Data descriptor: Protocols and characterization data for 2d, 3d, and slice-based tumor models from the predect project

Ronald De Hoogt; Marta F. Estrada; Suzana Vidic; Emma J. Davies; Annika Osswald; Michael Barbier; Vítor E. Santo; Kjersti Gjerde; Hanneke J.A.A. Van Zoggel; Sami Blom; Meng Dong; Katja Närhi; Erwin Boghaert; Catarina Brito; Yolanda Chong; Wolfgang Sommergruber; Heiko Van Der Kuip; Wytske M. Van Weerden; Emmy W. Verschuren; John Hickman; Ralph Graeser

doi:10.1038/sdata.2017.170

Data descriptor

Protocols and characterization data for 2d, 3d, and slice-based tumor models from the predect project

Ronald De Hoogt, Marta F. Estrada, Suzana Vidic, Emma J. Davies, Annika Osswald, Michael Barbier, Vítor E. Santo, Kjersti Gjerde, Hanneke J.A.A. Van Zoggel, Sami Blom, Meng Dong, Katja Närhi, Erwin Boghaert, Catarina Brito, Yolanda Chong, Wolfgang Sommergruber, Heiko Van Der Kuip, Wytske M. Van Weerden, Emmy W. Verschuren, John Hickman & 1 others Ralph Graeser

Instituto de Tecnologia Química e Biológica António Xavier (ITQB)

Research output: Contribution to journal › Article

5 Citations (Scopus)

Abstract

Two-dimensional (2D) culture of cancer cells in vitro does not recapitulate the three-dimensional (3D) architecture, heterogeneity and complexity of human tumors. More representative models are required that better reflect key aspects of tumor biology. These are essential studies of cancer biology and immunology as well as for target validation and drug discovery. The Innovative Medicines Initiative (IMI) consortium PREDECT (www.predect.eu) characterized in vitro models of three solid tumor types with the goal to capture elements of tumor complexity and heterogeneity. 2D culture and 3D mono-and stromal co-cultures of increasing complexity, and precision-cut tumor slice models were established. Robust protocols for the generation of these platforms are described. Tissue microarrays were prepared from all the models, permitting immunohistochemical analysis of individual cells, capturing heterogeneity. 3D cultures were also characterized using image analysis. Detailed step-by-step protocols, exemplary datasets from the 2D, 3D, and slice models, and refined analytical methods were established and are presented.

Original language	English
Article number	170170
Journal	Scientific Data
Volume	4
DOIs	https://doi.org/10.1038/sdata.2017.170
Publication status	Published - 21 Nov 2017

Fingerprint

Cite this

De Hoogt, R., Estrada, M. F., Vidic, S., Davies, E. J., Osswald, A., Barbier, M., ... Graeser, R. (2017). Data descriptor: Protocols and characterization data for 2d, 3d, and slice-based tumor models from the predect project. Scientific Data, 4, [170170]. https://doi.org/10.1038/sdata.2017.170

De Hoogt, Ronald ; Estrada, Marta F. ; Vidic, Suzana ; Davies, Emma J. ; Osswald, Annika ; Barbier, Michael ; Santo, Vítor E. ; Gjerde, Kjersti ; Van Zoggel, Hanneke J.A.A. ; Blom, Sami ; Dong, Meng ; Närhi, Katja ; Boghaert, Erwin ; Brito, Catarina ; Chong, Yolanda ; Sommergruber, Wolfgang ; Van Der Kuip, Heiko ; Van Weerden, Wytske M. ; Verschuren, Emmy W. ; Hickman, John ; Graeser, Ralph. / Data descriptor : Protocols and characterization data for 2d, 3d, and slice-based tumor models from the predect project. In: Scientific Data. 2017 ; Vol. 4.

@article{68e265ef10db4eb5ac64260e17d16c0f,

title = "Data descriptor: Protocols and characterization data for 2d, 3d, and slice-based tumor models from the predect project",

abstract = "Two-dimensional (2D) culture of cancer cells in vitro does not recapitulate the three-dimensional (3D) architecture, heterogeneity and complexity of human tumors. More representative models are required that better reflect key aspects of tumor biology. These are essential studies of cancer biology and immunology as well as for target validation and drug discovery. The Innovative Medicines Initiative (IMI) consortium PREDECT (www.predect.eu) characterized in vitro models of three solid tumor types with the goal to capture elements of tumor complexity and heterogeneity. 2D culture and 3D mono-and stromal co-cultures of increasing complexity, and precision-cut tumor slice models were established. Robust protocols for the generation of these platforms are described. Tissue microarrays were prepared from all the models, permitting immunohistochemical analysis of individual cells, capturing heterogeneity. 3D cultures were also characterized using image analysis. Detailed step-by-step protocols, exemplary datasets from the 2D, 3D, and slice models, and refined analytical methods were established and are presented.",

author = "{De Hoogt}, Ronald and Estrada, {Marta F.} and Suzana Vidic and Davies, {Emma J.} and Annika Osswald and Michael Barbier and Santo, {V{\'i}tor E.} and Kjersti Gjerde and {Van Zoggel}, {Hanneke J.A.A.} and Sami Blom and Meng Dong and Katja N{\"a}rhi and Erwin Boghaert and Catarina Brito and Yolanda Chong and Wolfgang Sommergruber and {Van Der Kuip}, Heiko and {Van Weerden}, {Wytske M.} and Verschuren, {Emmy W.} and John Hickman and Ralph Graeser",

year = "2017",

month = "11",

day = "21",

doi = "10.1038/sdata.2017.170",

language = "English",

volume = "4",

journal = "Scientific Data",

issn = "2052-4463",

publisher = "Nature Publishing Group",

}

De Hoogt, R, Estrada, MF, Vidic, S, Davies, EJ, Osswald, A, Barbier, M, Santo, VE, Gjerde, K, Van Zoggel, HJAA, Blom, S, Dong, M, Närhi, K, Boghaert, E, Brito, C, Chong, Y, Sommergruber, W, Van Der Kuip, H, Van Weerden, WM, Verschuren, EW, Hickman, J & Graeser, R 2017, 'Data descriptor: Protocols and characterization data for 2d, 3d, and slice-based tumor models from the predect project', Scientific Data, vol. 4, 170170. https://doi.org/10.1038/sdata.2017.170

Data descriptor : Protocols and characterization data for 2d, 3d, and slice-based tumor models from the predect project. / De Hoogt, Ronald; Estrada, Marta F.; Vidic, Suzana; Davies, Emma J.; Osswald, Annika; Barbier, Michael; Santo, Vítor E.; Gjerde, Kjersti; Van Zoggel, Hanneke J.A.A.; Blom, Sami; Dong, Meng; Närhi, Katja; Boghaert, Erwin; Brito, Catarina; Chong, Yolanda; Sommergruber, Wolfgang; Van Der Kuip, Heiko; Van Weerden, Wytske M.; Verschuren, Emmy W.; Hickman, John; Graeser, Ralph.

In: Scientific Data, Vol. 4, 170170, 21.11.2017.

Research output: Contribution to journal › Article

TY - JOUR

T1 - Data descriptor

T2 - Protocols and characterization data for 2d, 3d, and slice-based tumor models from the predect project

AU - De Hoogt, Ronald

AU - Estrada, Marta F.

AU - Vidic, Suzana

AU - Davies, Emma J.

AU - Osswald, Annika

AU - Barbier, Michael

AU - Santo, Vítor E.

AU - Gjerde, Kjersti

AU - Van Zoggel, Hanneke J.A.A.

AU - Blom, Sami

AU - Dong, Meng

AU - Närhi, Katja

AU - Boghaert, Erwin

AU - Brito, Catarina

AU - Chong, Yolanda

AU - Sommergruber, Wolfgang

AU - Van Der Kuip, Heiko

AU - Van Weerden, Wytske M.

AU - Verschuren, Emmy W.

AU - Hickman, John

AU - Graeser, Ralph

PY - 2017/11/21

Y1 - 2017/11/21

N2 - Two-dimensional (2D) culture of cancer cells in vitro does not recapitulate the three-dimensional (3D) architecture, heterogeneity and complexity of human tumors. More representative models are required that better reflect key aspects of tumor biology. These are essential studies of cancer biology and immunology as well as for target validation and drug discovery. The Innovative Medicines Initiative (IMI) consortium PREDECT (www.predect.eu) characterized in vitro models of three solid tumor types with the goal to capture elements of tumor complexity and heterogeneity. 2D culture and 3D mono-and stromal co-cultures of increasing complexity, and precision-cut tumor slice models were established. Robust protocols for the generation of these platforms are described. Tissue microarrays were prepared from all the models, permitting immunohistochemical analysis of individual cells, capturing heterogeneity. 3D cultures were also characterized using image analysis. Detailed step-by-step protocols, exemplary datasets from the 2D, 3D, and slice models, and refined analytical methods were established and are presented.

AB - Two-dimensional (2D) culture of cancer cells in vitro does not recapitulate the three-dimensional (3D) architecture, heterogeneity and complexity of human tumors. More representative models are required that better reflect key aspects of tumor biology. These are essential studies of cancer biology and immunology as well as for target validation and drug discovery. The Innovative Medicines Initiative (IMI) consortium PREDECT (www.predect.eu) characterized in vitro models of three solid tumor types with the goal to capture elements of tumor complexity and heterogeneity. 2D culture and 3D mono-and stromal co-cultures of increasing complexity, and precision-cut tumor slice models were established. Robust protocols for the generation of these platforms are described. Tissue microarrays were prepared from all the models, permitting immunohistochemical analysis of individual cells, capturing heterogeneity. 3D cultures were also characterized using image analysis. Detailed step-by-step protocols, exemplary datasets from the 2D, 3D, and slice models, and refined analytical methods were established and are presented.

UR - http://www.scopus.com/inward/record.url?scp=85034853724&partnerID=8YFLogxK

U2 - 10.1038/sdata.2017.170

DO - 10.1038/sdata.2017.170

M3 - Article

VL - 4

JO - Scientific Data

JF - Scientific Data

SN - 2052-4463

M1 - 170170

ER -

Access to Document

10.1038/sdata.2017.170

Link to publication in Scopus