Benjamin Haibe‐Kains

Research interests

Publications

• Reporting guidelines for human microbiome research: the STORMS checklist

  Nature Medicine · 2021 · 10.1038/s41591-021-01552-x

• Colorectal Cancer Cells Enter a Diapause-like DTP State to Survive Chemotherapy

  Cell · 2021 · 10.1016/j.cell.2020.11.018

• Proteogenomic characterization of pancreatic ductal adenocarcinoma

  Cell · 2021 · https://doi.org/10.1016/j.cell.2021.08.023

• Gradient of Developmental and Injury Response transcriptional states defines functional vulnerabilities underpinning glioblastoma heterogeneity

  Nature Cancer · 2021 · https://doi.org/10.1038/s43018-020-00154-9

• Transparency and reproducibility in artificial intelligence

  Nature · 2020 · 10.1038/s41586-020-2766-y

• GLUT1 inhibition blocks growth of RB1-positive triple negative breast cancer

  Nature Communications · 2020 · https://doi.org/10.1038/s41467-020-18020-8

• Machine learning approaches to drug response prediction: challenges and recent progress

  npj Precision Oncology · 2020 · 10.1038/s41698-020-0122-1

• Transcription phenotypes of pancreatic cancer are driven by genomic events during tumor evolution

  Nature Genetics · 2020 · https://doi.org/10.1038/s41588-019-0566-9

• ONECUT2 is a driver of neuroendocrine prostate cancer

  Nature Communications · 2019 · https://doi.org/10.1038/s41467-018-08133-6

• Organoid Cultures as Preclinical Models of Non–Small Cell Lung Cancer

  Clinical Cancer Research · 2019 · https://doi.org/10.1158/1078-0432.ccr-19-1376

• Spatially distinct tumor immune microenvironments stratify triple-negative breast cancers

  Journal of Clinical Investigation · 2019 · 10.1172/jci96313

• Defining the biological basis of radiomic phenotypes in lung cancer

  eLife · 2017 · 10.7554/elife.23421

• A review of connectivity map and computational approaches in pharmacogenomics

  Briefings in Bioinformatics · 2017 · https://doi.org/10.1093/bib/bbw112

• Radiomic feature clusters and Prognostic Signatures specific for Lung and Head & Neck cancer

  Scientific Reports · 2015 · 10.1038/srep11044

• Genefu: an R/Bioconductor package for computation of gene expression-based signatures in breast cancer

  Bioinformatics · 2015 · 10.1093/bioinformatics/btv693

• CT-based radiomic signature predicts distant metastasis in lung adenocarcinoma

  Radiotherapy and Oncology · 2015 · 10.1016/j.radonc.2015.02.015

• Similarity network fusion for aggregating data types on a genomic scale

  Nature Methods · 2014 · https://doi.org/10.1038/nmeth.2810

• Decoding tumour phenotype by noninvasive imaging using a quantitative radiomics approach

  Nature Communications · 2014 · https://doi.org/10.1038/ncomms5006

• Gene regulatory networks and their applications: understanding biological and medical problems in terms of networks

  Frontiers in Cell and Developmental Biology · 2014 · https://doi.org/10.3389/fcell.2014.00038

• Robust Radiomics Feature Quantification Using Semiautomatic Volumetric Segmentation

  PLoS ONE · 2014 · 10.1371/journal.pone.0102107

• CD4+ follicular helper T cell infiltration predicts breast cancer survival

  Journal of Clinical Investigation · 2013 · https://doi.org/10.1172/jci67428

• Inconsistency in large pharmacogenomic studies

  Nature · 2013 · 10.1038/nature12831

• CD73 promotes anthracycline resistance and poor prognosis in triple negative breast cancer

  Proceedings of the National Academy of Sciences · 2013 · 10.1073/pnas.1222251110

• Elucidating Prognosis and Biology of Breast Cancer Arising in Young Women Using Gene Expression Profiling

  Clinical Cancer Research · 2012 · 10.1158/1078-0432.ccr-11-2599

• survcomp : an R/Bioconductor package for performance assessment and comparison of survival models

  Bioinformatics · 2011 · 10.1093/bioinformatics/btr511

• Biological Processes Associated with Breast Cancer Clinical Outcome Depend on the Molecular Subtypes

  Clinical Cancer Research · 2008 · 10.1158/1078-0432.ccr-07-4756

• Meta-analysis of gene expression profiles in breast cancer: toward a unified understanding of breast cancer subtyping and prognosis signatures

  Breast Cancer Research · 2008 · 10.1186/bcr2124

• Predicting prognosis using molecular profiling in estrogen receptor-positive breast cancer treated with tamoxifen

  BMC Genomics · 2008 · 10.1186/1471-2164-9-239

• Strong Time Dependence of the 76-Gene Prognostic Signature for Node-Negative Breast Cancer Patients in the TRANSBIG Multicenter Independent Validation Series

  Clinical Cancer Research · 2007 · https://doi.org/10.1158/1078-0432.ccr-06-2765

• Definition of Clinically Distinct Molecular Subtypes in Estrogen Receptor–Positive Breast Carcinomas Through Genomic Grade

  Journal of Clinical Oncology · 2007 · 10.1200/jco.2006.07.1522

• Gene Expression Profiling in Breast Cancer: Understanding the Molecular Basis of Histologic Grade To Improve Prognosis

  JNCI Journal of the National Cancer Institute · 2006 · https://doi.org/10.1093/jnci/djj052

Current projects

No projects listed.