Trans-ancestry genome-wide association meta-analysis of prostate cancer identifies new susceptibility loci and informs genetic risk prediction.

Prostate cancer is a highly heritable disease with large disparities in incidence rates across ancestry populations. We conducted a multiancestry meta-analysis of prostate cancer genome-wide association studies (107,247 cases and 127,006 controls) and identified 86 new genetic risk variants independently associated with prostate cancer risk, bringing the total to 269 known risk variants. The top genetic risk score (GRS) decile was associated with odds ratios that ranged from 5.06 (95% confidence interval (CI), 4.84-5.29) for men of European ancestry to 3.74 (95% CI, 3.36-4.17) for men of African ancestry. Men of African ancestry were estimated to have a mean GRS that was 2.18-times higher (95% CI, 2.14-2.22), and men of East Asian ancestry 0.73-times lower (95% CI, 0.71-0.76), than men of European ancestry. These findings support the role of germline variation contributing to population differences in prostate cancer risk, with the GRS offering an approach for personalized risk prediction

Germline variation at 8q24 and prostate cancer risk in men of European ancestry

Chromosome 8q24 is a susceptibility locus for multiple cancers, including prostate cancer. Here we combine genetic data across the 8q24 susceptibility region from 71,535 prostate cancer cases and 52,935 controls of European ancestry to define the overall contribution of germline variation at 8q24 to prostate cancer risk. We identify 12 independent risk signals for prostate cancer (p < 4.28 × 10−15), including three risk variants that have yet to be reported. From a polygenic risk score (PRS) model, derived to assess the cumulative effect of risk variants at 8q24, men in the top 1% of the PRS have a 4-fold (95%CI = 3.62–4.40) greater risk compared to the population average. These 12 variants account for ~25% of what can be currently explained of the familial risk of prostate cancer by known genetic risk factors. These findings highlight the overwhelming contribution of germline variation at 8q24 on prostate cancer risk which has implications for population risk stratification

Fine-mapping of prostate cancer susceptibility loci in a large meta-analysis identifies candidate causal variants

Prostate cancer is a polygenic disease with a large heritable component. A number of common, low-penetrance prostate cancer risk loci have been identified through GWAS. Here we apply the Bayesian multivariate variable selection algorithm JAM to fine-map 84 prostate cancer susceptibility loci, using summary data from a large European ancestry meta-analysis. We observe evidence for multiple independent signals at 12 regions and 99 risk signals overall. Only 15 original GWAS tag SNPs remain among the catalogue of candidate variants identified; the remainder are replaced by more likely candidates. Biological annotation of our credible set of variants indicates significant enrichment within promoter and enhancer elements, and transcription factor-binding sites, including AR, ERG and FOXA1. In 40 regions at least one variant is colocalised with an eQTL in prostate cancer tissue. The refined set of candidate variants substantially increase the proportion of familial relative risk explained by these known susceptibility regions, which highlights the importance of fine-mapping studies and has implications for clinical risk profiling. © 2018 The Author(s).Prostate cancer is a polygenic disease with a large heritable component. A number of common, low-penetrance prostate cancer risk loci have been identified through GWAS. Here we apply the Bayesian multivariate variable selection algorithm JAM to fine-map 84 prostate cancer susceptibility loci, using summary data from a large European ancestry meta-analysis. We observe evidence for multiple independent signals at 12 regions and 99 risk signals overall. Only 15 original GWAS tag SNPs remain among the catalogue of candidate variants identified; the remainder are replaced by more likely candidates. Biological annotation of our credible set of variants indicates significant enrichment within promoter and enhancer elements, and transcription factor-binding sites, including AR, ERG and FOXA1. In 40 regions at least one variant is colocalised with an eQTL in prostate cancer tissue. The refined set of candidate variants substantially increase the proportion of familial relative risk explained by these known susceptibility regions, which highlights the importance of fine-mapping studies and has implications for clinical risk profiling. © 2018 The Author(s).Peer reviewe

Latency Characterization of Gated Radiotherapy Treatment Beams Using a PIN Diode Circuit

Background: Radiotherapy is based on the premise of accurate dose delivery to target volumes within a patient, while minimizing dose to surrounding tissues. Recent developments in the treatment of breast cancer have focused on “gating” the delivery of the treatment beams to minimize the effect of patient motion during treatment, and increasing separation between the target volume and organs at risk (OAR), such as lung, heart and left anterior descending coronary artery. The basic principle involves rapidly switching the treatment beam on or off depending on the patient breathing cycle. It is therefore important to know the characteristics of gated treatments such as latency. Methods: In this work an electrical PIN diode circuit (EPDC) was designed for quality assurance (QA) purposes to examine beam latency timing properties. Evaluation of the EPDC was performed on a TrueBeam™ (Varian, Palo Alto) linear accelerator and its internal gating system. The EPDC was coupled to a moving stage to simulate a binary pattern with fast beam triggering within predefined limits, the so called “gating window”. Pulses of radiation were measured with the PIN diode and the results were compared to measurements of current produced across the linac target. Processing of the beam pulses and calculation of the latency timings was performed by an Atmega328P microcontroller. Results: For beam-on latencies, 2.11 ms (6 MV) and 2.12 ms (10 MV) were measured using the PIN diode, compared to 2.13 ms (6 MV) and 2.15 ms (10 MV) using the target current signal. For beam-off latencies, 57.69 ms (6 MV) and 57.73 ms (10 MV) were measured using the PIN diode, compared to 57.33 ms (6 MV) and 56.01 ms (10 MV) using the target current. Conclusions: PIN diodes can be used for accurate determination of the beam-on and beam-off latency characteristics, which could potentially lead to improvements in gated radiotherapy treatments, for example optimizing the gating windows and in estimating dosimetric errors associated with treatment beam latencies

Influence of solution thermal and structural history on the nucleation of m-hydroxybenzoic acid polymorphs

The influence of solution pretreatment on primary nucleation of m-hydroxybenzoic acid has been investigated through 550 cooling crystallization experiments. The metastable zone width has been determined at constant cooling rate, and the time and temperature of the preceding superheating step have been varied. m-Hydroxybenzoic acid has two polymorphs, and the influence of the polymorph used to prepare the solutions has also been investigated. There is an overall tendency in the experiments for the solution to exhibit a larger metastable zone width if it is superheated for a longer time and at a higher temperature, but under the investigated conditions this tendency is not very strong. The results show that the metastable form II preferentially crystallizes in all experiments and in particular when the solution has been more strongly superheated for several hours. However, when the time and/or the temperature of superheating is reduced, there is an increasing tendency to obtain the stable form I. This is most clearly found for solutions prepared by dissolving form I. When the solutions are prepared by dissolution of form II, this tendency is weaker in what appears to be a systematic way. It is hypothesized that, unless the solution is strongly superheated for several hours, it will contain for a significant period of time clusters of solute molecules that can retain some degree of structure from the dissolved crystal. This leads to ";memory" effects in the solution, which may influence subsequent nucleation. The work includes a comprehensive review of previous published work on the influence of thermal history on nucleation in solutions and melts

Fine-mapping of prostate cancer susceptibility loci in a large meta-analysis identifies candidate causal variants.

Prostate cancer is a polygenic disease with a large heritable component. A number of common, low-penetrance prostate cancer risk loci have been identified through GWAS. Here we apply the Bayesian multivariate variable selection algorithm JAM to fine-map 84 prostate cancer susceptibility loci, using summary data from a large European ancestry meta-analysis. We observe evidence for multiple independent signals at 12 regions and 99 risk signals overall. Only 15 original GWAS tag SNPs remain among the catalogue of candidate variants identified; the remainder are replaced by more likely candidates. Biological annotation of our credible set of variants indicates significant enrichment within promoter and enhancer elements, and transcription factor-binding sites, including AR, ERG and FOXA1. In 40 regions at least one variant is colocalised with an eQTL in prostate cancer tissue. The refined set of candidate variants substantially increase the proportion of familial relative risk explained by these known susceptibility regions, which highlights the importance of fine-mapping studies and has implications for clinical risk profiling