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RAtional design of canceR ImmunoTherapY: one size does not fit all

Deliverables

Data Management Plan

The participant will submit a plan describing how to deal with the research data generated in the current project

Publications

Visual cohort comparison for spatial single-cell omics-data

Author(s): Antonios Somarakis, Marieke E. Ijsselsteijn, Sietse J. Luk, Boyd Kenkhuis, Noel F.C.C. de Miranda, Boudewijn P.F. Lelieveldt, Thomas Hollt
Published in: IEEE Transactions on Visualization and Computer Graphics, Issue 27/2, 2021, Page(s) 733-743, ISSN 1077-2626
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tvcg.2020.3030336

Immune-based biomarker accurately predicts response to imiquimod immunotherapy in cervical high-grade squamous intraepithelial lesions

Author(s): Ziena Abdulrahman; Natasja Hendriks; Arnold J Kruse; Antonios Somarakis; Anna J M van de Sande; Heleen J van Beekhuizen; Jurgen M J Piek; Noel F C C de Miranda; Loes F S Kooreman; Brigitte F M Slangen; Sjoerd H van der Burg; Peggy J de Vos van Steenwijk; Edith M G van Esch
Published in: Journal for ImmunoTherapy of Cancer, 10(11):e005288. BioMed Central Ltd., Issue 2, 2022, ISSN 2051-1426
Publisher: BMJ
DOI: 10.1136/jitc-2022-005288

Semi‐automated background removal limits data loss and normalizes imaging mass cytometry data

Author(s): Marieke E. Ijsselsteijn, Antonios Somarakis, Boudewijn P. F. Lelieveldt, Thomas Höllt, Noel F. C. C. Miranda
Published in: Cytometry Part A, 2021, ISSN 1552-4922
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/cyto.a.24480

Transcriptomic and immunophenotypic profiling reveals molecular and immunological hallmarks of colorectal cancer tumourigenesis

Author(s): Jessica Roelands; Manon van der Ploeg; Marieke E Ijsselsteijn; Hao Dang; Jurjen J Boonstra; James C H Hardwick; Lukas J A C Hawinkels; Hans Morreau; Noel F C C de Miranda
Published in: Gut, Issue 1, 2022, ISSN 1468-3288
Publisher: BMJ
DOI: 10.1136/gutjnl-2022-327608

Local and systemic immune profiles of human pancreatic ductal adenocarcinoma revealed by single-cell mass cytometry

Author(s): Brouwer TP, de Vries NL, Abdelaal T, Krog RT, Li Z, Ruano D, Fariña A, Lelieveldt BPF, Morreau H, Bonsing BA, Vahrmeijer AL, Koning F, de Miranda NFCC
Published in: J Immunother Cancer, 2022, ISSN 2051-1426
Publisher: BMJ
DOI: 10.1136/jitc-2022-004638

Tumor-specific T cells support chemokine-driven spatial organization of intratumoral immune microaggregates needed for long survival

Author(s): Ziena Abdulrahman; Saskia J Santegoets; Gregor Sturm; Pornpimol Charoentong; Marieke E Ijsselsteijn; Antonios Somarakis; Thomas Höllt; Francesca Finotello; Zlatko Trajanoski; Sylvia L van Egmond; Dana A M Mustafa; Marij J P Welters; Noel F C C de Miranda; Sjoerd H van der Burg
Published in: J Immunother Cancer, Issue 2, 2022, ISSN 1756-1833
Publisher: BMJ
DOI: 10.1136/jitc-2021-004346

Immunophenotype of Gastric Tumors Unveils a Pleiotropic Role of Regulatory T Cells in Tumor Development

Author(s): Sara Rocha; Afonso P Basto; Marieke E. Ijsselsteijn; Sara Pinto Teles; Maria M. Azevedo; Gilza Gonçalves; Irene Gullo; Gabriela M. Almeida; Joaquín J Maqueda; Marta I. Oliveira; Fátima Carneiro; João T. Barata; Luis Graca; Noel F C C de Miranda; Joana Carvalho; Carla Oliveira
Published in: Cancers, Issue 4, 2021, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)

Immunotherapy for pancreatic cancer: chasing the light at the end of the tunnel

Author(s): Thomas P. Brouwer, Alexander L. Vahrmeijer, Noel F. C. C. de Miranda
Published in: Cellular Oncology, Issue 44/2, 2021, Page(s) 261-278, ISSN 2211-3428
Publisher: Springer Verlag
DOI: 10.1007/s13402-021-00587-z

Revising the Role of Integrin Subunit β4 Expression in Colon Cancer Progression and Survival

Author(s): Eva Rademaker; Esther Bastiaannet; Jan Oosting; Neeltje G. Dekker-Ensink; Peter J. K. Kuppen; Noel F. C. C. de Miranda; Gerrit J. Liefers
Published in: Journal of Gastrointestinal Cancer, 2022, ISSN 1941-6636
Publisher: Springer
DOI: 10.1007/s12029-021-00787-8

Linking Immunity with Genomics in Sarcomas: Is Genomic Complexity an Immunogenic Trigger?

Author(s): Siddh van Oost, Debora M. Meijer, Marieke L. Kuijjer, Judith V. M. G. Bovée, and Noel F. C. C. de Miranda
Published in: Biomedicines, 2021, ISSN 2078-2489
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/biomedicines9081048

Unraveling the Complexity of the Cancer Microenvironment With Multidimensional Genomic and Cytometric Technologies

Author(s): Natasja L. de Vries, Ahmed Mahfouz, Frits Koning, Noel F. C. C. de Miranda
Published in: Frontiers in Oncology, Issue 10, 2020, ISSN 2234-943X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fonc.2020.01254

Therapeutic targeting of TGF-β in cancer: hacking a master switch of immune suppression

Author(s): Jitske van den Bulk, Noel F.C.C. de Miranda, Peter ten Dijke
Published in: Clinical Science, Issue 135/1, 2021, Page(s) 35-52, ISSN 0143-5221
Publisher: Portland Press, Ltd.
DOI: 10.1042/cs20201236

Discordant prognosis of mismatch repair deficiency in colorectal and endometrial cancer reflects variation in antitumour immune response and immune escape

Author(s): Mark A Glaire; Neil AJ Ryan; Marieke E Ijsselsteijn; Katarzyna Kedzierska; Sofia Obolenski; Reem Ali; Emma J Crosbie; Tjalling Bosse; Noel FCC Miranda; David N Church
Published in: Journal of Pathology, Issue 2, 2022, ISSN 1096-9896
Publisher: Pathological Society of Great Britain and Ireland
DOI: 10.1002/path.5894

Targeting pancreatic cancer by TAK-981: a SUMOylation inhibitor that activates the immune system and blocks cancer cell cycle progression in a preclinical model

Author(s): Sumit Kumar, Mark J A Schoonderwoerd, Jessie S Kroonen, Ilona J de Graaf, Marjolein Sluijter, Dina Ruano, Román González-Prieto, Matty Verlaan-de Vries, Jasper Rip, Ramon Arens, Noel F C C de Miranda, Lukas J A C Hawinkels, Thorbald van Hall, Alfred C O Vertegaal
Published in: Gut, 2022, ISSN 1752-069X
Publisher: BMJ
DOI: 10.1136/gutjnl-2021-324834

γδ T cells are effectors of immune checkpoint blockade in mismatch repair-deficient colon cancers with antigen presentation defects

Author(s): de Vries NL, van de Haar J, Veninga V, Chalabi M, Ijsselsteijn ME, van der Ploeg M, van den Bulk J, Ruano D, Haanen JB, Schumacher TN, Wessels LFA, Koning F, de Miranda NF, Voest E
Published in: bioRxiv, 2021
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2021.10.14.464229

Revisiting colorectal cancer tumorigenesis with spatially-resolved gene expression profiling

Author(s): Roelands J, van der Ploeg M, Dang H, Boonstra JJ, Hardwick JCH, Hawinkels LJAC, Morreau H, de Miranda NF
Published in: bioRxiv, 2021
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2021.09.30.462502

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