RESISTANCE UNDER COMBINATORIAL TREATMENT IN ER+ AND ER- BREAST CANCER.

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

MTD Assessment protocol.

For standardized MTD assessments in drug combination studies

Protocol for standardized drug combination

A protocol for standardized drug combination screening and data analysis for both cell lines and expanded tumor material from PDX models.

Modeling and simulation methods

2 scientific papers describing the modeling and simulation methods and results where clinical trials are reproduced and resistance mechanism are investigated.

Molecular analysis of pts treatments with drug combinations

A report describing the molecular analyses of treating patients with neoadjuvant therapies.

Performance of the segmentation and IG approach on images.

Trained network and report on performance of the segmentation and IG approach on images.

Quality plan & risk registry

Quality plan & risk registry, used to monitor risks and assess quality/timing of results.

Bayesian models for drug synergies

A manuscript prepared for publication in a scientific journal describing the developed Bayesian modelling framework for predicting drug synergistic effects in drug combination experiments

Data Integration Report

Data integration report Describing the data integration process from existing datasets from CTs

Biological results inferred from cancer samples.

A report describing the approach to WSIs and an evaluation of its performance, as well as biological results inferred from cancer samples.

Blueprint of breast tumor microenvironment

Blueprint of breast tumor microenvironment based on scRNA-Seq, CITE-seq and TCR-Seq.

scRNA-Seq data

Second batch of raw seq. data. Raw sequencing (scRNA-Seq, CITE-Seq, scTCR-seq) data available on the second batch of patients (36-70).

Dissemination Plan

Dissemination Plan, describing the actions foreseen for dissemination and reporting on the dissemination framework established for the project.

In-silico simulation software

An open-source software for in silico simulations of drug response for the drug treatments used in the studied clinical trials.

Data management database

Data management database with front end ready.

Bayesian modelling framework for predicting drug synergies

An open-source software implementation of the developed Bayesian modelling framework for predicting drug synergistic effects in drug combination experiments

Data management plan

The DMP needs to be updated over the course of the project whenever significant changes arise, such as (but not limited to): - new data - changes in consortium policies (e.g. new innovation potential, decision to file for a patent) - changes in consortium composition and external factors (e.g. new consortium members joining or old members leaving).

Publications

Correlative Biomarker Analysis of Intrinsic Subtypes and Efficacy Across the MONALEESA Phase III Studies

Author(s): Aleix Prat; Anwesha Chaudhury; Nadia Solovieff; Laia Paré; D. Martinez; Nuria Chic; Olga Martínez-Sáez; Fara Brasó-Maristany; Agnes Lteif; Tetiana Taran; Naveen Babbar; Fei Su
Published in: J Clin Oncol., Issue 1, 2021, ISSN 1527-7755
Publisher: American Society of Clinical Oncology
DOI: 10.1200/jco.20.02977

A scalable solver for a stochastic, hybrid cellular automaton model of personalized breast cancer therapy.

Author(s): Xiaoran Lai; Håkon A. Taskén; Torgeir Mo; Simon W. Funke; Arnoldo Frigessi; Arnoldo Frigessi; Marie E. Rognes; Alvaro Köhn-Luque
Published in: International Journal for Numerical Methods in Biomedical Engineering, Issue 16, 2021, Page(s) e3542, ISSN 2040-7939
Publisher: John Wiley & Sons Ltd.
DOI: 10.48550/arxiv.2105.00448

bayesynergy: flexible Bayesian modelling of synergistic interaction effects in in vitro drug combination experiments

Author(s): Leiv Rønneberg, Andrea Cremaschi, Robert Hanes, Jorrit M Enserink, Manuela Zucknick
Published in: Briefings in Bioinformatics, 2021, ISSN 1467-5463
Publisher: Oxford University Press
DOI: 10.1093/bib/bbab251

A Prognostic Model Based on PAM50 and Clinical Variables (PAM50MET) for Metastatic Hormone Receptor–positive HER2-negative Breast Cancer

Author(s): Aleix Prat, Yi-Hsuan Tsai, Tomás Pascual, Laia Paré, Barbara Adamo, Maria Vidal, Fara Brasó-Maristany, Patricia Galván, Jan Christoph Brase, Vanessa Rodrik-Outmezguine, Stephen Johnston, Eva Ciruelos, Joel S. Parker
Published in: Clinical Cancer Research, Issue 26/23, 2020, Page(s) 6141-6148, ISSN 1078-0432
Publisher: American Association for Cancer Research
DOI: 10.1158/1078-0432.ccr-20-2793

Obesity-associated changes in molecular biology of primary breast cancer

Author(s): Ha-Linh Nguyen; Tatjana Geukens; Marion Maetens; Samuel Aparicio; Ayse Bassez; Ake Borg; Jane Brock; Annegien Broeks; Carlos Caldas; Fatima Cardoso; Maxim De Schepper; Mauro Delorenzi; Caroline A. Drukker; Annuska M. Glas; Andrew R. Green; Edoardo Isnaldi; Jórunn Eyfjörð; Hazem Khout; Stian Knappskog; Savitri Krishnamurthy; Sunil R. Lakhani; Anita Langerod; John W. M. Martens; Amy E. McCart Ree
Published in: Nature Communications, Vol 14, Iss 1, Pp 1-17 (2023), Issue 19, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.21203/rs.3.rs-2377863/v1

FGFR4 regulates tumor subtype differentiation in luminal breast cancer and metastatic disease

Author(s): Susana García-Recio; Aatish Thennavan; Michael P. East; Joel S. Parker; Juan Miguel Cejalvo; Joseph P. Garay; Daniel P. Hollern; Xiaping He; Kevin R. Mott; Patricia Galván; Cheng Fan; Sara R. Selitsky; Alisha R. Coffey; David Marron; Fara Brasó-Maristany; Octavio Burgues; Joan Albanell; Federico Rojo; Ana Lluch; Eduardo Martínez de Dueñas; Jeffery M. Rosen; Gary L. Johnson; Lisa A. Carey; Ale
Published in: instname:, Issue 12, 2020, ISSN 0021-9738
Publisher: American Society for Clinical Investigation
DOI: 10.1172/jci130323

Intrinsic subtypes and therapeutic decision-making in hormone receptor-positive/HER2-negative metastatic breast cancer with visceral crisis: A case report

Author(s): Francesco Schettini, Elia Seguí, Benedetta Conte, Esther Sanfeliu, Blanca Gonzalez-Farre , Pedro Jares , Sergi Vidal-Sicart , Sergi Ganau , Isaac Cebrecos, Fara Brasó-Maristany , Montserrat Muñoz, Aleix Prat, Maria Vidal
Published in: Frontiers Oncol., Issue 12, 2022, ISSN 2234-943X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fonc.2022.1009352

Quantification of Tumor Hypoxia through Unsupervised Modelling of Consumption and Supply Hypoxia MR Imaging in Breast Cancer

Author(s): Torgeir Mo; Siri Helene Bertelsen Brandal; Alvaro Köhn-Luque; Olav Engebraaten; Vessela N. Kristensen; Thomas Fleischer; Tord Hompland; Therese Seierstad
Published in: Cancers; Volume 14; Issue 5; Pages: 1326, Issue 3, 2022, ISSN 2072-6694
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cancers14051326

Efficient gene expression signature for a breast cancer immuno-subtype

Author(s): Ben Galili, Xavier Tekpli, Vessela N. Kristensen, Zohar Yakhini
Published in: PLOS ONE, Issue 16/1, 2021, Page(s) e0245215, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0245215

Modeling of Mouse Experiments Suggests that Optimal Anti-Hormonal Treatment for Breast Cancer is Diet-Dependent

Author(s): Tuğba Akman, Lisa M. Arendt, Jürgen Geisler, Vessela N. Kristensen, Arnoldo Frigessi, Alvaro Köhn-Luque
Published in: Bulletin of Mathematical Biology, Issue 86, 2024, ISSN 0092-8240
Publisher: Academic Press
DOI: 10.1007/s11538-023-01253-1

Computational Model Predicts Patient Outcomes in Luminal B Breast Cancer Treated with Endocrine Therapy and CDK4/6 Inhibition

Author(s): Leonard Schmiester, Fara Brasó-Maristany, Blanca González-Farré, Tomás Pascual, Joaquín Gavilá, Xavier Tekpli, Jürgen Geisler, Vessela N. Kristensen, Arnoldo Frigessi, Aleix Prat, Alvaro Köhn-Luque
Published in: Clinical Cancer Research, 2024, Page(s) OF1-OF9, ISSN 1078-0432
Publisher: American Association for Cancer Research
DOI: 10.1158/1078-0432.ccr-24-0244

EnrichIntersect: an R package for custom set enrichment analysis and interactive visualization of intersecting sets

Author(s): Zhi Zhao, Manuela Zucknick, Tero Aittokallio
Published in: Bioinformatics Advances, Issue 2(1), 2022, Page(s) vbac073, ISSN 2635-0041
Publisher: Oxford Academic
DOI: 10.1093/bioadv/vbac073

Multivariate Bayesian structured variable selection for pharmacogenomic studies

Author(s): Zhi Zhao, Marco Banterle, Alex Lewin, Manuela Zucknick
Published in: Journal of the Royal Statistical Society Series C: Applied Statistics, Issue 73, 2024, Page(s) 420-443, ISSN 0035-9254
Publisher: Blackwell Publishing Inc.
DOI: 10.1093/jrsssc/qlad102

Cell-cycle inhibition and immune microenvironment in breast cancer treated with ribociclib and letrozole or chemotherapy

Author(s): Tomás Pascual, Aranzazu Fernandez-Martinez, Yash Agrawal, Adam D. Pfefferle, Nuria Chic, Fara Brasó-Maristany, Blanca Gonzàlez-Farré, Laia Paré, Guillermo Villacampa, Cristina Saura, Cristina Hernando, Montserrat Muñoz, Patricia Galván, Xavier Gonzàlez-Farré, Mafalda Oliveira, Miguel Gil-Gil, Eva Ciruelos, Patricia Villagrasa, Joaquín Gavilá, Aleix Prat, Charles M. Perou
Published in: npj Breast Cancer, Issue 10, 2024, ISSN 2374-4677
Publisher: NPJ
DOI: 10.1038/s41523-024-00625-7

Intrinsic Subtype and Overall Survival of Patients with Advanced HR+/HER2− Breast Cancer Treated with Ribociclib and ET: Correlative Analysis of MONALEESA-2, -3, -7

Author(s): Aleix Prat, Nadia Solovieff, Fabrice André, Joyce O'Shaughnessy, David A. Cameron, Wolfgang Janni, Gabe S. Sonke, Yoon-Sim Yap, Denise A. Yardley, Ann H. Partridge, Astrid Thuerigen, Juan Pablo Zarate, Agnes Lteif, Fei Su, Lisa A. Carey
Published in: Clinical Cancer Research, Issue 30, 2024, Page(s) 793-802, ISSN 1078-0432
Publisher: American Association for Cancer Research
DOI: 10.1158/1078-0432.ccr-23-0561

Compressive stress-mediated p38 activation required for ERα + phenotype in breast cancer

Author(s): Pauliina M, Munne; Lahja, Martikainen; Iiris, Räty; Kia, Bertula; , Nonappa; Janika, Ruuska; Hanna, Ala-Hongisto; Aino, Peura; Babette, Hollmann; Lilya, Euro; Kerim, Yavuz; Linda, Patrikainen; Maria, Salmela; Juho, Pokki; Mikko, Kivento; Juho, Väänänen; Tomi, Suomi; Liina, Nevalaita; Minna, Mutka; Panu, Kovanen; Marjut, Leidenius; Tuomo, Meretoja; Katja, Hukkinen; Outi, Monni; Jeroen, Pouwels;
Published in: Nature Communications, Issue 14, 2022, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-021-27220-9

Multiple kernel learning for integrative consensus clustering of omic datasets

Author(s): Alessandra Cabassi, Paul D W Kirk
Published in: Bioinformatics, Issue 36/18, 2020, Page(s) 4789-4796, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btaa593

Tissue-specific identification of multi-omics features for pan-cancer drug response prediction

Author(s): Zhi Zhao, Shixiong Wang, Manuela Zucknick, Tero Aittokallio
Published in: iScience, Issue 25(8), 2022, Page(s) 104767, ISSN 2589-0042
Publisher: Cell Press
DOI: 10.1016/j.isci.2022.104767

POIBM: batch correction of heterogeneous RNA-seq datasets through latent sample matching.

Author(s): Susanna Holmström, Sampsa Hautaniemi, Antti Häkkinen
Published in: Bioinformatics, 2022, ISSN 1460-2059
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btac124

CD4+ T cell activation distinguishes response to anti-PD-L1+anti-CTLA4 therapy from anti-PD-L1 monotherapy

Author(s): Amelie Franken, Michel Bila, Aurelie Mechels, Sam Kint, Jeroen Van Dessel, Valentina Pomella, Sebastiaan Vanuytven, Gino Philips, Orian Bricard, Jieyi Xiong, Bram Boeckx, Sigrid Hatse, Thomas Van Brussel, Rogier Schepers, Cedric Van Aerde, Sarah Geurs, Vincent Vandecaveye, Esther Hauben, Vincent Vander Poorten, Sara Verbandt, Katy Vandereyken, Junbin Qian, Sabine Tejpar, Thierry Voet, Paul M. Clem
Published in: Immunity, Issue 57, 2024, Page(s) 541-558.e7, ISSN 1074-7613
Publisher: Cell Press
DOI: 10.1016/j.immuni.2024.02.007

Circulating tumor DNA reveals complex biological features with clinical relevance in metastatic breast cancer

Author(s): Aleix Prat, Fara Brasó-Maristany, Olga Martínez-Sáez, Esther Sanfeliu, Youli Xia, Meritxell Bellet, Patricia Galván, Débora Martínez, Tomás Pascual, Mercedes Marín-Aguilera, Anna Rodríguez, Nuria Chic, Barbara Adamo, Laia Paré, Maria Vidal, Mireia Margelí, Ester Ballana, Marina Gómez-Rey, Mafalda Oliveira, Eudald Felip, Judit Matito, Rodrigo Sánchez-Bayona, Anna Suñol, Cristina Saura
Published in: Nature Communications, Issue 14, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-36801-9

Patritumab deruxtecan in HER2-negative breast cancer: part B results of the window-of-opportunity SOLTI-1805 TOT-HER3 trial and biological determinants of early response

Author(s): Fara Brasó-Maristany, Juan Manuel Ferrero-Cafiero, Claudette Falato, Olga Martínez-Sáez, Juan Miguel Cejalvo, Mireia Margelí, Pablo Tolosa, Francisco Javier Salvador-Bofill, Josefina Cruz, Blanca González-Farré, Esther Sanfeliu, Andreu Òdena, Violeta Serra, Francisco Pardo, Ana María Luna Barrera, Miriam Arumi, Juan Antonio Guerra, Guillermo Villacampa, Rodrigo Sánchez-Bayona, Eva Ciruelo
Published in: Nature Communications, Issue 15, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-50056-y

On the stability of log-rank test under labeling errors

Author(s): Ben Galili, Anat Samohi, Zohar Yakhini
Published in: Bioinformatics, Issue 37, 2023, Page(s) 4451-4459, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btab495

screenwerk: a modular tool for the design and analysis of drug combination screens

Author(s): Robert Hanes, Pilar Ayuda-Durán, Leiv Rønneberg, Sigve Nakken, Eivind Hovig, Manuela Zucknick, Jorrit M Enserink
Published in: Bioinformatics, Issue btac840, 2022, Page(s) 1-3, ISSN 1477-4054
Publisher: Oxford Academic
DOI: 10.1093/bioinformatics/btac840

Spatial transcriptomics inferred from pathology whole-slide images links tumor heterogeneity to survival in breast and lung cancer

Author(s): Alona Levy-Jurgenson, Xavier Tekpli, Vessela N. Kristensen, Zohar Yakhini
Published in: Scientific Reports, Issue 10/1, 2020, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-020-75708-z

Tutorial on survival modeling with applications to omics data

Author(s): Zhi Zhao, John Zobolas, Manuela Zucknick, Tero Aittokallio
Published in: Bioinformatics, Issue 40, 2024, ISSN 1367-4811
Publisher: Bioinformatics
DOI: 10.1093/bioinformatics/btae132

Decitabine potentiates efficacy of doxorubicin in a preclinical trastuzumab-resistant HER2-positive breast cancer models

Author(s): Verona Buocikova, Eleonora Marta Longhin, Eleftherios Pilalis, Chara Mastrokalou, Svetlana Miklikova, Marina Cihova, et al.
Published in: Biomedicine & Pharmacotherapy, Issue Volume 147, March 2022, 112662, 2022, ISSN 1950-6007
Publisher: Elsevier
DOI: 10.1016/j.biopha.2022.112662

miRNA normalization enables joint analysis of several datasets to increase sensitivity and to reveal novel miRNAs differentially expressed in breast cancer

Author(s): Shay Ben-Elazar, Miriam Ragle Aure, Kristin Jonsdottir, Suvi-Katri Leivonen, Vessela N. Kristensen, Emiel A. M. Janssen, Kristine Kleivi Sahlberg, Ole Christian Lingjærde, Zohar Yakhini
Published in: PLOS Computational Biology, Issue 17, 2024, Page(s) e1008608, ISSN 1553-7358
Publisher: PLOS Comput Biol
DOI: 10.1371/journal.pcbi.1008608

Respiratory complex I regulates dendritic cell maturation in explant model of human tumor immune microenvironment

Author(s): Rita Turpin, Ruixian Liu, Pauliina M Munne, Aino Peura, Jenna H Rannikko, Gino Philips, Bram Boeckx, Natasha Salmelin, Elina Hurskainen, Ilida Suleymanova, July Aung, Elisa M Vuorinen, Laura Lehtinen, Minna Mutka, Panu E Kovanen, Laura Niinikoski, Tuomo J Meretoja, Johanna Mattson, Satu Mustjoki, Päivi Saavalainen, Andrei Goga, Diether Lambrechts, Jeroen Pouwels, Maija Hollmén, Juha Klefström
Published in: Journal for ImmunoTherapy of Cancer, Issue 12, 2024, Page(s) e008053, ISSN 2051-1426
Publisher: Journal for Immunotherapy Cancer
DOI: 10.1136/jitc-2023-008053

Assessment of the WAP-Myc mouse mammary tumor model for spontaneous metastasis

Author(s): Begüm Utz, Rita Turpin, Johanna Lampe, Jeroen Pouwels, Juha Klefström
Published in: Scientific Reports, Issue 10/1, 2020, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-020-75411-z

CELLULAR, A Cell Autophagy Imaging Dataset

Author(s): Amani Al Outa, Steven Hicks, Vajira Thambawita, Siri Andresen, Jorrit M. Enserink, Pål Halvorsen, Michael A. Riegler, Helene Knævelsrud
Published in: Scientific Data, Issue 10, 2023, ISSN 2052-4463
Publisher: Nature
DOI: 10.1038/s41597-023-02687-x

BayesSUR: An R Package for High-Dimensional Multivariate Bayesian Variable and Covariance Selection in Linear Regression

Author(s): Zhi Zhao; Marco Banterle; Leonardo Bottolo; Sylvia Richardson; Alex Lewin; Manuela Zucknick
Published in: Journal of Statistical Software; Vol. 100 (2021); 1 - 32, Issue 4, 2021, ISSN 1548-7660
Publisher: University of California at Los Angeles
DOI: 10.48550/arxiv.2104.14008

Topological approximate Bayesian computation for parameter inference of an angiogenesis model

Author(s): Thomas Thorne, Paul D W Kirk, Heather A Harrington
Published in: Bioinformatics, Issue btac118, 2020, Page(s) 2529–2535, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btac118

12P Gene expression profiling in early breast cancer treated with neoadjuvant ribociclib plus letrozole (R+L) versus chemotherapy (CT): A correlative analysis of the SOLTI-1402/CORALLEEN phase II trial

Author(s): Nuria Chic; Blanca Gonzalez-Farre; Laia Paré; T. Pascual; Cristina Saura; C. Hernando Melia; Montse Muñoz; Pascual Fernández; Dianny Martínez; Esther Sanfeliu; Fara Brasó-Maristany; X. González-Farré; Mafalda Oliveira; Miguel Gil-Gil; Pamela Céliz; E.M. Ciruelos; Patricia Villagrasa; J. Gavila Gregori; Andreu Prat
Published in: Annals of Oncology, Issue 13, 2020, ISSN 0923-7534
Publisher: Oxford University Press
DOI: 10.1016/j.annonc.2020.03.148

Comparative biological activity of palbociclib and ribociclib in hormone receptor-positive breast cancer

Author(s): Natàlia Lorman-Carbó, Olga Martínez-Sáez, Aranzazu Fernandez-Martinez, Patricia Galván, Nuria Chic, Isabel Garcia-Fructuoso, Adela Rodríguez, Raquel Gómez-Bravo, Francesco Schettini, Paula Blasco, Oleguer Castillo, Blanca González-Farré, Barbara Adamo, Maria Vidal, Montserrat Muñoz, Charles M. Perou, Marcos Malumbres, Joaquín Gavilá, Tomás Pascual, Aleix Prat, Fara Brasó-Maristany
Published in: Scientific Reports, Issue 14, 2024, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-024-67126-2

Clinical implications of the intrinsic molecular subtypes in hormone receptor-positive and HER2-negative metastatic breast cancer

Author(s): Claudette Falato; Francesco Schettini; Tomás Pascual; Fara Brasó-Maristany; Aleix Prat
Published in: cancer treatment reviews, Issue 9, 2022, ISSN 0305-7372
Publisher: W. B. Saunders Co., Ltd.
DOI: 10.1016/j.ctrv.2022.102496

ERBB2 mRNA Expression and Response to Ado-Trastuzumab Emtansine (T-DM1) in HER2-Positive Breast Cancer.

Author(s): Gaia Griguolo; Fara Brasó-Maristany; Blanca Gonzalez-Farre; Tomás Pascual; Nuria Chic; Tamara Saurí; Ronald E. Kates; Oleg Gluz; D. Martinez; Laia Paré; Vassilena Tsvetkova; David Pesantez; Maria Vidal; Barbara Adamo; Montserrat Muñoz; Patricia Galván; Laura Barberá; Miriam Cuatrecasas; Mathias Christgen; Hans Kreipe; Inés Monge-Escartín; Patricia Villagrasa; Dolors Soy; Tommaso Giarratan
Published in: Cancers (Basel), Issue 11, 2020, ISSN 2072-6694
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cancers12071902

A single-cell map of intratumoral changes during anti-PD1 treatment of patients with breast cancer

Author(s): Ayse Bassez, Hanne Vos, Laurien Van Dyck, Giuseppe Floris, Ingrid Arijs, Christine Desmedt, Bram Boeckx, Marlies Vanden Bempt, Ines Nevelsteen, Kathleen Lambein, Kevin Punie, Patrick Neven, Abhishek D. Garg, Hans Wildiers, Junbin Qian, Ann Smeets, Diether Lambrechts
Published in: Nature Medicine, Issue 27/5, 2021, Page(s) 820-832, ISSN 1078-8956
Publisher: Nature Publishing Group
DOI: 10.1038/s41591-021-01323-8

A perspective on the development and lack of interchangeability of the breast cancer intrinsic subtypes

Author(s): Francesco Schettini, Fara Brasó-Maristany, Nicole M. Kuderer & Aleix Prat
Published in: npj breast cancer, Issue 8:85, 2022, ISSN 2374-4677
Publisher: Springer Nature
DOI: 10.1038/s41523-022-00451-9

Tailored Bayes: a risk modeling framework under unequal misclassification costs

Author(s): Solon Karapanagiotis, Umberto Benedetto, Sach Mukherjee, Paul D W Kirk, Paul J Newcombe
Published in: Biostatistics, 2021, ISSN 1465-4644
Publisher: Oxford University Press
DOI: 10.1093/biostatistics/kxab023

ABC of the future

Author(s): Henri Pesonen, Umberto Simola, Alvaro Köhn-Luque, Henri Vuollekoski, Xiaoran Lai, Arnoldo Frigessi, Samuel Kaski, David T. Frazier, Worapree Maneesoonthorn, Gael M. Martin, Jukka Corander
Published in: International Statistical Review, Issue n/a, 2022, Page(s) n/a, ISSN 1751-5823
Publisher: Wiley
DOI: 10.1111/insr.12522

A 14-gene B-cell immune signature in early-stage triple-negative breast cancer (TNBC): a pooled analysis of seven studies

Author(s): Benedetta Conte, Fara Brasó-Maristany, Adela Rodríguez Hernández, Tomás Pascual, Guillermo Villacampa, Francesco Schettini, Maria J. Vidal Losada, Elia Seguí, Laura Angelats, Isabel Garcia-Fructuoso, Raquel Gómez-Bravo, Natàlia Lorman-Carbó, Laia Paré, Mercedes Marín-Aguilera, Olga Martínez-Sáez, Barbara Adamo, Esther Sanfeliu, Beatrice Fratini, Claudette Falato, Núria Chic, Ana Vivan
Published in: eBioMedicine, Issue 102, 2024, Page(s) 105043, ISSN 2352-3964
Publisher: Elsevier BV
DOI: 10.1016/j.ebiom.2024.105043

A combined experimental-computational approach uncovers a role for the Golgi matrix protein Giantin in breast cancer progression

Author(s): Salim Ghannoum, Damiano Fantini, Muhammad Zahoor, Veronika Reiterer, Santosh Phuyal, Waldir Leoncio Netto, Øystein Sørensen, Arvind Iyer, Debarka Sengupta, Lina Prasmickaite, Gunhild Mari Mælandsmo, Alvaro Köhn-Luque, Hesso Farhan
Published in: PLOS Computational Biology, Issue 19, 2023, Page(s) e1010995, ISSN 1553-7358
Publisher: PLOS Computational Biology
DOI: 10.1371/journal.pcbi.1010995

Gene expression profiles of breast cancer metastasis according to organ site

Author(s): Fara Brasó-Maristany; Laia Paré; Nuria Chic; Olga Martínez-Sáez; Tomás Pascual; Meritxell Mallafre-Larrosa; Francesco Schettini; Blanca Gonzalez-Farre; Esther Sanfeliu; D. Martinez; Patricia Galván; Esther Barnadas; Belinda Salinas; P. Tolosa; Eva Ciruelos; Esther Carcelero; Cecilia Guillen; Barbara Adamo; Reinaldo Moreno; Maria Vidal; Montserrat Muñoz; Aleix Prat
Published in: Molecular Oncology, Issue 8, 2021, ISSN 1574-7891
Publisher: Elsevier BV
DOI: 10.1002/1878-0261.13021

Assessing heterogeneity in spatial data using the HTA index with applications to spatial transcriptomics and imaging

Author(s): Alona Levy-Jurgenson, Xavier Tekpli, Zohar Yakhini
Published in: Bioinformatics, Issue 37, 2023, Page(s) 3796-3804, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btab569

Breast cancer patient-derived explant cultures recapitulate in vivo drug responses

Author(s): Solveig Pettersen, Geir Frode Øy, Eivind Valen Egeland, Siri Juell, Olav Engebråten, Gunhild Mari Mælandsmo, Lina Prasmickaite
Published in: Frontiers in Oncology, Issue 13, 2023, ISSN 2234-943X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fonc.2023.1040665

Unraveling the clinicopathological and molecular changes induced by neoadjuvant chemotherapy and endocrine therapy in hormone receptor-positive/HER2-low and HER2-0 breast cancer

Author(s): F. Schettini, S. Nucera, F. Brasó-Maristany, I. De Santo, T. Pascual, M. Bergamino, P. Galván, B. Conte, E. Seguí, I. García Fructuoso, R. Gómez Bravo, P. Rivera, A.B. Rodríguez, O. Martínez-Sáez, S. Ganau, E. Sanfeliu, B. González-Farre, M.J. Vidal Losada, B. Adamo, I. Cebrecos, E. Mension, G. Oses, P. Jares, S. Vidal-Sicart, M. Mollà, M. Muñoz, A. Prat
Published in: ESMO Open, Issue 9, 2024, Page(s) 103619, ISSN 2059-7029
Publisher: ESMO OPen
DOI: 10.1016/j.esmoop.2024.103619

Dose-response prediction for in-vitro drug combination datasets: a probabilistic approach

Author(s): Leiv Rønneberg, Paul D.W. Kirk, Manuela Zucknick
Published in: ResearchSquare, Issue rs-1465185, 2022, Page(s) 2529–2535, ISSN 2693-5015
Publisher: Research Square Platform LLC
DOI: 10.21203/rs.3.rs-1465185/v2

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