Benjamin Haibe-Kains , PhD

Follow Dr. Haibe-Kains:
Senior Scientist, Princess Margaret Cancer Centre
https://orcid.org/0000-0002-7684-0079
Keywords: bioinformatics, cancer, genomics, pharmacogenomics, translational research, machine learning
The research performed in the Haibe-Kains Laboratory focuses on the integration of high-throughput data from various sources to simultaneously analyze multiple facets of diseases, with a particular emphasis on cancer. Dr. Haibe-Kains and his team are using publicly available genomic datasets and data generated through his collaboration to better understand the biology underlying diseases and to develop new predictive models in order to significantly improve disease management. Dr. Haibe-Kains's main contributions include several prognostic gene signatures in breast cancer, subtype classification models for ovarian and breast cancers, as well as genomic predictors of drug response in cancer cell lines.

Related Links

Lab Website
External validation and transfer learning of convolutional neural networks for computed tomography dental artifact classification.
Phys Med Biol. 2019 Dec 18;:
Welch ML, McIntosh C, Traverso A, Wee L, Purdie TG, Dekker A, Haibe-Kains B, Jaffray DA
Organoid cultures as preclinical models of non-small cell lung cancer.
Clin Cancer Res. 2019 Nov 06;:
Shi R, Radulovich N, Ng C, Liu N, Notsuda H, Cabanero M, N Martins-Filho S, Raghavan V, Li Q, Mer AS, Rosen JC, Li M, Wang YH, Tamblyn L, Pham NA, Haibe-Kains B, Liu G, Moghal N, Tsao MS
Automatic classification of dental artifact status for efficient image veracity checks: effects of image resolution and convolutional neural network depth.
Phys Med Biol. 2019 Nov 04;:
Welch ML, McIntosh C, Purdie TG, Wee L, Traverso A, Dekker A, Haibe-Kains B, Jaffray DA
Modeling cellular response in large-scale radiogenomic databases to advance precision radiotherapy.
Cancer Res. 2019 Sep 26;:
Manem VS, Lambie M, Smith I, Smirnov P, Kofia V, Freeman M, Koritzinsky M, Abazeed ME, Haibe-Kains B, Bratman SV
Identifying clusters of cis-regulatory elements underpinning TAD structures and lineage-specific regulatory networks.
Genome Res. 2019 10;29(10):1733-1743
Madani Tonekaboni SA, Mazrooei P, Kofia V, Haibe-Kains B, Lupien M
Creating reproducible pharmacogenomic analysis pipelines.
Sci Data. 2019 09 03;6(1):166
Mammoliti A, Smirnov P, Safikhani Z, Ba-Alawi W, Haibe-Kains B
Gene Expression Analyses in Breast Cancer: Sample Matters.
JNCI Cancer Spectr. 2018 Apr;2(2):pky019
Haibe-Kains B, Cescon DW
MetaGxData: Clinically Annotated Breast, Ovarian and Pancreatic Cancer Datasets and their Use in Generating a Multi-Cancer Gene Signature.
Sci Rep. 2019 Jun 19;9(1):8770
Gendoo DMA, Zon M, Sandhu V, Manem VSK, Ratanasirigulchai N, Chen GM, Waldron L, Haibe-Kains B
Why imaging data alone is not enough: AI-based integration of imaging, omics, and clinical data.
Eur J Nucl Med Mol Imaging. 2019 Jun 15;:
Holzinger A, Haibe-Kains B, Jurisica I
SIGN: Similarity identification in gene expression.
Bioinformatics. 2019 Jun 14;:
Madani Tonekaboni SA, Kumar Manem VS, El-Hachem N, Haibe-Kains B

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Senior Scientist, Princess Margaret Cancer Centre

Scientific Lead, Data Science Program, Princess Margaret Cancer Center, University Health Network
Scientific Lead, Radiomics Program of the Radiation Medicine Program (RMP), Princess Margaret Cancer Center, University Health Network
Associate Professor, Department of Medical Biophysics, University of Toronto
Adjunct Professor, Department of Computer Science, University of Toronto
Faculty Associate, Ontario Institute of Cancer Research
Faculty Affiliate, Vector Institute