Pytrec_eval: An Extremely Fast Python Interface to trec_eval

We introduce pytrec_eval, a Python interface to the tree_eval information retrieval evaluation toolkit. pytrec_eval exposes the reference implementations of trec_eval within Python as a native extension. We show that pytrec_eval is around one order of magnitude faster than invoking trec_eval as a sub process from within Python. Compared to a native Python implementation of NDCG, pytrec_eval is twice as fast for practically-sized rankings. Finally, we demonstrate its effectiveness in an application where pytrec_eval is combined with Pyndri and the OpenAI Gym where query expansion is learned using Q-learning.Comment: SIGIR '18. The 41st International ACM SIGIR Conference on Research & Development in Information Retrieva

Editorial: Forest Management Alters Forest Water Use and Drought Vulnerability

This collection of papers provides new insights into how forest management, forest water use and droughts are interrelated. The collection considers both ecohydrologic impacts of changes in forest density (through thinning or fire) and impacts that could occur via species management

Agents, simulated users and humans : an analysis of performance and behaviour

Most of the current models that are used to simulate users in Interactive Information Retrieval (IIR) lack realism and agency. Such models generally make decisions in a stochastic manner, without recourse to the actual information encountered or the underlying information need. In this paper, we develop a more sophisticated model of the user that includes their cognitive state within the simulation. The cognitive state maintains data about what the simulated user knows, has done and has seen, along with representations of what it considers attractive and relevant. Decisions to inspect or judge are then made based upon the simulated user's current state, rather than stochastically. In the context of ad-hoc topic retrieval, we evaluate the quality of the simulated users and agents by comparing their behaviour and performance against 48 human subjects under the same conditions, topics, time constraints, costs and search engine. Our findings show that while naive configurations of simulated users and agents substantially outperform our human subjects, their search behaviour is notably different from actual searchers. However, more sophisticated search agents can be tuned to act more like actual searchers providing greater realism. This innovation advances the state of the art in simulation, from simulated users towards autonomous agents. It provides a much needed step forward enabling the creation of more realistic simulations, while also motivating the development of more advanced cognitive agents and tools to help support and augment human searchers. Future work will focus not only on the pragmatics of tuning and training such agents for topic retrieval, but will also look at developing agents for other tasks and contexts such as collaborative search and slow search

5CM, NO IRON SSC DIPOLE 12M MODEL CRYOSTAT THERMAL PERFORMANCE*

ABSTRACT A 12 m long model of a 5 cm case dipole cryostat has been constructed and its thermal performance measured. The model utilized heat intercepted fiberglass reinforced plastic posts to support the 12 m long, 4.5 K cold mass and the 10 and 80 K thermal shields. A superinsulation blanket system utilizing aluminized polyester with fiberglass mat spacing material was developed and installed on the 10 and 80 K thermal shields. The heat gain to 4.5, 10 and 80 K was measured. We have compared the results with the analytical predicted performance and it shows good agreement. The performance of the multilayer insulation system has been measured under several different system conditions and the results are reported

Increased clonal hematopoiesis involving DNA damage response genes in patients undergoing lung transplantation

BACKGROUNDCellular stressors influence the development of clonal hematopoiesis (CH). We hypothesized that environmental, inflammatory, and genotoxic stresses drive the emergence of CH in lung transplant recipients. METHODSWe performed a cross-sectional cohort study of 85 lung transplant recipients to characterize CH prevalence. We evaluated somatic variants using duplex error-corrected sequencing and germline variants using whole exome sequencing. We evaluated CH frequency and burden using χ2 and Poisson regression, and we evaluated associations with clinical and demographic variables and clinical outcomes using χ2, logistic regression, and Cox regression. RESULTSCH in DNA damage response (DDR) genes TP53, PPM1D, and ATM was increased in transplant recipients compared with a control group of older adults (28% versus 0%, adjusted OR [aOR], 12.9 [1.7-100.3], P = 0.0002). Age (OR, 1.13 [1.03-1.25], P = 0.014) and smoking history (OR 4.25 [1.02-17.82], P = 0.048) were associated with DDR CH. Germline variants predisposing to idiopathic pulmonary fibrosis were identified but not associated with CH. DDR CH was associated with increased cytomegalovirus viremia versus patients with no (OR, 7.23 [1.95-26.8], P = 0.018) or non-DDR CH (OR, 7.64 [1.77-32.89], P = 0.024) and mycophenolate discontinuation (aOR, 3.8 [1.3-12.9], P = 0.031). CONCLUSIONCH in DDR genes is prevalent in lung transplant recipients and is associated with posttransplant outcomes including cytomegalovirus activation and mycophenolate intolerance. FUNDINGNIH/NHLBI K01HL155231 (LKT), R25HL105400 (LKT), Foundation for Barnes-Jewish Hospital (LKT), Evans MDS Center at Washington University (KAO, MJW), ASH Scholar Award (KAO), NIH K12CA167540 (KAO), NIH P01AI116501 (AEG, DK), NIH R01HL094601 (AEG), and NIH P01CA101937 (DCL)

Cationic biaryl 1,2,3-triazolyl peptidomimetic amphiphiles: synthesis, antibacterial evaluation and preliminary mechanism of action studies

Synthetic small molecular antimicrobial peptidomimetics represent a promising new class of potential antibiotics due to their membrane-disrupting ability and their decreased propensity for bacterial resistance. A library of 43 mono- and di-cationic biaryl 1,2,3-triazolyl peptidomimetics was designed and synthesized based upon previously established lead biarylpeptidomimetics and a known pharmacophore. A reliable, facile and modular synthetic pathway allowed for the efficient synthesis of multiple unique scaffolds which were subjected to divergent derivatization to furnish the amphiphilic compounds. In vitro testing revealed enhanced antibacterial efficacy against a range of pathogenic bacteria, including bacterial isolates with methicillin, vancomycin, daptomycin, or multi-drug resistance. Preliminary time-kill kinetics and membrane-disruption assays revealed a likely membrane-active mechanism for the tested peptidomimetics. An optimal balance between hydrophobicity and cationic charge was found to be essential for reduced cytotoxicity/haemolysis (i.e. membrane selectivity) and enhanced Gram-negative activity. The cationic biaryl amphiphile 81 was identified as a potent, broad-spectrum peptidomimetic with activity against Gram-positive (methicillin-resistant Staphylococcus aureus - MIC = 2 μg/mL) and Gram-negative (Escherichia coli - MIC = 4 μg/mL) pathogenic bacteria. © 2019 Elsevier Masson SA

Cationic biaryl 1,2,3-triazolyl peptidomimetic amphiphiles: synthesis, antibacterial evaluation and preliminary mechanism of action studies

Synthetic small molecular antimicrobial peptidomimetics represent a promising new class of potential antibiotics due to their membrane-disrupting ability and their decreased propensity for bacterial resistance. A library of 43 mono- and di-cationic biaryl 1,2,3-triazolyl peptidomimetics was designed and synthesized based upon previously established lead biarylpeptidomimetics and a known pharmacophore. A reliable, facile and modular synthetic pathway allowed for the efficient synthesis of multiple unique scaffolds which were subjected to divergent derivatization to furnish the amphiphilic compounds. In vitro testing revealed enhanced antibacterial efficacy against a range of pathogenic bacteria, including bacterial isolates with methicillin, vancomycin, daptomycin, or multi-drug resistance. Preliminary time-kill kinetics and membrane-disruption assays revealed a likely membrane-active mechanism for the tested peptidomimetics. An optimal balance between hydrophobicity and cationic charge was found to be essential for reduced cytotoxicity/haemolysis (i.e. membrane selectivity) and enhanced Gram-negative activity. The cationic biaryl amphiphile 81 was identified as a potent, broad-spectrum peptidomimetic with activity against Gram-positive (methicillin-resistant Staphylococcus aureus - MIC = 2 μg/mL) and Gram-negative (Escherichia coli - MIC = 4 μg/mL) pathogenic bacteria