Publications

Cancer cell

Selective Loss of PARG Restores PARylation and Counteracts PARP Inhibitor-Mediated Synthetic Lethality.

11-06-2018

Oral oncology

Comparative genomic analysis of oral versus laryngeal and pharyngeal cancer.

01-06-2018

Oncotarget

Fanconi anemia and homologous recombination gene variants are associated with functional DNA repair defects in vitro and poor outcome in patients with advanced head and neck squamous cell carcinoma.

06-04-2018

Oncogene

Insertional mutagenesis in a HER2-positive breast cancer model reveals ERAS as a driver of cancer and therapy resistance.

01-03-2018

Bioinformatics (Oxford, England)

Bayesian data integration for quantifying the contribution of diverse measurements to parameter estimates.

01-03-2018

Nature communications

Characterizing steroid hormone receptor chromatin binding landscapes in male and female breast cancer.

02-02-2018

Oncogene

Endogenous androgen receptor proteomic profiling reveals genomic subcomplex involved in prostate tumorigenesis.

18-01-2018

eLife

Loss of functional BAP1 augments sensitivity to TRAIL in cancer cells.

18-01-2018

Cell

A Living Biobank of Breast Cancer Organoids Captures Disease Heterogeneity.

11-01-2018

Clinical cancer research : an official journal of the American Association for Cancer Research

Complementary Value of Contralateral Parenchymal Enhancement on DCE-MRI to Prognostic Models and Molecular Assays in High-risk ER⁺/HER2^- Breast Cancer.

01-11-2017

Oncoimmunology

Mammary tumor-derived CCL2 enhances pro-metastatic systemic inflammation through upregulation of IL1β in tumor-associated macrophages.

19-09-2017

Nature

Identification of CMTM6 and CMTM4 as PD-L1 protein regulators.

07-09-2017

Cell reports

Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells.

29-08-2017

Breast cancer research : BCR

The BRCA1ness signature is associated significantly with response to PARP inhibitor treatment versus control in the I-SPY 2 randomized neoadjuvant setting.

25-08-2017

Oncotarget

Predicting clinical benefit from everolimus in patients with advanced solid tumors, the CPCT-03 study.

15-08-2017

Urologic oncology

Description of the EuroTARGET cohort: A European collaborative project on TArgeted therapy in renal cell cancer-GEnetic- and tumor-related biomarkers for response and toxicity.

01-08-2017

Nature genetics

Insertional mutagenesis identifies drivers of a novel oncogenic pathway in invasive lobular breast carcinoma.

01-08-2017

Nucleic acids research

Identifying transposon insertions and their effects from RNA-sequencing data.

07-07-2017

Cell reports

Identification of a Druggable Pathway Controlling Glioblastoma Invasiveness.

05-07-2017

Annals of oncology : official journal of the European Society for Medical Oncology

Towards a global cancer knowledge network: dissecting the current international cancer genomic sequencing landscape.

01-05-2017

Oncotarget

Systematic functional perturbations uncover a prognostic genetic network driving human breast cancer.

15-03-2017

Proceedings of the National Academy of Sciences of the United States of America

Estrogen receptor α wields treatment-specific enhancers between morphologically similar endometrial tumors.

21-02-2017

Genome biology

A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains most co-occurrence.

16-12-2016

Scientific reports

Logic models to predict continuous outputs based on binary inputs with an application to personalized cancer therapy.

23-11-2016

Clinical cancer research : an official journal of the American Association for Cancer Research

Loss of ARID1A Activates ANXA1, which Serves as a Predictive Biomarker for Trastuzumab Resistance.

01-11-2016

Oncotarget

Large variety in a panel of human colon cancer organoids in response to EZH2 inhibition.

25-10-2016

BMC systems biology

BCM: toolkit for Bayesian analysis of Computational Models using samplers.

21-10-2016

Gastroenterology

Deletion of Polycomb Repressive Complex 2 From Mouse Intestine Causes Loss of Stem Cells.

01-10-2016

Oncogene

Targeting the RB-E2F pathway in breast cancer.

15-09-2016

Bioinformatics (Oxford, England)

TANDEM: a two-stage approach to maximize interpretability of drug response models based on multiple molecular data types.

01-09-2016

Cell reports

PTEN Loss in E-Cadherin-Deficient Mouse Mammary Epithelial Cells Rescues Apoptosis and Results in Development of Classical Invasive Lobular Carcinoma.

23-08-2016

Cell

A Landscape of Pharmacogenomic Interactions in Cancer.

28-07-2016

Nature communications

RUBIC identifies driver genes by detecting recurrent DNA copy number breaks.

11-07-2016

Cancer research

Comparative Cistromics Reveals Genomic Cross-talk between FOXA1 and ERα in Tamoxifen-Associated Endometrial Carcinomas.

01-07-2016

Molecular cancer therapeutics

Sensitizing Triple-Negative Breast Cancer to PI3K Inhibition by Cotargeting IGF1R.

01-07-2016

Proceedings of the National Academy of Sciences of the United States of America

Defining chromosomal translocation risks in cancer.

28-06-2016

Scientific reports

OncoScape: Exploring the cancer aberration landscape by genomic data fusion.

20-06-2016

Oncotarget

Neoadjuvant tamoxifen synchronizes ERα binding and gene expression profiles related to outcome and proliferation.

07-06-2016

Pharmacogenomics

Multilevel models improve precision and speed of IC50 estimates.

01-05-2016

Cell

A Vulnerability of a Subset of Colon Cancers with Potential Clinical Utility.

07-04-2016

Oncotarget

Comparative analysis of human and mouse transcriptomes of Th17 cell priming.

22-03-2016

Genomics data

Androgen receptor DNA binding and chromatin accessibility profiling in prostate cancer.

01-03-2016

European urology

ERBB2 Mutations Characterize a Subgroup of Muscle-invasive Bladder Cancers with Excellent Response to Neoadjuvant Chemotherapy.

01-03-2016

Scientific reports

Integration of genomic, transcriptomic and proteomic data identifies two biologically distinct subtypes of invasive lobular breast cancer.

05-01-2016

Oncotarget

Fra-1 is a key driver of colon cancer metastasis and a Fra-1 classifier predicts disease-free survival.

22-12-2015

Clinical cancer research : an official journal of the American Association for Cancer Research

Pretreatment microRNA Expression Impacting on Epithelial-to-Mesenchymal Transition Predicts Intrinsic Radiosensitivity in Head and Neck Cancer Cell Lines and Patients.

15-12-2015

The EMBO journal

Subunit composition of VRAC channels determines substrate specificity and cellular resistance to Pt-based anti-cancer drugs.

14-12-2015

Nature medicine

The consensus molecular subtypes of colorectal cancer.

01-11-2015

EMBO molecular medicine

Androgen receptor profiling predicts prostate cancer outcome.

01-11-2015

Mobile genetic elements

Applications of DNA integrating elements: Facing the bias bully.

07-10-2015

Selective Loss of PARG Restores PARylation and Counteracts PARP Inhibitor-Mediated Synthetic Lethality.

Comparative genomic analysis of oral versus laryngeal and pharyngeal cancer.

Fanconi anemia and homologous recombination gene variants are associated with functional DNA repair defects in vitro and poor outcome in patients with advanced head and neck squamous cell carcinoma.

Insertional mutagenesis in a HER2-positive breast cancer model reveals ERAS as a driver of cancer and therapy resistance.

Bayesian data integration for quantifying the contribution of diverse measurements to parameter estimates.

Characterizing steroid hormone receptor chromatin binding landscapes in male and female breast cancer.

Endogenous androgen receptor proteomic profiling reveals genomic subcomplex involved in prostate tumorigenesis.

Loss of functional BAP1 augments sensitivity to TRAIL in cancer cells.

A Living Biobank of Breast Cancer Organoids Captures Disease Heterogeneity.

Complementary Value of Contralateral Parenchymal Enhancement on DCE-MRI to Prognostic Models and Molecular Assays in High-risk ER+/HER2- Breast Cancer.

Mammary tumor-derived CCL2 enhances pro-metastatic systemic inflammation through upregulation of IL1β in tumor-associated macrophages.

Identification of CMTM6 and CMTM4 as PD-L1 protein regulators.

Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells.

The BRCA1ness signature is associated significantly with response to PARP inhibitor treatment versus control in the I-SPY 2 randomized neoadjuvant setting.

Predicting clinical benefit from everolimus in patients with advanced solid tumors, the CPCT-03 study.

Description of the EuroTARGET cohort: A European collaborative project on TArgeted therapy in renal cell cancer-GEnetic- and tumor-related biomarkers for response and toxicity.

Insertional mutagenesis identifies drivers of a novel oncogenic pathway in invasive lobular breast carcinoma.

Identifying transposon insertions and their effects from RNA-sequencing data.

Identification of a Druggable Pathway Controlling Glioblastoma Invasiveness.

Towards a global cancer knowledge network: dissecting the current international cancer genomic sequencing landscape.

Systematic functional perturbations uncover a prognostic genetic network driving human breast cancer.

Estrogen receptor α wields treatment-specific enhancers between morphologically similar endometrial tumors.

A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains most co-occurrence.

Logic models to predict continuous outputs based on binary inputs with an application to personalized cancer therapy.

Loss of ARID1A Activates ANXA1, which Serves as a Predictive Biomarker for Trastuzumab Resistance.

Large variety in a panel of human colon cancer organoids in response to EZH2 inhibition.

BCM: toolkit for Bayesian analysis of Computational Models using samplers.

Deletion of Polycomb Repressive Complex 2 From Mouse Intestine Causes Loss of Stem Cells.

Targeting the RB-E2F pathway in breast cancer.

TANDEM: a two-stage approach to maximize interpretability of drug response models based on multiple molecular data types.

PTEN Loss in E-Cadherin-Deficient Mouse Mammary Epithelial Cells Rescues Apoptosis and Results in Development of Classical Invasive Lobular Carcinoma.

A Landscape of Pharmacogenomic Interactions in Cancer.

RUBIC identifies driver genes by detecting recurrent DNA copy number breaks.

Comparative Cistromics Reveals Genomic Cross-talk between FOXA1 and ERα in Tamoxifen-Associated Endometrial Carcinomas.

Sensitizing Triple-Negative Breast Cancer to PI3K Inhibition by Cotargeting IGF1R.

Defining chromosomal translocation risks in cancer.

OncoScape: Exploring the cancer aberration landscape by genomic data fusion.

Neoadjuvant tamoxifen synchronizes ERα binding and gene expression profiles related to outcome and proliferation.

Multilevel models improve precision and speed of IC50 estimates.

A Vulnerability of a Subset of Colon Cancers with Potential Clinical Utility.

Comparative analysis of human and mouse transcriptomes of Th17 cell priming.

Androgen receptor DNA binding and chromatin accessibility profiling in prostate cancer.

ERBB2 Mutations Characterize a Subgroup of Muscle-invasive Bladder Cancers with Excellent Response to Neoadjuvant Chemotherapy.

Integration of genomic, transcriptomic and proteomic data identifies two biologically distinct subtypes of invasive lobular breast cancer.

Fra-1 is a key driver of colon cancer metastasis and a Fra-1 classifier predicts disease-free survival.

Pretreatment microRNA Expression Impacting on Epithelial-to-Mesenchymal Transition Predicts Intrinsic Radiosensitivity in Head and Neck Cancer Cell Lines and Patients.

Subunit composition of VRAC channels determines substrate specificity and cellular resistance to Pt-based anti-cancer drugs.

The consensus molecular subtypes of colorectal cancer.

Androgen receptor profiling predicts prostate cancer outcome.

Applications of DNA integrating elements: Facing the bias bully.

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Complementary Value of Contralateral Parenchymal Enhancement on DCE-MRI to Prognostic Models and Molecular Assays in High-risk ER⁺/HER2^- Breast Cancer.