Catharina Olsen

发表

TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data

Gianluca Bontempi, H. Noushmehr, M. Ceccarelli, 2015, Nucleic acids research.

Inference and validation of predictive gene networks from biomedical literature and gene expression data.

John Quackenbush, Gianluca Bontempi, Benjamin Haibe-Kains, 2014, Genomics.

Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

Gianluca Bontempi, A. Colaprico, Catharina Olsen, 2018, BMC Genomics.

Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics

Li Ding, Niranjan Nagarajan, Denis Bertrand, 2018, Cell.

Interpreting pathways to discover cancer driver genes with Moonlight

Matthew H Bailey, Gabriel J. Odom, Gianluca Bontempi, 2020, Nature Communications.

TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages

Gianluca Bontempi, Michele Ceccarelli, Antonio Colaprico, 2016, F1000Research.

TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages [version 1; referees: 1 approved, 1 approved with reservations]

Michele Ceccarelli, Antonio Colaprico, Catharina Olsen, 2016 .

Transcriptional Network Inference Based on Information Theory

Gianluca Bontempi, Patrick E. Meyer, Catharina Olsen, 2011 .

Portraying breast cancers with long noncoding RNAs

Gianluca Bontempi, C. Sotiriou, Matthieu Defrance, 2016, Science Advances.

predictionet: Inference for predictive networks designed for (but not limited to) genomic data: R/Bioconductor

Benjamin Haibe-Kains, John Quackenbush, Gianluca Bontempi, 2012 .

THE CANCER GENOME ATLAS PANCANCER ATLAS

David L. Gibbs, Sam Q. Sun, Matthew H Bailey, 2022 .

Using shRNA experiments to validate gene regulatory networks

Benjamin Haibe-Kains, John Quackenbush, Gianluca Bontempi, 2015, Genomics data.

Liquid Biopsy-Derived DNA Sources as Tools for Comprehensive Mutation Profiling in Multiple Myeloma: A Comparative Study

Catharina Olsen, R. Schots, I. Vande broek, 2022, Cancers.

Data-driven validation of gene regulatory networks using knock-down data

Benjamin Haibe-Kains, Gianluca Bontempi, Catharina Olsen, 2013 .

Transcriptomic differences between fibrotic and non-fibrotic testicular tissue reveal possible key players in Klinefelter syndrome-related testicular fibrosis

H. Tournaye, Catharina Olsen, J. De Schepper, 2022, Scientific reports.

An Automatized Workflow to Study Mechanistic Indicators for Driver Gene Prediction with Moonlight

E. Papaleo, A. Colaprico, M. Tiberti, 2022, bioRxiv.

Identification of differentially methylated regions in rare diseases from a single-patient perspective

S. Van Dooren, Matthieu Defrance, Catharina Olsen, 2022, Clinical epigenetics.

mRMRe: an R package for parallelized mRMR ensemble feature selection

Benjamin Haibe-Kains, Gianluca Bontempi, Catharina Olsen, 2013, Bioinform..

TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages.

Gianluca Bontempi, H. Noushmehr, M. Ceccarelli, 2016, F1000Research.

PharmacoGx: an R package for analysis of large pharmacogenomic datasets

Andrew H. Beck, Zhaleh Safikhani, Benjamin Haibe-Kains, 2015, Bioinform..

Research and applications: Comparison and validation of genomic predictors for anticancer drug sensitivity

Benjamin Haibe-Kains, John Quackenbush, Gianluca Bontempi, 2013, J. Am. Medical Informatics Assoc..

EDIR: exome database of interspersed repeats

S. Seneca, Catharina Olsen, A. Gheldof, 2022, Bioinformatics.

SpidermiR: An R/Bioconductor Package for Integrative Analysis with miRNA Data

Giancarlo Mauri, Gianluca Bontempi, Alex Graudenzi, 2017, International journal of molecular sciences.

TCGAbiolinksGUI: A graphical user interface to analyze GDC cancer molecular and clinical data

Michele Ceccarelli, Antonio Colaprico, Catharina Olsen, 2017, bioRxiv.

TCGAbiolinksGUI: A graphical user interface to analyze GDC cancer molecular and clinical data

Gianluca Bontempi, Michele Ceccarelli, Catharina Olsen, 2017, bioRxiv.

New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx

Elena Papaleo, Gianluca Bontempi, Mohamed Mounir, 2019, PLoS Comput. Biol..

Causal inference and prior integration in bioinformatics using information theory

Gianluca Bontempi, Catharina Olsen, Gianluca Bontempi, 2013 .

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

Amir K. Foroushani, Yuanfang Guan, Jaewoo Kang, 2019, Nature Communications.

Moonlight: a tool for biological interpretation and driver genes discovery

Gianluca Bontempi, H. Noushmehr, E. Papaleo, 2018, bioRxiv.

Micro RNA in Semen/Urine from Non-Obstructive Azoospermia Patients as Biomarkers to Predict the Presence of Testicular Spermatozoa and Spermatogonia

H. Tournaye, Catharina Olsen, E. Goossens, 2023, Life.

On the Impact of Entropy Estimation on Transcriptional Regulatory Network Inference Based on Mutual Information

Gianluca Bontempi, Patrick E. Meyer, Catharina Olsen, 2008, EURASIP J. Bioinform. Syst. Biol..

Interpreting pathways to discover cancer driver genes with Moonlight

Gabriel J. Odom, Gianluca Bontempi, H. Noushmehr, 2020, Nature Communications.

An exome-wide study of renal operational tolerance

M. Emond, D. Abramowicz, M. Abramowicz, 2023, Frontiers in Medicine.

Predictive networks: a flexible, open source, web application for integration and analysis of human gene networks

Benjamin Haibe-Kains, John Quackenbush, Gianluca Bontempi, 2011, Nucleic Acids Res..

Analysis of parental contribution for aneuploidy detection (APCAD): a novel method to detect aneuploidy and mosaicism in preimplantation embryos.

Catharina Olsen, M. De Rycke, K. Keymolen, 2021, Reproductive biomedicine online.

NetBenchmark: a bioconductor package for reproducible benchmarks of gene regulatory network inference

Philippe Salembier, Patrick E. Meyer, Pau Bellot, 2015, BMC Bioinformatics.

On the impact of entropy estimator in transcriptional regulatory network inference

Gianluca Bontempi, Patrick E. Meyer, Catharina Olsen, 2008 .

Fourier spectral factor model for prediction of multidimensional signals

Gianluca Bontempi, Catharina Olsen, Abhilash Alexander Miranda, 2011, Signal Process..

Relevance of different prior knowledge sources for inferring gene interaction networks

Benjamin Haibe-Kains, John Quackenbush, Gianluca Bontempi, 2014, Front. Genet..

A workflow to study mechanistic indicators for driver gene prediction with Moonlight

A. Colaprico, M. Tiberti, Catharina Olsen, 2023, Briefings Bioinform..

predictionet : a package for inferring predictive networks from high-dimensional genomic data

Gianluca Bontempi, Catharina Olsen, Benjamin Haibe-Kains, 2016 .

Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics.

David L. Gibbs, Joshua M. Stuart, Sam Q. Sun, 2018, Cell.

Analyses of cancer data in the Genomic Data Commons Data Portal with new functionalities in the TCGAbiolinks R/Bioconductor package

Elena Papaleo, Gianluca Bontempi, Mohamed Mounir, 2018, bioRxiv.

Research and applications: Comparison and validation of genomic predictors for anticancer drug sensitivity

John Quackenbush, Gianluca Bontempi, B. Haibe-Kains, 2013, J. Am. Medical Informatics Assoc..

Fact sheet: Using mutual information to infer causal relationships Catharina

Gianluca Bontempi, Patrick E. Meyer, Catharina Olsen, 2008, Neural Information Processing Systems.

mRMRe: an R package for parallelized mRMR ensemble feature selection

Gianluca Bontempi, B. Haibe-Kains, Simon Papillon-Cavanagh, 2013, Bioinform..

TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages

Gianluca Bontempi, H. Noushmehr, M. Ceccarelli, 2016, F1000Research.

Comparison and validation of genomic predictors for anticancer drug sensitivity.

B. Haibe-Kains, Catharina Olsen, G. Bontempi, 2013, Journal of the American Medical Informatics Association : JAMIA.