Publications

Cell reports

Intrinsic resistance to MEK inhibition in KRAS mutant lung and colon cancer through transcriptional induction of ERBB3.

10-04-2014

Nature

Reversible and adaptive resistance to BRAF(V600E) inhibition in melanoma.

03-04-2014

PLoS genetics

Chromatin landscapes of retroviral and transposon integration profiles.

01-04-2014

PloS one

Breast cancer subtype specific classifiers of response to neoadjuvant chemotherapy do not outperform classifiers trained on all subtypes.

22-02-2014

Frontiers in genetics

Current composite-feature classification methods do not outperform simple single-genes classifiers in breast cancer prognosis.

07-01-2014

Nature genetics

Transposon mutagenesis identifies genes driving hepatocellular carcinoma in a chronic hepatitis B mouse model.

01-01-2014

Annals of surgical oncology

Selection of patients for hepatic surgery of colorectal cancer liver metastasis based on genomic aberrations.

01-12-2013

Acta crystallographica. Section D, Biological crystallography

Timely deposition of macromolecular structures is necessary for peer review.

01-12-2013

Cancer research

Hallmarks of aromatase inhibitor drug resistance revealed by epigenetic profiling in breast cancer.

15-11-2013

Nucleic acids research

Identifying subgroup markers in heterogeneous populations.

01-11-2013

Cell

Chromatin position effects assayed by thousands of reporters integrated in parallel.

15-08-2013

Breast cancer research and treatment

Breast cancer subtyping by immunohistochemistry and histological grade outperforms breast cancer intrinsic subtypes in predicting neoadjuvant chemotherapy response.

01-07-2013

Breast cancer research and treatment

Platform comparisons for identification of breast cancers with a BRCA-like copy number profile.

01-06-2013

PloS one

Analysis of tumor heterogeneity and cancer gene networks using deep sequencing of MMTV-induced mouse mammary tumors.

22-05-2013

Nucleic acids research

A scale-space method for detecting recurrent DNA copy number changes with analytical false discovery rate control.

01-05-2013

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

Identification of a pharmacologically tractable Fra-1/ADORA2B axis promoting breast cancer metastasis.

26-03-2013

Blood

Dosage-dependent tumor suppression by histone deacetylases 1 and 2 through regulation of c-Myc collaborating genes and p53 function.

14-03-2013

Genome research

Constitutive nuclear lamina-genome interactions are highly conserved and associated with A/T-rich sequence.

01-02-2013

European journal of surgical oncology : the journal of the European Society of Surgical Oncology and the British Association of Surgical Oncology

Prognostication and prediction using gene expression profiling in oesophageal cancer.

01-01-2013

Breast cancer research and treatment

SERPINA6, BEX1, AGTR1, SLC26A3, and LAPTM4B are markers of resistance to neoadjuvant chemotherapy in HER2-negative breast cancer.

01-01-2013

BMC medical genomics

Subtypes of primary colorectal tumors correlate with response to targeted treatment in colorectal cell lines.

31-12-2012

Cell

MED12 controls the response to multiple cancer drugs through regulation of TGF-β receptor signaling.

21-11-2012

Bioinformatics (Oxford, England)

A regression model for estimating DNA copy number applied to capture sequencing data.

15-09-2012

Cancer research

Impact of intertumoral heterogeneity on predicting chemotherapy response of BRCA1-deficient mammary tumors.

01-05-2012

Genome research

High-throughput semiquantitative analysis of insertional mutations in heterogeneous tumors.

01-12-2011

Breast cancer research and treatment

A non-BRCA1/2 hereditary breast cancer sub-group defined by aCGH profiling of genetically related patients.

01-11-2011

Breast cancer research : BCR

Quantitative copy number analysis by Multiplex Ligation-dependent Probe Amplification (MLPA) of BRCA1-associated breast cancer regions identifies BRCAness.

27-10-2011

Nucleic acids research

Computational identification of insertional mutagenesis targets for cancer gene discovery.

01-08-2011

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

An aCGH classifier derived from BRCA1-mutated breast cancer and benefit of high-dose platinum-based chemotherapy in HER2-negative breast cancer patients.

01-07-2011

PloS one

Gene expression profiles from formalin fixed paraffin embedded breast cancer tissue are largely comparable to fresh frozen matched tissue.

11-02-2011

Breast cancer research and treatment

PKA-induced phosphorylation of ERα at serine 305 and high PAK1 levels is associated with sensitivity to tamoxifen in ER-positive breast cancer.

01-01-2011

Cell cycle (Georgetown, Tex.)

Do predictive signatures really predict response to cancer chemotherapy?

15-12-2010

BMC cancer

Specific genomic aberrations in primary colorectal cancer are associated with liver metastases.

02-12-2010

BMC research notes

KC-SMARTR: An R package for detection of statistically significant aberrations in multi-experiment aCGH data.

11-11-2010

BMC cancer

Cross-species comparison of aCGH data from mouse and human BRCA1- and BRCA2-mutated breast cancers.

24-08-2010

Molecular cell

Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation.

28-05-2010

International journal of radiation oncology, biology, physics

Radiation-associated breast tumors display a distinct gene expression profile.

01-02-2010

Cancer research

Insertional mutagenesis in mice deficient for p15Ink4b, p16Ink4a, p21Cip1, and p27Kip1 reveals cancer gene interactions and correlations with tumor phenotypes.

15-01-2010

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

Integration of DNA copy number alterations and prognostic gene expression signatures in breast cancer patients.

15-01-2010

Breast cancer research and treatment

Concordance of clinical and molecular breast cancer subtyping in the context of preoperative chemotherapy response.

01-01-2010

PLoS computational biology

Identification of networks of co-occurring, tumor-related DNA copy number changes using a genome-wide scoring approach.

01-01-2010

The International journal of biological markers

Detection of breast cancer by surface-enhanced laser desorption/ionization time-of-flight mass spectrometry tissue and serum protein profiling.

30-09-2009

Breast cancer research and treatment

Prediction of BRCA1-association in hereditary non-BRCA1/2 breast carcinomas with array-CGH.

01-08-2009

Oncology reports

Serum protein profiling for diagnosis of breast cancer using SELDI-TOF MS.

01-07-2009

Clinical chemistry and laboratory medicine

Influence of sample storage duration on serum protein profiles assessed by surface-enhanced laser desorption/ionisation time-of-flight mass spectrometry (SELDI-TOF MS).

07-05-2009

BMC bioinformatics

Analysis of mass spectrometry data using sub-spectra.

30-01-2009

Breast cancer research and treatment

Comparison of gene expression profiles predicting progression in breast cancer patients treated with tamoxifen.

01-01-2009

Breast cancer research : BCR

EZH2 and BMI1 inversely correlate with prognosis and TP53 mutation in breast cancer.

23-12-2008

Journal of computational biology : a journal of computational molecular cell biology

Biclustering sparse binary genomic data.

01-12-2008

Breast cancer research : BCR

A comprehensive analysis of prognostic signatures reveals the high predictive capacity of the proliferation, immune response and RNA splicing modules in breast cancer.

19-11-2008

Intrinsic resistance to MEK inhibition in KRAS mutant lung and colon cancer through transcriptional induction of ERBB3.

Reversible and adaptive resistance to BRAF(V600E) inhibition in melanoma.

Chromatin landscapes of retroviral and transposon integration profiles.

Breast cancer subtype specific classifiers of response to neoadjuvant chemotherapy do not outperform classifiers trained on all subtypes.

Current composite-feature classification methods do not outperform simple single-genes classifiers in breast cancer prognosis.

Transposon mutagenesis identifies genes driving hepatocellular carcinoma in a chronic hepatitis B mouse model.

Selection of patients for hepatic surgery of colorectal cancer liver metastasis based on genomic aberrations.

Timely deposition of macromolecular structures is necessary for peer review.

Hallmarks of aromatase inhibitor drug resistance revealed by epigenetic profiling in breast cancer.

Identifying subgroup markers in heterogeneous populations.

Chromatin position effects assayed by thousands of reporters integrated in parallel.

Breast cancer subtyping by immunohistochemistry and histological grade outperforms breast cancer intrinsic subtypes in predicting neoadjuvant chemotherapy response.

Platform comparisons for identification of breast cancers with a BRCA-like copy number profile.

Analysis of tumor heterogeneity and cancer gene networks using deep sequencing of MMTV-induced mouse mammary tumors.

A scale-space method for detecting recurrent DNA copy number changes with analytical false discovery rate control.

Identification of a pharmacologically tractable Fra-1/ADORA2B axis promoting breast cancer metastasis.

Dosage-dependent tumor suppression by histone deacetylases 1 and 2 through regulation of c-Myc collaborating genes and p53 function.

Constitutive nuclear lamina-genome interactions are highly conserved and associated with A/T-rich sequence.

Prognostication and prediction using gene expression profiling in oesophageal cancer.

SERPINA6, BEX1, AGTR1, SLC26A3, and LAPTM4B are markers of resistance to neoadjuvant chemotherapy in HER2-negative breast cancer.

Subtypes of primary colorectal tumors correlate with response to targeted treatment in colorectal cell lines.

MED12 controls the response to multiple cancer drugs through regulation of TGF-β receptor signaling.

A regression model for estimating DNA copy number applied to capture sequencing data.

Impact of intertumoral heterogeneity on predicting chemotherapy response of BRCA1-deficient mammary tumors.

High-throughput semiquantitative analysis of insertional mutations in heterogeneous tumors.

A non-BRCA1/2 hereditary breast cancer sub-group defined by aCGH profiling of genetically related patients.

Quantitative copy number analysis by Multiplex Ligation-dependent Probe Amplification (MLPA) of BRCA1-associated breast cancer regions identifies BRCAness.

Computational identification of insertional mutagenesis targets for cancer gene discovery.

An aCGH classifier derived from BRCA1-mutated breast cancer and benefit of high-dose platinum-based chemotherapy in HER2-negative breast cancer patients.

Gene expression profiles from formalin fixed paraffin embedded breast cancer tissue are largely comparable to fresh frozen matched tissue.

PKA-induced phosphorylation of ERα at serine 305 and high PAK1 levels is associated with sensitivity to tamoxifen in ER-positive breast cancer.

Do predictive signatures really predict response to cancer chemotherapy?

Specific genomic aberrations in primary colorectal cancer are associated with liver metastases.

KC-SMARTR: An R package for detection of statistically significant aberrations in multi-experiment aCGH data.

Cross-species comparison of aCGH data from mouse and human BRCA1- and BRCA2-mutated breast cancers.

Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation.

Radiation-associated breast tumors display a distinct gene expression profile.

Insertional mutagenesis in mice deficient for p15Ink4b, p16Ink4a, p21Cip1, and p27Kip1 reveals cancer gene interactions and correlations with tumor phenotypes.

Integration of DNA copy number alterations and prognostic gene expression signatures in breast cancer patients.

Concordance of clinical and molecular breast cancer subtyping in the context of preoperative chemotherapy response.

Identification of networks of co-occurring, tumor-related DNA copy number changes using a genome-wide scoring approach.

Detection of breast cancer by surface-enhanced laser desorption/ionization time-of-flight mass spectrometry tissue and serum protein profiling.

Prediction of BRCA1-association in hereditary non-BRCA1/2 breast carcinomas with array-CGH.

Serum protein profiling for diagnosis of breast cancer using SELDI-TOF MS.

Influence of sample storage duration on serum protein profiles assessed by surface-enhanced laser desorption/ionisation time-of-flight mass spectrometry (SELDI-TOF MS).

Analysis of mass spectrometry data using sub-spectra.

Comparison of gene expression profiles predicting progression in breast cancer patients treated with tamoxifen.

EZH2 and BMI1 inversely correlate with prognosis and TP53 mutation in breast cancer.

Biclustering sparse binary genomic data.

A comprehensive analysis of prognostic signatures reveals the high predictive capacity of the proliferation, immune response and RNA splicing modules in breast cancer.

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