling the demands for performing multi-omics analysis, e.g., RNA sequencing (RNA-seq), whole-exome sequencing (WES), single-cell RNA sequencing (scRNA-seq), and (phospho-)proteomics, can be generated.For complete details on the use and execution of this protocol, please refer to Plattner et al. (2023).1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.http://www.sciencedirect.com/science/article/pii/S2666166724000522CancerSequencingRNAseqOrganoidsSystems biology |
| spellingShingle | Niloofar Nemati Nina Boeck Giorgia Lamberti Rebecca Lisandrelli Zlatko Trajanoski Protocol for functional profiling of patient-derived organoids for precision oncology STAR Protocols Cancer Sequencing RNAseq Organoids Systems biology |
| title | Protocol for functional profiling of patient-derived organoids for precision oncology |
| title_full | Protocol for functional profiling of patient-derived organoids for precision oncology |
| title_fullStr | Protocol for functional profiling of patient-derived organoids for precision oncology |
| title_full_unstemmed | Protocol for functional profiling of patient-derived organoids for precision oncology |
| title_short | Protocol for functional profiling of patient-derived organoids for precision oncology |
| title_sort | protocol for functional profiling of patient derived organoids for precision oncology |
| topic | Cancer Sequencing RNAseq Organoids Systems biology |
| url | http://www.sciencedirect.com/science/article/pii/S2666166724000522 |
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