Miracle-dz/UniFAR-FTUs huggingface dataset:
Write-Avoiding Algorithms

Communication, i.e., moving data between levels of a memory hierarchy or between processors over a network, is much more expensive (in time or energy) than arithmetic. There has thus been a recent focus on designing algorithms that minimize communication and, when possible, attain lower bounds on the total number of reads and writes. However, most previous work does not distinguish between the costs of reads and writes. Writes can be much more expensive than reads in some current and emerging storage devices such as nonvolatile memories. This motivates us to ask whether there are lower bounds on the number of writes that certain algorithms must perform, and whether these bounds are asymptotically smaller than bounds on the sum of reads and writes together. When these smaller lower bounds exist, we then ask when they are attainable, we call such algorithms "write-avoiding" (WA), to distinguish them from "communication-avoiding" (CA) algorithms, which only minimize the sum of reads and writes. We identify a number of cases in linear algebra and direct N-body methods where known CA algorithms are also WA (some are and some aren't). We also identify classes of algorithms, including Strassen's matrix multiplication, Cooley-Tukey FFT, and cache oblivious algorithms for classical linear algebra, where a WA algorithm cannot exist: the number of writes is unavoidably within a constant factor of the total number of reads and writes. We explore the interaction of WA algorithms with cache replacement policies and argue that the Least Recently Used policy works well with the WA algorithms in this paper. We provide empirical hardware counter measurements from Intel's Nehalem-EX microarchitecture to validate our theory. In the parallel case, for classical linear algebra, we show that it is impossible to attain lower bounds both on interprocessor communication and on writes to local memory, but either one is attainable by itself. Finally, we discuss WA algorithms for sparse iterative linear algebra.
Reliability of Measured Data for pH Sensor Arrays with Fault Diagnosis and Data Fusion Based on LabVIEW

Fault diagnosis (FD) and data fusion (DF) technologies implemented in the LabVIEW program were used for a ruthenium dioxide pH sensor array. The purpose of the fault diagnosis and data fusion technologies is to increase the reliability of measured data. Data fusion is a very useful statistical method used for sensor arrays in many fields. Fault diagnosis is used to avoid sensor faults and to measure errors in the electrochemical measurement system, therefore, in this study, we use fault diagnosis to remove any faulty sensors in advance, and then proceed with data fusion in the sensor array. The average, self-adaptive and coefficient of variance data fusion methods are used in this study. The pH electrode is fabricated with ruthenium dioxide (RuO2) sensing membrane using a sputtering system to deposit it onto a silicon substrate, and eight RuO2 pH electrodes are fabricated to form a sensor array for this study.
Emergency Department Asthma Medication Delivery Program: An Initiative to Provide Discharge Prescriptions and Education

Background: Prescription fill rates for children being discharged from the emergency department (ED) after asthma exacerbations are low, placing the child at risk for additional ED visits or admissions for asthma. This article describes the implementation of an ED asthma prescription delivery service designed to improve pharmacy prescription capture and decrease ED revisit rates. Methods: A core group developed a service to provide asthma prescriptions and education to patients in their ED room before discharge. The project assessed the percent of ED asthma patients who filled ED asthma prescriptions at the hospital outpatient pharmacy, 7-, 14-, and 30-day ED revisit rates, and patient satisfaction. Intervention: Patients/families who chose to participate in the service received asthma prescriptions and education at the ED bedside. Within 1–3 days, ED outreach nurses obtained patient satisfaction survey responses via telephone. Results: There was a statistically significant increase in the number of patients who filled ED asthma prescriptions at the hospital outpatient pharmacy (22.2% versus 33.8%; P < 0.0001). The decrease in 7-, 14-, or 30-day ED revisit rates for patients who received the medication delivery service compared with standard of care was not statistically significant. Patients were satisfied to very satisfied with the service. Conclusion: Postimplementation of a medication delivery program within the ED, there was an increase in the percentage of patients who filled ED asthma medication prescriptions at the hospital outpatient pharmacy. There was no difference in ED revisit rates for patients who enrolled in the prescription delivery service versus standard of care.
Bactericidal Action of Gatifloxacin, Rifampin, and Isoniazid on Logarithmic- and Stationary-Phase Cultures of Mycobacterium tuberculosis

ABSTRACT The bactericidal activity of gatifloxacin, alone and in combination with isoniazid and rifampin, was studied on both exponential- and stationary-phase cultures of Mycobacterium tuberculosis strain H37Rv. On log-phase cultures, the bactericidal activity of gatifloxacin at 4 μg/ml was rapid and was very similar to that of isoniazid. At concentrations of 0.25 and 4 μg/ml, gatifloxacin enhanced the activity of isoniazid. Killing of the stationary-phase culture was biphasic. During the first 2 days, gatifloxacin at 4 μg/ml slightly increased the limited bactericidal activities of isoniazid and rifampin. However, no further additional bactericidal activity was found during further incubation with isoniazid alone or when gatifloxacin was added to either isoniazid or rifampin. This suggested that the stationary-phase culture contained a mixture of occasionally dividing bacilli that were killed during the first 2 days and true static persisters in the residual population that mimicked those in human lesions. In view of the failure of gatifloxacin to add to the sterilizing activity of isoniazid or rifampin during days 2 to 6 of exposure in the stationary-phase culture, it is unlikely to be a sterilizing drug that can be used to shorten the duration of treatment appreciably when it is added to present treatment regimens.
Quantifying Dynamic Stability and Maneuverability in Legged Locomotion1

Abstract Animals can swerve, dodge, dive, climb, turn and stop abruptly. Their stability and maneuverability are remarkable, but a challenge to quantify. Formal stability analysis can allow for quantitative comparisons within and among species. Stability analysis used in concert with a template (a simple, general model that serves as a guide for control) can lead to testable hypotheses of function. Neural control models postulated without knowledge of the animal's mechanical (musculo-skeletal) system can be counterproductive and even destabilizing. Perturbations actively corrected by reflex feedback in one direction can result in perturbations in other directions because the system is coupled dynamically. The passive rate of recovery from a perturbation in one direction differs from rates in other directions. We hypothesize that animals might exert less neural control in directions that rapidly recover via passive dynamics (e.g., in body orientation and rotation). By contrast, animals are likely to exert more neural control in directions that recover slowly or not at all via passive dynamics (e.g., forward velocity and heading). Neural control best enhances stability when it works with the natural, passive dynamics of the mechanical system. Measuring maneuverability is more challenging and new, general metrics are needed. Templates reveal that simple analyses of summed forces and quantification of the center of pressure can lead to valuable hypotheses, whereas kinematic descriptions may be inadequate. The study of stability and maneuverability has direct relevance to the behavior and ecology of animals, but is also critical if animal design is to be understood. Animals appear to be grossly over-built for steady-state, straight-ahead locomotion, as they appear to possess too many neurons, muscles, joints and even too many appendages. The next step in animal locomotion is to subject animals to perturbations and reveal the function of all their parts.
Modeling On-Body DTN Packet Routing Delay in the Presence of Postural Disconnections

This paper presents a stochastic modeling framework for store-and-forward packet routing in Wireless Body Area Networks (WBAN) with postural partitioning. A prototype WBANs has been constructed for experimentally characterizing and capturing on-body topology disconnections in the presence of ultrashort range radio links, unpredictable RF attenuation, and human postural mobility. Delay modeling techniques for evaluating single-copy on-body DTN routing protocols are then developed. End-to-end routing delay for a series of protocols including opportunistic, randomized, and two other mechanisms that capture multiscale topological localities in human postural movements have been evaluated. Performance of the analyzed protocols are then evaluated experimentally and via simulation to compare with the results obtained from the developed model. Finally, a mechanism for evaluating the topological importance of individual on-body sensor nodes is developed. It is shown that such information can be used for selectively reducing the on-body sensor-count without substantially sacrificing the packet delivery delay.
Sink or swim? Bone density as a mechanism for buoyancy control in early cetaceans

Previous analyses have shown that secondarily aquatic tetrapods, including whales, exhibit osteological adaptations to life in water as part of their complex buoyancy control systems. These structural specializations of bone span hyperostosis through osteoporosis. The past 15 years of paleontological effort has provided an unprecedented opportunity to examine the osteological transformation of whales as they make their transition to an obligate aquatic lifestyle over a 10‐million‐year period. It is hypothesized that whales manifest their osteological specialization in the same manner as extant semiaquatic and fully aquatic mammals. This study presents and analysis of the microstructural features of bone in early and late archaic cetaceans, and in a comparative sample of modern terrestrial, semiaquatic, and aquatic mammals. Bone histology was examined from the ribs of 10 fossilized individuals representing five early cetacean families, including Pakicetidae, Ambulocetidae, Protocetidae, Remintonocetidae, and Basilosauridae. Comparisons were then made with rib histology from nine genera of extant mammals including: Odocoileus (deer), Bos (cow), Equus (horse), Canis (dog), Lutra (river otter), Enhydra (sea otter), Choeropsis (pygmy hippo), Trichechus (sea cow), and Delphinus (dolphin). Results show that the transition from terrestrial, to semiaquatic, to obligate aquatic locomotion in archaeocetes involved a radical shift in bone function achieved by means of profound changes at the microstructural level. A surprising finding was that microstructural change predates gross anatomical shift in archaeocetes associated with swimming. Histological analysis shows that high bone density is an aquatic specialization that provides static buoyancy control (ballast) for animals living in shallow water, while low bone density is associated with dynamic buoyancy control for animals living in deep water. Thus, there was a shift from the typical terrestrial form, to osteopetrosis and pachyosteosclerosis, and then to osteoporosis in the first quarter of cetacean evolutionary history. Anat Rec, 290:638–653, 2007. © 2007 Wiley‐Liss, Inc.
Antiinflammatory Therapies for Cystic Fibrosis: Past, Present, and Future

Inflammation is a major component of the vicious cycle characterizing cystic fibrosis pulmonary disease. If untreated, this inflammatory process irreversibly damages the airways, leading to bronchiectasis and ultimately respiratory failure. Antiinflammatory drugs for cystic fibrosis lung disease appear to have beneficial effects on disease parameters. These agents include oral corticosteroids and ibuprofen, as well as azithromycin, which, in addition to its antimicrobial effects, also possesses antiinflammatory properties. Inhaled corticosteroids, colchicine, methotrexate, montelukast, pentoxifylline, nutritional supplements, and protease replacement have not had a significant impact on the disease. Therapy with oral corticosteroids, ibuprofen, and fish oil is limited by adverse effects. Azithromycin appears to be safe and effective, and is thus the most promising antiinflammatory therapy available for patients with cystic fibrosis. Pharmacologic therapy with antiinflammatory agents should be started early in the disease course, before extensive irreversible lung damage has occurred.
Epigenetic Silencing of the Circadian Clock Gene CRY1 is Associated with an Indolent Clinical Course in Chronic Lymphocytic Leukemia

Disruption of circadian rhythm is believed to play a critical role in cancer development. Cryptochrome 1 (CRY1) is a core component of the mammalian circadian clock and we have previously shown its deregulated expression in a subgroup of patients with chronic lymphocytic leukemia (CLL). Using real-time RT-PCR in a cohort of 76 CLL patients and 35 normal blood donors we now demonstrate that differential CRY1 mRNA expression in high-risk (HR) CD38+/immunoglobulin variable heavy chain gene (IgVH) unmutated patients as compared to low-risk (LR) CD38−/IgVH mutated patients can be attributed to down-modulation of CRY1 in LR CLL cases. Analysis of the DNA methylation profile of the CRY1 promoter in a subgroup of 57 patients revealed that CRY1 expression in LR CLL cells is silenced by aberrant promoter CpG island hypermethylation. The methylation pattern of the CRY1 promoter proved to have high prognostic impact in CLL where aberrant promoter methylation predicted a favourable outcome. CRY1 mRNA transcript levels did not change over time in the majority of patients where sequential samples were available for analysis. We also compared the CRY1 expression in CLL with other lymphoid malignancies and observed epigenetic silencing of CRY1 in a patient with B cell acute lymphoblastic leukemia (B-ALL).
Interactions of actin, myosin, and a new actin-binding protein of rabbit pulmonary macrophages. II. Role in cytoplasmic movement and phagocytosis

Actin and myosin of rabbit pulmonary macrophages are influenced by two other proteins. A protein cofactor is required for the actin activation of macrophage myosin Mg2 ATPase activity, and a high molecular weight actin-binding protein aggregates actin filaments (Stossel T.P., and J.H. Hartwig. 1975. J. Biol. Chem. 250:5706-5711)9 When warmed in 0.34 M sucrose solution containing Mg2-ATP and dithiothreitol, these four proteins interact cooperatively. Acin-binding protein in the presence of actin causes the actin to form a gel, which liquifies when cooled. The myosin contracts the gel into an aggregate, and the rate of aggregation is accelerated by the cofactor. Therefore, we believe that these four proteins also effec the temperature-dependent gelation and aggregation of crude sucrose extracts pulmonary macrophages containing Mg2-ATP and dithiothreitol. The gelled extracts are composed of tangled filaments. Relative to homogenates of resting macrophages, the distribution of actin-binding protein in homogenates of phagocytizing macrophages is altered such that 2-6 times more actin-binding protein is soluble. Sucrose extracts of phagocytizing macrophages gel more rapidly than extracts of resting macrophages. Phagocytosis by pulmonary macrophages involves the formation of peripheral pseudopods containing filaments. The findings suggest that the actin-binding protein initiates a cooperative interaction of contractile proteins to generate cytoplasmic gelation, and that phagocytosis influences the behavior of the actin-binding protein.
Quantum Ensemble Classification: A Sampling-Based Learning Control Approach

Quantum ensemble classification (QEC) has significant applications in discrimination of atoms (or molecules), separation of isotopes, and quantum information extraction. However, quantum mechanics forbids deterministic discrimination among nonorthogonal states. The classification of inhomogeneous quantum ensembles is very challenging, since there exist variations in the parameters characterizing the members within different classes. In this paper, we recast QEC as a supervised quantum learning problem. A systematic classification methodology is presented by using a sampling-based learning control (SLC) approach for quantum discrimination. The classification task is accomplished via simultaneously steering members belonging to different classes to their corresponding target states (e.g., mutually orthogonal states). First, a new discrimination method is proposed for two similar quantum systems. Then, an SLC method is presented for QEC. Numerical results demonstrate the effectiveness of the proposed approach for the binary classification of two-level quantum ensembles and the multiclass classification of multilevel quantum ensembles.
Modeling Algorithms for Predicting the Effects of Human Performance in the Presence of Environmental Stressors

For military systems, environmental stressors (e.g. motion, temperature, noise) must be considered during decision making related to manpower requirements, workload determination, design tradeoffs, and mission effectiveness/sustainability early into and throughout the system acquisition process. Current human performance modeling techniques may have limited predictive utility and have not been fully validated against operational human in the loop (HIL) data. As a result, they may lack sufficient fidelity to support systems engineering needs to predict the individual and interactive effects that environmental stressors may have on human performance. The purpose of this paper is to describe an approach for developing performance shaping function (PSF) algorithms for environmental stressors that can be integrated into human performance modeling tools. These high fidelity plug-in algorithms are anticipated to provide an enhanced level of predictive validity when compared to current discrete event modeling tools. The algorithms will address environmentally induced limitations that are levied on human performance and enhance decision making in defense acquisition system design and cost versus performance tradeoffs.
Sulfate Attack on Concrete: Research Needs

The mechanism of sulfate attack on portland cement concrete is not well understood. This has limited confidence that can be placed in and hence the reliability of existing standard tests and models to predict performance and service life of concrete subjected to sulfate attack. A systematic research effort is necessary to establish 5 criteria. This paper presents and discusses these 5 criteria. In addition, an approach for assessing the influence of pozzolans, or other cementing materials, on concrete performance and service life in sulfate environment is presented.
Modular Graph Rewriting to Compute Semantics

Taking an asynchronous perspective on the syntax-semantics interface, we propose to use modular graph rewriting systems as the model of computation. We formally define them and demonstrate their use with a set of modules which produce underspecified semantic representations from a syntactic dependency graph. We experimentally validate this approach on a set of sentences. The results open the way for the production of underspecified semantic dependency structures from corpora annotated with syntactic dependencies and, more generally, for a broader use of modular rewriting systems for computational linguistics.
Online vocabulary adaptation using limited adaptation data

This paper presents a study of low-latency domain-independent online vocabulary adaptation using limited amounts of supporting text data. The target applications include blind indexing of Internet content, indexing of new content with low latency, and domains where Out-Of-Vocabulary (OOV) words are problematic. A number of methods to perform document-specific adaptation using a small amount of support metadata and the Internet are examined. It is shown that a combination of word feature fusion and cross-file statistics pooling provides robust adaptation. The best evaluated method achieved an absolute reduction of 27.6% in OOV detection false alarm rate over the baseline word feature thresholding methods.
Leukoaraiosis, intracerebral hemorrhage, and functional outcome after acute stroke thrombolysis

Objective: To perform a systematic review and pooled meta-analysis of published studies to assess whether the presence of leukoaraiosis on neuroimaging before treatment with thrombolysis (IV or intra-arterial) is associated with an increased risk of symptomatic intracerebral hemorrhage (sICH) or poor functional outcome. Methods: We included studies of patients with acute ischemic stroke, treated with IV or intra-arterial thrombolysis, which assessed functional outcome (3-month modified Rankin Scale [mRS]) or sICH in relation to leukoaraiosis on pretreatment neuroimaging (CT or MRI). We used random-effects models to calculate pooled relative risks (RR) of sICH and poor functional outcome (mRS ≥ 2) for any vs no leukoaraiosis (using any rating scale) and for no to mild vs moderate to severe leukoaraiosis (using the Van Swieten or Fazekas Schmidt scale). Results: We identified 15 studies (total n = 6,967). For sICH outcome, the RR was 1.65 (n = 5,551; 95% confidence interval [CI] 1.26–2.16, p = 0.001) with an absolute risk (AR) increase of 2.5% for any leukoaraiosis vs none. The RR was 2.4 (n = 4,192; 95% CI 1.83–3.14, p = 0.001) with an AR increase of 6.2% for moderate to severe vs no to mild leukoaraiosis. For poor functional outcome; the RR was 1.30 (n = 3,401; 95% CI 1.19–1.42, p = 0.001) with an AR increase of 15.4% for any leukoaraiosis vs none. The RR was 1.31 (n = 3,659; 95% CI 1.22–1.42, p = 0.001) with an AR increase of 17.5% for moderate to severe vs no to mild leukoaraiosis. No statistical heterogeneity was noted for any of the analyses. Conclusions: Leukoaraiosis presence and severity are consistently associated with an increased risk of sICH and poor functional outcome after IV or intra-arterial thrombolysis for acute ischemic stroke.