selected scholarly activity
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journal articles
- Insights on Future Directions in Cancer Research from the AACR NextGen Stars.. Cancer Discovery. 14:1584-1589. 2024
- Analysis of ductal carcinoma in situ by self-reported race reveals molecular differences related to outcome.. Breast Cancer Research. 26:127. 2024
- Germline-mediated immunoediting sculpts breast cancer subtypes and metastatic proclivity. Science. 384:eadh8697. 2024
- Deterministic evolution and stringent selection during preneoplasia. Nature. 618:383-393. 2023
- A polygenic two-hit hypothesis for prostate cancer. Journal of the National Cancer Institute. 115:468-472. 2023
- Prostate Cancer Transcriptomic Regulation by the Interplay of Germline Risk Alleles, Somatic Mutations, and 3D Genomic Architecture. Cancer Discovery. 12:2838-2855. 2022
- Molecular classification and biomarkers of clinical outcome in breast ductal carcinoma in situ: Analysis of TBCRC 038 and RAHBT cohorts. Cancer Cell. 40:1521-1536.e7. 2022
- Targeted profiling of human extrachromosomal DNA by CRISPR-CATCH. Nature Genetics. 54:1746-1754. 2022
- Combinatorial immunotherapies overcome MYC-driven immune evasion in triple negative breast cancer. Nature Communications. 13:3671. 2022
- Do Breast Cancer Risk Scores Work for You?. Journal of the National Cancer Institute. 113:1118-1119. 2021
- A tumor "personality" test to guide therapeutic decision making.. Cancer Cell. 39:747-749. 2021
- CRISPRi screens reveal a DNA methylation-mediated 3D genome dependent causal mechanism in prostate cancer. Nature Communications. 12:1781. 2021
- The DNA methylation landscape of advanced prostate cancer. Nature Genetics. 52:778-789. 2020
- The landscape of RNA polymerase II–associated chromatin interactions in prostate cancer. Journal of Clinical Investigation. 130:3987-4005. 2020
- BPG: Seamless, automated and interactive visualization of scientific data. BMC Bioinformatics. 20:42. 2019
- Genome-wide germline correlates of the epigenetic landscape of prostate cancer. Nature Medicine. 25:1615-1626. 2019
- Modelling the MYC-driven normal-to-tumour switch in breast cancer.. DMM Disease Models and Mechanisms. 12:dmm038083. 2019
- Molecular Hallmarks of Multiparametric Magnetic Resonance Imaging Visibility in Prostate Cancer. European Urology. 76:18-23. 2019
- PLATYPUS: A Multiple-View Learning Predictive Framework for Cancer Drug Sensitivity Prediction.. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 24:136-147. 2019
- Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection. Genome Biology. 19:188. 2018
- Valection: design optimization for validation and verification studies.. BMC Bioinformatics. 19:339. 2018
- MYC dephosphorylation by the PP1/PNUTS phosphatase complex regulates chromatin binding and protein stability. Nature Communications. 9:3502. 2018
- The Evolutionary Landscape of Localized Prostate Cancers Drives Clinical Aggression. Cell. 173:1003-1013.e15. 2018
- Pathogenic Germline Variants in 10,389 Adult Cancers. Cell. 173:355-370.e14. 2018
- Germline contamination and leakage in whole genome somatic single nucleotide variant detection.. BMC Bioinformatics. 19:28. 2018
- Compendium of TCDD-mediated transcriptomic response datasets in mammalian model systems. BMC Genomics. 18:78. 2017
- Genomic hallmarks of localized, non-indolent prostate cancer. Nature. 541:359-364. 2017
- Transcriptional profiling of rat white adipose tissue response to 2,3,7,8-tetrachlorodibenzo-ρ-dioxin.. Toxicology and Applied Pharmacology. 288:223-231. 2015
- Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection. Nature Methods. 12:623-630. 2015
- Transcriptional profiling of rat hypothalamus response to 2,3,7,8-tetrachlorodibenzo-ρ-dioxin.. Toxicology. 328:93-101. 2015
- Cross-species transcriptomic analysis elucidates constitutive aryl hydrocarbon receptor activity.. BMC Genomics. 15:1053. 2014
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preprints