Protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordoma
Summary: Here, we present a protocol for constructing both in vivo and in vitro models of chordoma, integrating clinical and proteomic subtyping to enable a comprehensive analysis. We detail the steps for tissue sample preparation and tandem mass tag proteomic analysis and apply non-negative matrix...
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| Language: | English |
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Elsevier
2025-06-01
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| Series: | STAR Protocols |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S266616672500125X |
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| author | Jianxuan Gao Jinbo Hu Tong Meng |
| author_facet | Jianxuan Gao Jinbo Hu Tong Meng |
| author_sort | Jianxuan Gao |
| collection | DOAJ |
| description | Summary: Here, we present a protocol for constructing both in vivo and in vitro models of chordoma, integrating clinical and proteomic subtyping to enable a comprehensive analysis. We detail the steps for tissue sample preparation and tandem mass tag proteomic analysis and apply non-negative matrix factorization for molecular classification. Furthermore, we classify chordoma cell lines and establish cell-derived xenograft (CDX) and patient-derived xenograft (PDX) models in mice for investigating drug response.For complete details on the use and execution of this protocol, please refer to Yin et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. |
| format | Article |
| id | doaj-art-e8d2fb83dcdf433a8d11f8600515ec3a |
| institution | DOAJ |
| issn | 2666-1667 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj-art-e8d2fb83dcdf433a8d11f8600515ec3a2025-08-20T02:48:18ZengElsevierSTAR Protocols2666-16672025-06-016210371910.1016/j.xpro.2025.103719Protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordomaJianxuan Gao0Jinbo Hu1Tong Meng2Department of Orthopedics, Shanghai Bone Tumor Institute, Shanghai General Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai, China; Tongji University Cancer Center, Shanghai Tenth People’s Hospital, School of Medicine, Tongji University, Shanghai, ChinaSpinal Tumor Center, Department of Orthopaedic Oncology, No.905 Hospital of PLA Navy, Changzheng Hospital, Naval Medical University, Shanghai, ChinaDepartment of Orthopedics, Shanghai Bone Tumor Institute, Shanghai General Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai, China; Tongji University Cancer Center, Shanghai Tenth People’s Hospital, School of Medicine, Tongji University, Shanghai, China; Corresponding authorSummary: Here, we present a protocol for constructing both in vivo and in vitro models of chordoma, integrating clinical and proteomic subtyping to enable a comprehensive analysis. We detail the steps for tissue sample preparation and tandem mass tag proteomic analysis and apply non-negative matrix factorization for molecular classification. Furthermore, we classify chordoma cell lines and establish cell-derived xenograft (CDX) and patient-derived xenograft (PDX) models in mice for investigating drug response.For complete details on the use and execution of this protocol, please refer to Yin et al.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/S266616672500125XCancerCell cultureCell isolationModel OrganismsMolecular BiologyProteomics |
| spellingShingle | Jianxuan Gao Jinbo Hu Tong Meng Protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordoma STAR Protocols Cancer Cell culture Cell isolation Model Organisms Molecular Biology Proteomics |
| title | Protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordoma |
| title_full | Protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordoma |
| title_fullStr | Protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordoma |
| title_full_unstemmed | Protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordoma |
| title_short | Protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordoma |
| title_sort | protocol for constructing in vivo and in vitro models integrating clinical and proteomic subtypes of chordoma |
| topic | Cancer Cell culture Cell isolation Model Organisms Molecular Biology Proteomics |
| url | http://www.sciencedirect.com/science/article/pii/S266616672500125X |
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