Susceptible-infected-recovered-susceptible processes competing on simplicial complexes.

Contagions do not exist in isolation but in the presence of other propagating quantities, with which they may compete. Furthermore, higher-order interactions (interactions involving more than two nodes) are widely represented in real-world systems. We propose a stochastic model for susceptible-infected-recovered-susceptible (SIRS) processes competing in a simplicial complex that accommodates higher-order interactions.

Brain-inspired wiring economics for artificial neural networks.

Wiring patterns of brain networks embody a trade-off between information transmission, geometric constraints, and metabolic cost, all of which must be balanced to meet functional needs. Geometry and wiring economy are crucial in the development of brains, but their impact on artificial neural networks (ANNs) remains little understood. Here, we adopt a wiring cost-controlled training framework that simultaneously optimizes wiring efficiency and task performance during structural evolution of sparse ANNs whose nodes are located at arbitrary but fixed positions.

Exploring an emotional basis of cognitive control in the flanker task.

The present study investigated the influence of emotional stimuli in the flanker task. In six experiments, separate influences of anticipating and reacting to valence-laden stimuli (affective pictures or facial expressions) on the flanker effect and its sequential modulation (also known as conflict adaptation) were examined. The results showed that there was little evidence that emotional stimuli influenced cognitive control when positive and negative stimuli appeared randomly during the flanker task.

Network Spreading from Network Dimension.

Continuous-state network spreading models provide critical numerical and analytic insights into transmission processes in epidemiology, rumor propagation, knowledge dissemination, and many other areas. Most of these models reflect only local features such as adjacency, degree, and transitivity, so can exhibit substantial error in the presence of global correlations typical of empirical networks. Here, we propose mitigating this limitation via a network property ideally suited to capturing spreading.

Cost-effective selective deuteration of aromatic amino acid residues produces long-lived solution H NMR magnetization in proteins.

Solution NMR studies of large proteins are hampered by rapid signal decay due to short-range dipolar H-H and H-C interactions. These are attenuated by rapid rotation in methyl groups and by deuteration (H), so selective H,C-isotope labelling of methyl groups in otherwise perdeuterated proteins, combined with methyl transverse relaxation optimized spectroscopy (methyl-TROSY), is now standard for solution NMR of large protein systems > 25 kDa. For non-methyl positions, long-lived magnetization can be introduced as isolated H-C groups.

Correlation dimension in empirical networks.

Network correlation dimension governs the distribution of network distance in terms of a power-law model and profoundly impacts both structural properties and dynamical processes. We develop new maximum likelihood methods which allow us robustly and objectively to identify network correlation dimension and a bounded interval of distances over which the model faithfully represents structure. We also compare the traditional practice of estimating correlation dimension by modeling as a power law the fraction of nodes within a distance to a proposed alternative of modeling as a power law the fraction of nodes at a distance.

A Novel Predictive Model for Hospital Survival in Patients who are Critically Ill with Dialysis-Dependent AKI: A Retrospective Single-Center Exploratory Study.

Background: Mortality of patients who are critically ill with AKI initiated on RRT is very high. Identifying modifiable and unmodifiable clinical variables at dialysis start that are associated with hospital survival can help, not only in prognostication, but also in clinical triaging.

Methods: A retrospective observational study was conducted on patients with AKI-D who were initiated on RRT in the medical and surgical intensive care units (ICUs) of a high-acuity academic medical center from January 2010 through December 2015.

Epidemic dynamics on higher-dimensional small world networks.

Dimension governs dynamical processes on networks. The social and technological networks which we encounter in everyday life span a wide range of dimensions, but studies of spreading on finite-dimensional networks are usually restricted to one or two dimensions. To facilitate investigation of the impact of dimension on spreading processes, we define a flexible higher-dimensional small world network model and characterize the dependence of its structural properties on dimension.

Identification of proteins and cellular pathways targeted by 2-nitroimidazole hypoxic cytotoxins.

Tumour hypoxia negatively impacts therapy outcomes and continues to be a major unsolved clinical problem. Nitroimidazoles are hypoxia selective compounds that become entrapped in hypoxic cells by forming drug-protein adducts. They are widely used as hypoxia diagnostics and have also shown promise as hypoxia-directed therapeutics.

Transplant nephrectomy with peritoneal window: Georgetown University experience.

Objectives: Transplant nephrectomy is a technically challenging procedure with high complication rates. Morbidity and mortality are mostly due to hemorrhage or infection and are reported to be 17-60% and 1-39%, respectively. The most common surgical technique for transplant nephrectomy is sub-capsular, extraperitoneal approach which may result in fluid accumulation and subsequent super-infection.

Growing networks with communities: A distributive link model.

Evolution and popularity are two keys of the Barabasi-Albert model, which generates a power law distribution of network degrees. Evolving network generation models are important as they offer an explanation of both how and why complex networks (and scale-free networks, in particular) are ubiquitous. We adopt the evolution principle and then propose a very simple and intuitive new model for network growth, which naturally evolves modular networks with multiple communities.

Kidney retransplantation after anti-programmed cell death-1 (PD-1)-related allograft rejection.

In this report, we describe the first kidney retransplantation performed after anti-programmed cell death-1 (PD-1)-related allograft rejection. In 2014, we administered pembrolizumab (anti-PD-1) for ~9 months to a 57-year-old kidney transplant recipient with metastatic cutaneous squamous cell carcinoma (CSCC). The patient experienced both a complete antitumor response and T cell-mediated allograft rejection requiring reinitiation of hemodialysis.

Mean local autocovariance provides robust and versatile choice of delay for reconstruction using frequently sampled flowlike data.

The first step in nonlinear time-series analysis can be selecting a delay for reconstruction. The most popular choices of this delay are the first zero of the autocovariance and the first minimum of the mutual information. An advantage of the first method arises from the robustness to noise of the autocovariance function, while an advantage of the second is that the first minimum of the mutual information provides a useful choice of delay for a wide range of nonlinear systems.

Is Bach's brain a Markov chain? Recurrence quantification to assess Markov order for short, symbolic, musical compositions.

It is rarely possible to precisely characterise the system underlying a series of observations. Hypothesis testing, which involves assessing simple assumptions about driving mechanisms, provides hope that we can at least rule out certain possibilities regarding the nature of the system. Unfortunately, the brevity, nonstationarity, and symbolic nature of certain time series of interest undermines traditional hypothesis tests.

Identification and Characterization of Novel Receptor-Interacting Serine/Threonine-Protein Kinase 2 Inhibitors Using Structural Similarity Analysis.

Receptor-interacting protein kinase 2 (RIP2 or RICK, herein referred to as RIPK2) is linked to the pathogen pathway that activates nuclear factor -light-chain-enhancer of activated B cells (NFB) and autophagic activation. Using molecular modeling (docking) and chemoinformatics analyses, we used the RIPK2/ponatinib crystal structure and searched in chemical databases for small molecules exerting binding interactions similar to those exerted by ponatinib. The identified RIPK2 inhibitors potently inhibited the proliferation of cancer cells by > 70% and also inhibited NFB activity.

The sole LSm complex in associates with pre-mRNA splicing and mRNA degradation factors.

Proteins of the Sm and Sm-like (LSm) families, referred to collectively as (L)Sm proteins, are found in all three domains of life and are known to promote a variety of RNA processes such as base-pair formation, unwinding, RNA degradation, and RNA stabilization. In eukaryotes, (L)Sm proteins have been studied, inter alia, for their role in pre-mRNA splicing. In many organisms, the LSm proteins form two distinct complexes, one consisting of LSm1-7 that is involved in mRNA degradation in the cytoplasm, and the other consisting of LSm2-8 that binds spliceosomal U6 snRNA in the nucleus.

A Low-Cost, Open-Source, Compliant Hand for Enabling Sensorimotor Control for People with Transradial Amputations.

In this paper, we describe the design and implementation of a low-cost, open-source prosthetic hand that enables both motor control and sensory feedback for people with transradial amputations. We integrate electromyographic pattern recognition for motor control along with contact reflexes and sensory substitution to provide feedback to the user. Compliant joints allow for robustness to impacts.

Pre-empting Antibody-Mediated Rejection: A Program of DSA Monitoring and Treatment Can Effectively Prevent Antibody Mediated Rejection.

Antibody-mediated rejection (AMR) remains a problem without a reliable treatment in the care of kidney transplant patients. We proposed and tested a program of screening for donor specific antibodies (DSA) to initiate treatment of patients before AMR was detected and to prevent its occurrence. Starting in April 2012, we stratified patients into high-, medium-, and low-risk groups for the development of DSA and instituted a program of screening for and treatment of these antibodies.

Improvements to local projective noise reduction through higher order and multiscale refinements.

The broad spectrum characteristic of signals from nonlinear systems obstructs noise reduction techniques developed for linear systems. Local projection was developed to reduce noise while preserving nonlinear deterministic structures, and a second order refinement to local projection which was proposed ten years ago does so particularly effectively. It involves adjusting the origin of the projection subspace to better accommodate the geometry of the attractor.

Probing the leucyl/phenylalanyl tRNA protein transferase active site with tRNA substrate analogues.

Aminoacyl-tRNA protein transferases post-translationally conjugate an amino acid from an aminoacyl-tRNA onto the N-terminus of a target polypeptide. The eubacterial aminoacyl-tRNA protein transferase, L/F transferase, utilizes both leucyl-tRNA(Leu) and phenylalanyl-tRNA(Phe) as substrates. X-ray crystal structures with substrate analogues, the minimal substrate phenylalanyl adenosine (rA-Phe) and inhibitor puromycin, have been used to characterize tRNA recognition by L/F transferase.

The technology path to deep greenhouse gas emissions cuts by 2050: the pivotal role of electricity.

Several states and countries have adopted targets for deep reductions in greenhouse gas emissions by 2050, but there has been little physically realistic modeling of the energy and economic transformations required. We analyzed the infrastructure and technology path required to meet California's goal of an 80% reduction below 1990 levels, using detailed modeling of infrastructure stocks, resource constraints, and electricity system operability. We found that technically feasible levels of energy efficiency and decarbonized energy supply alone are not sufficient; widespread electrification of transportation and other sectors is required.