Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltration

Autor: Marcel Smid, F. Germán Rodríguez-González, Anieta M. Sieuwerts, Roberto Salgado, Wendy J. C. Prager-Van der Smissen, Michelle van der Vlugt-Daane, Anne van Galen, Serena Nik-Zainal, Johan Staaf, Arie B. Brinkman, Marc J. van de Vijver, Andrea L. Richardson, Aquila Fatima, Kim Berentsen, Adam Butler, Sancha Martin, Helen R. Davies, Reno Debets, Marion E. Meijer-Van Gelder, Carolien H. M. van Deurzen, Gaëtan MacGrogan, Gert G. G. M. Van den Eynden, Colin Purdie, Alastair M. Thompson, Carlos Caldas, Paul N. Span, Peter T. Simpson, Sunil R. Lakhani, Steven Van Laere, Christine Desmedt, Markus Ringnér, Stefania Tommasi, Jorunn Eyford, Annegien Broeks, Anne Vincent-Salomon, P. Andrew Futreal, Stian Knappskog, Tari King, Gilles Thomas, Alain Viari, Anita Langerød, Anne-Lise Børresen-Dale, Ewan Birney, Hendrik G. Stunnenberg, Mike Stratton, John A. Foekens, John W. M. Martens

Publikováno v: Nature Communications, Vol 7, Iss 1, Pp 1-9 (2016)

Recent studies using in depth DNA sequencing techniques led to the identification of cancer driver genes but mainly focused on the effect on their expression. Here, the authors analyse 266 cases of breast cancer and report gene expression signatures

Externí odkaz: https://doaj.org/article/0b80834b0f74411a8fac98a9ae2db59b

Supplementary Figures S1-S2 from mRNA and microRNA Expression Profiles in Circulating Tumor Cells and Primary Tumors of Metastatic Breast Cancer Patients

Autor: John W.M. Martens, John A. Foekens, Stefan Sleijfer, Jan W. Gratama, Yixin Wang, John Jiang, Jack X. Yu, Marcel Smid, Carolien H.M. van Deurzen, Raquel Ramírez-Moreno, Petra van der Spoel, Jaco Kraan, Vanja de Weerd, Anne Van Galen, Peter A. van Dam, Luc Y. Dirix, Jacqueline M.L. Stouthard, Felix E. de Jongh, Dieter Peeters, Joan Bolt-de Vries, Bianca Mostert, Anieta M. Sieuwerts

Supplementary Figures S1-S2 from mRNA and microRNA Expression Profiles in Circulating Tumor Cells and Primary Tumors of Metastatic Breast Cancer Patients

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::220726e6c8aa8ba99aa27bafc92afa2f
https://doi.org/10.1158/1078-0432.22442478

Data from A Systematic Analysis of Oncogenic Gene Fusions in Primary Colon Cancer

Autor: Emile E. Voest, Jan N.M. Ijzermans, Marco J. Koudijs, Katharina Biermann, John A. Foekens, John W.M. Martens, Fried Zwartkruis, Armel Lefebvre, Marcel Smid, Anne van Galen, Salo Ooft, Zarina S. Lalmahomed, Ronne Brunekreef, Christina Stangl, Anieta M. Sieuwerts, Markus J. van Roosmalen, Mark Pieterse, Robert R.J. Coebergh van den Braak, Wigard P. Kloosterman

Genomic rearrangements that give rise to oncogenic gene fusions can offer actionable targets for cancer therapy. Here we present a systematic analysis of oncogenic gene fusions among a clinically well-characterized, prospectively collected set of 278

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::58a923860b81916ef0f93edf4d22c1c9
https://doi.org/10.1158/0008-5472.c.6509240.v1

Supplementary Data file from A Systematic Analysis of Oncogenic Gene Fusions in Primary Colon Cancer

Autor: Emile E. Voest, Jan N.M. Ijzermans, Marco J. Koudijs, Katharina Biermann, John A. Foekens, John W.M. Martens, Fried Zwartkruis, Armel Lefebvre, Marcel Smid, Anne van Galen, Salo Ooft, Zarina S. Lalmahomed, Ronne Brunekreef, Christina Stangl, Anieta M. Sieuwerts, Markus J. van Roosmalen, Mark Pieterse, Robert R.J. Coebergh van den Braak, Wigard P. Kloosterman

Combined supplementary data file containing: -extended materials and methods, describing details of sample collection and isolation, sequencing data generation, cell culturing and protein analysis. -Supplementary Figure S1 showing patient inclusion i

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::0e167d5f6d01e19f2822c7d205357c4d
https://doi.org/10.1158/0008-5472.22415339.v1

The circular RNome of primary breast cancer

Autor: Steven Van Laere, Colin A. Purdie, John A. Foekens, Gaëten MacGrogan, Marcel Smid, Andrew Futreal, Vanja de Weerd, Paul N. Span, Marc J. van de Vijver, Jorunn E. Eyfjord, Serena Nik-Zainal, F. Germán Rodríguez-González, Roberto Salgado, Peter T. Simpson, Christine Desmedt, Wendy J. C. Prager-van der Smissen, Fred C.G.J. Sweep, Tari A. King, Adam Butler, Michael R. Stratton, Carlos Caldas, Gert Van den Eynden, Sunil R. Lakhani, Saskia M. Wilting, Alastair M. Thompson, Angelo Paradiso, John W.M. Martens, Anne Vincent-Salomon, Johan Staaf, Anne van Galen, Sancha Martin, Hendrik G. Stunnenberg, Annegien Broeks, Andrea L. Richardson, Anne Lise Børresen-Dale, Helen Davies, Michelle van der Vlugt-Daane, Katharina Uhr, Stian Knappskog, Alain Viari, Anieta M. Sieuwerts

Publikováno v: Genome Research
Genome Research, 29(3), 356-366. Cold Spring Harbor Laboratory Press
Genome research, 29(3), 356-366. Cold Spring Harbor Laboratory Press
Genome Research, Cold Spring Harbor Laboratory Press, 2019, 29 (3), pp.356-366. ⟨10.1101/gr.238121.118⟩
Genome Research, 29, 356-366
Genome research, 29 (3
Genome research
Genome Research, 29, 3, pp. 356-366
Genome Research, 2019, 29 (3), pp.356-366. ⟨10.1101/gr.238121.118⟩

Publisher's version (útgefin grein)
Circular RNAs (circRNAs) are a class of RNAs that is under increasing scrutiny, although their functional roles are debated. We analyzed RNA-seq data of 348 primary breast cancers and developed a method to id

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::aeaec39736da12ab3c55a51c423c7df3
https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=85062091770&origin=inward