Many-Task Computing and Blue Waters

This report discusses many-task computing (MTC) generically and in the context of the proposed Blue Waters systems, which is planned to be the largest NSF-funded supercomputer when it begins production use in 2012. The aim of this report is to inform the BW project about MTC, including understanding aspects of MTC applications that can be used to characterize the domain and understanding the implications of these aspects to middleware and policies. Many MTC applications do not neatly fit the stereotypes of high-performance computing (HPC) or high-throughput computing (HTC) applications. Like HTC applications, by definition MTC applications are structured as graphs of discrete tasks, with explicit input and output dependencies forming the graph edges. However, MTC applications have significant features that distinguish them from typical HTC applications. In particular, different engineering constraints for hardware and software must be met in order to support these applications. HTC applications have traditionally run on platforms such as grids and clusters, through either workflow systems or parallel programming systems. MTC applications, in contrast, will often demand a short time to solution, may be communication intensive or data intensive, and may comprise very short tasks. Therefore, hardware and software for MTC must be engineered to support the additional communication and I/O and must minimize task dispatch overheads. The hardware of large-scale HPC systems, with its high degree of parallelism and support for intensive communication, is well suited for MTC applications. However, HPC systems often lack a dynamic resource-provisioning feature, are not ideal for task communication via the file system, and have an I/O system that is not optimized for MTC-style applications. Hence, additional software support is likely to be required to gain full benefit from the HPC hardware

Calibrated Cylindrical Mach Probe In A Plasma Wind Tunnel

A simple cylindrical Mach probe is described along with an independent calibration procedure in a magnetized plasma wind tunnel. A particle orbit calculation corroborates our model. The probe operates in the weakly magnetized regime in which probe dimension and ion orbit are of the same scale. Analytical and simulation models are favorably compared with experimental calibration. (C) 2011 American Institute of Physics. [doi: 10.1063/1.3559550

Measuring decentering as a unidimensional construct: The development and initial validation of the Decentering Scale for Sport

Decentering, the ability to observe one's thoughts and feelings from a detached view, has gained increased attention in recent years. With this renewed interest comes a need for a reliable and valid tool to measure decentering in sport contexts. Therefore, in this multi-study paper we report the development and initial validation of a sport-specific self-report measure of decentering, the Decentering Scale for Sport (DSS). Based on an initial pool of context-specific items with acceptable content validity, a unidimensional decentering construct was confirmed in four independent athletic samples (n = 1255). Satisfactory internal consistency reliability and partial measurement invariance across gender and sport type was demonstrated. Convergent and concurrent validity of the DSS was established by showing positive and medium to large associations with mindfulness, well-being, flow, vitality, enjoyment and positive affect, and negative and medium to large associations with cognitive fusion, experiential avoidance, anxiety and negative affect. Discriminant validity of decentering with mindfulness and self-compassion was also established. Findings suggest that the DSS is a reliable and valid measure of decentering in sport contexts, and can be applied in future research and applied practice to measure decentering

Mindfulness and Burnout in Elite Junior Athletes: The Mediating Role of Experiential Avoidance

Previous research suggests that mindfulness and experiential avoidance are negatively and positively related to athlete burnout, respectively. It is unknown, however, whether experiential avoidance functions as a mediator between mindfulness and athlete burnout. To address this gap, 387 elite Chinese junior athletes (M = 15.44 years, SD = 1.42) completed self-report measures of mindfulness, experiential avoidance, and athlete burnout. Findings provided cross-sectional evidence that experiential avoidance mediated the inverse association from mindfulness to each of the three burnout dimensions. No gender difference of these indirect effects was revealed. This study is the first to test the theoretical sequence in which mindfulness is associated with athlete burnout via experiential avoidance and provide additional support the adaptive nature of mindfulness

Clinical Influences in the Multidisciplinary Management of Small Renal Masses at a Tertiary Referral Center

Introduction We designed a multidisciplinary Small Renal Mass Center to help patients decide among treatment options and individualize therapy for small renal masses. In this model physicians and support staff from multiple specialties work as a team to evaluate and devise a treatment plan for patients at the same organized visit. Methods We retrospectively reviewed the records of 263 patients seen from 2009 to 2014. Monitored patient characteristics included age, Charlson comorbidity index, body mass index, nephrometry score, tumor size and estimated glomerular filtration rate. Univariate and multivariate analyses were performed to identify patient characteristics associated with each treatment choice. Results Of the cohort 88 patients elected active surveillance, 64 underwent ablation and 111 were treated with surgery, including partial and radical nephrectomy in 74 and 37, respectively. There were significant associations between treatment modality and age, Charlson comorbidity index, tumor size and estimated glomerular filtration rate. Mean patient age at presentation was 61.1 years. Patients with a high Charlson comorbidity index score (greater than 5) or a decreased estimated glomerular filtration rate (less than 60 ml/minute/1.73 m2) were more likely to undergo active surveillance (41.6% and 35%) and ablative therapy (29.6% and 34%) vs partial nephrectomy (10.6% and 9%, respectively, each p \u3c0.001). On multivariable analysis age, tumor size and estimated glomerular filtration rate remained significantly associated with modality after adjustment for all other factors (each p \u3c0.001). Conclusions The Small Renal Mass Center enables patients to assess the various treatment modalities for a small renal mass in a single setting. By providing simultaneous access to the various specialists it provides an invaluable opportunity for informed patient decision making. © 2016 American Urological Association Education and Research, Inc

Low-frequency vibrations of soft colloidal glasses

We conduct experiments on two-dimensional packings of colloidal thermosensitive hydrogel particles whose packing fraction can be tuned above the jamming transition by varying the temperature. By measuring displacement correlations between particles, we extract the vibrational properties of a corresponding "shadow" system with the same configuration and interactions, but for which the dynamics of the particles are undamped. The vibrational spectrum and the nature of the modes are very similar to those predicted for zero-temperature idealized sphere models and found in atomic and molecular glasses; there is a boson peak at low frequency that shifts to higher frequency as the system is compressed above the jamming transition.Comment: 4 figure

Transcriptomic-metabolomic reprogramming in EGFR-mutant NSCLC early adaptive drug escape linking TGFβ2-bioenergetics-mitochondrial priming.

The impact of EGFR-mutant NSCLC precision therapy is limited by acquired resistance despite initial excellent response. Classic studies of EGFR-mutant clinical resistance to precision therapy were based on tumor rebiopsies late during clinical tumor progression on therapy. Here, we characterized a novel non-mutational early adaptive drug-escape in EGFR-mutant lung tumor cells only days after therapy initiation, that is MET-independent. The drug-escape cell states were analyzed by integrated transcriptomic and metabolomics profiling uncovering a central role for autocrine TGFβ2 in mediating cellular plasticity through profound cellular adaptive Omics reprogramming, with common mechanistic link to prosurvival mitochondrial priming. Cells undergoing early adaptive drug escape are in proliferative-metabolic quiescent, with enhanced EMT-ness and stem cell signaling, exhibiting global bioenergetics suppression including reverse Warburg, and are susceptible to glutamine deprivation and TGFβ2 inhibition. Our study further supports a preemptive therapeutic targeting of bioenergetics and mitochondrial priming to impact early drug-escape emergence using EGFR precision inhibitor combined with broad BH3-mimetic to interrupt BCL-2/BCL-xL together, but not BCL-2 alone

Oxo-aglaiastatin-mediated inhibition of translation initiation

We thank Dr. Elias George (McGill University) for the kind gift of Pgp-1-expressing HeLa cells. RIM was supported by a doctoral fellowship from the Cole Foundation. This research was supported by a grant from the Canadian Institutes of Health Research (FDN-148366) to JP. J.A.P., Jr. is supported by NIH Grant R35 GM118173. Work at the Boston University Center for Molecular Discovery is supported by Grant R24 GM111625. (Cole Foundation; FDN-148366 - Canadian Institutes of Health Research; R35 GM118173 - NIH; R24 GM111625)Published versionSupporting documentatio