Paul C. Boutros
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View article: Joint Biochemical and Genetic Prostate Cancer Risk Stratification
Joint Biochemical and Genetic Prostate Cancer Risk Stratification Open
Our study demonstrates the potential of genetic scores to advance screening guidance. The PC risk stratification capabilities of molecular biomarkers in tiered screening strategies merit further study in large cohorts.
View article: <sup>177</sup> Lu-Prostate-Specific Membrane Antigen Neoadjuvant to Stereotactic Ablative Radiotherapy for Oligorecurrent Prostate Cancer (LUNAR): An Open-Label, Randomized, Controlled, Phase II Study
<sup>177</sup> Lu-Prostate-Specific Membrane Antigen Neoadjuvant to Stereotactic Ablative Radiotherapy for Oligorecurrent Prostate Cancer (LUNAR): An Open-Label, Randomized, Controlled, Phase II Study Open
PURPOSE Progression after metastasis-directed therapy via stereotactic body radiotherapy (SBRT) for oligorecurrent hormone-sensitive prostate cancer (orHSPC) is common. We aimed to assess whether the addition of neoadjuvant prostate-specif…
View article: Somatic evolution of prostate cancer: mutation, selection, and epistasis across disease stages
Somatic evolution of prostate cancer: mutation, selection, and epistasis across disease stages Open
Background Somatic mutations involved in prostate cancer tumorigenesis and disease progression have been identified, but their evolutionary dynamics, including differential selective pressures across oncogenesis and metastatic spread, rema…
View article: Ancestry-Dependent Immunologic and Prognostic Effects Characterize the Prostate Cancer Urinary Proteome
Ancestry-Dependent Immunologic and Prognostic Effects Characterize the Prostate Cancer Urinary Proteome Open
Urine is an attractive biomarker analyte for non-invasive longitudinal monitoring of health and disease, particularly for diseases of the genitourinary tract, like prostate and bladder cancer. The composition of an individual’s urine refle…
View article: Identification of non-canonical peptides with moPepGen
Identification of non-canonical peptides with moPepGen Open
Proteogenomics is limited by the challenge of modeling the complexities of gene expression. We create moPepGen, a graph-based algorithm that comprehensively generates non-canonical peptides in linear time. moPepGen works with multiple tech…
View article: Diverse Genomes, Shared Health: Insights from a Health System Biobank
Diverse Genomes, Shared Health: Insights from a Health System Biobank Open
Coupling genetic profiling with electronic health records from hospital biobanks is a foundational resource for precision medicine. However, lack of ancestral heterogeneity limits discovery and generalizability. We leveraged the UCLA ATLAS…
View article: Corrigendum to “Decreased ATM Protein Expression Is Substantiated with PTEN Loss in Defining Aggressive Phenotype of Prostate Cancer Associated with Lethal Disease” [Eur. Urol. Open Sci. 29 (2021) 93-101]
Corrigendum to “Decreased ATM Protein Expression Is Substantiated with PTEN Loss in Defining Aggressive Phenotype of Prostate Cancer Associated with Lethal Disease” [Eur. Urol. Open Sci. 29 (2021) 93-101] Open
[This corrects the article DOI: 10.1016/j.euros.2021.05.004.].
View article: Extracellular vesicle heterogeneity through the lens of multiomics
Extracellular vesicle heterogeneity through the lens of multiomics Open
Extracellular vesicles (EVs) are heterogeneous in size, biogenesis, content, and function. Aggressive cancer cells release a distinct, poorly characterized, and particularly large EV subtype, namely large oncosomes (LOs). This study employ…
View article: OGDHL regulates tumor growth, neuroendocrine marker expression, and nucleotide abundance in prostate cancer
OGDHL regulates tumor growth, neuroendocrine marker expression, and nucleotide abundance in prostate cancer Open
As cancer cells evade therapeutic pressure and adopt alternate lineage identities not commonly observed in the tissue of origin, they likely adopt alternate metabolic programs to support their evolving demands. Targeting these alternative …
View article: A Novel Primary Cell Line Model of Localized Prostate Cancer and Radioresistance—A Role for Nicotinamide N-Methyltransferase
A Novel Primary Cell Line Model of Localized Prostate Cancer and Radioresistance—A Role for Nicotinamide N-Methyltransferase Open
Prostate cancer cell lines are particularly clinically homogenous, mostly representing metastatic states rather than localized disease. While there has been significant work in the development of additional models, few have been created wi…
View article: Supplementary Table 9 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Supplementary Table 9 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Supplementary Table 9 summarizes the characterization of 16 SNPs associated with 23 concordant dQTLs.
View article: Data from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Data from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Newly diagnosed prostate cancers differ dramatically in mutational composition and lethality. The most accurate clinical predictor of lethality is tumor tissue architecture, quantified as tumor grade. To interrogate the evolutionary origin…
View article: Supplementary Table 2 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Supplementary Table 2 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Supplementary Table 2 displays results from driver selection, driver groupings and driver associations.
View article: Figure 5 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Figure 5 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Mutational hallmarks of prostate cancer grade. A, A linear model was fit to relate each mutational density measure to ISUP GG using tumor and normal sequencing coverage as covariates. Dot size and color represents the effect size for each …
View article: Supplementary Table 7 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Supplementary Table 7 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Supplementary Table 7 provides summary statistics from distal dQTL associations
View article: Figure 7 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Figure 7 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Characterization of dQTLs. A, Summary of all 35 dQTLs involving 25 unique SNPs. Dot size and color indicate the magnitude and direction of association (as OR), and background shading indicates dQTL discovered strategy. B, Forest plot of OR…
View article: Figure 4 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Figure 4 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Mutational subtypes of localized prostate cancer. A, Mutation densities (rows) differ by ETS fusion and NKX3-1 CNA status (columns). Dot size and color gives effect-size as a Z-score, scaled to ETS-negative, NKX3-1–neutral patients. The ba…
View article: Supplementary Table 3 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Supplementary Table 3 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Supplementary Table 3 illustrates driver co-occurrence analysis, driver clusters, and associations of drivers with clinical features
View article: Supplementary Figures from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Supplementary Figures from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Supplementary Figures & Figure Legends. Supplementary Figure 1 | Cohort Structure and Analysis. Supplementary Figure 2 | CNA Evolution & Transcriptomic Effects. Supplementary Figure 3 | Properties of Driver Mutations. Supplementary Figure …
View article: Supplementary Table 4 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Supplementary Table 4 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Supplementary Table 4 shows driver selection for dQTL nomination and prevalence of drivers in cohorts
View article: Supplementary Table 8 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Supplementary Table 8 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Supplementary Table 8 shows summary statistics of 16 SNPs associated with 23 concordant dQTLs across cohorts
View article: Figure 3 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Figure 3 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Functional characterization of driver mutations. A, Network diagrams represent multimodal pathway enrichment analysis of driver genes. Mutation types (i.e., the type of driver analysis) are indicated by shading of circles. Circle size repr…
View article: Figure 6 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Figure 6 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
dQTLs bias somatic mutational landscape. A, Schematic of dQTL detection. The PRS used was by Schumacher and colleagues (16). Linear local dQTLs were assessed within ±500 kbp around a driver. Spatial local dQTLs were evaluated using regions…
View article: Supplementary Table 1 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity
Supplementary Table 1 from The Germline and Somatic Origins of Prostate Cancer Heterogeneity Open
Supplementary Table 1 shows a feature-by-patient summary matrix. For each patient, this table provides version information of bioinformatics tools, summary sequencing statistics, mutational density metrics, clinical information and driver …