LLukas22/scidocs huggingface dataset:
OpenStack Cloud Security Vulnerabilities from Inside and Outside

As usage of cloud computing increases, customers are mainly concerned about choosing cloud infrastructure with sufficient security. Concerns are greater in the multitenant environment on a public cloud. This paper addresses the security assessment of OpenStack open source cloud solution and virtual machine instances with different operating systems hosted in the cloud. The methodology and realized experiments target vulnerabilities from both inside and outside the cloud. We tested four different platforms and analyzed the security assessment. The main conclusions of the realized experiments show that multi-tenant environment raises new security challenges, there are more vulnerabilities from inside than outside and that Linux based Ubuntu, CentOS and Fedora are less vulnerable than Windows. We discuss details about these vulnerabilities and show how they can be solved by appropriate patches and other solutions. Keywords-Cloud Computing; Security Assessment; Virtualization.
Reduction of chemotherapy-induced febrile leucopenia by prophylactic use of ciprofloxacin and roxithromycin in small-cell lung cancer patients: an EORTC double-blind placebo-controlled phase III study.

BACKGROUND
CDE (cyclophosphamide, doxorubicin, etoposide) is one of the standard chemotherapy regimens in the treatment of small-cell lung cancer (SCLC), with myelosuppression as dose-limiting toxicity. In this trial the impact of prophylactic antibiotics on incidence of febrile leucopenia (FL) during chemotherapy for SCLC was evaluated.


PATIENTS AND METHODS
Patients with chemo-naïve SCLC were randomized to standard-dose CDE (C 1,000 mg/m2 day 1, D 45 mg/m2 day 1, E 100 mg/m2 days 1-3. i.v., q 3 weeks, x5) or to intensified CDE chemotherapy (125% dose, q 2 weeks, x4, with filgrastim 5 microg/kg/day days 4-13) to assess the impact on survival (n = 240 patients). Patients were also randomized to prophylactic antibiotics (ciprofloxacin 750 mg plus roxithromycin 150 mg, bid. days 4-13) or to placebo in a 2 x 2 factorial design (first 163 patients). This manuscript focuses on the antibiotics question.


RESULTS
The incidence of FL during the first cycle was 25% of patients in the placebo and 11% in the antibiotics arm (P = 0.010; 1-sided), with an overall incidence through all cycles of 43% vs. 24% respectively (P = 0.007; 1-sided). There were less Gram-positive (12 vs. 4), Gram-negative (20 vs. 5) and clinically documented (38 vs. 15) infections in the antibiotics arm. The use of therapeutic antibiotics was reduced (P = 0.013; 1-sided), with less hospitalizations due to FL (31 vs. 17 patients, P = 0.013: 1-sided). However, the overall number of days of hospitalization was not reduced (P = 0.05; 1-sided). The number of infectious deaths was nil in the antibiotics vs. five (6%) in the placebo arm (P = 0.022; 2-sided).


CONCLUSIONS
Prophylactic ciprofloxacin plus roxithromycin during CDE chemotherapy reduced the incidence of FL, the number of infections, the use of therapeutic antibiotics and hospitalizations due to FL by approximately 50%, with reduced number of infectious deaths. For patients with similar risk for FL, the prophylactic use of antibiotics should be considered.
Prevalence and covariates of masked hypertension in ischemic stroke survivors: the Norwegian Stroke in the Young Study.

BACKGROUND
Masked hypertension (MHT) is characterized by normal clinic blood pressure (BP), but elevated ambulatory BP has been associated with a higher prevalence of cardiovascular organ damage.


METHODS
We assessed the prevalence and characteristics of MHT in 298 ischemic stroke patients aged 15-60 years. High-normal office BP was considered present if systolic BP was 130-139 mmHg and/or diastolic BP was 85-89 mmHg. Arterial damage was defined as increased pulse wave velocity measured by applanation tonometry and/or mean common carotid intima-media thickness more than 0.9 mm measured by ultrasound.


RESULTS
MHT was found in 12% of patients. In multivariable logistic regression analysis, MHT patients were characterized by higher BMI [odds ratio (OR) 1.09; 95% confidence interval (CI) 1.03-1.16], high-normal office BP (OR 2.30; 95% CI 1.26-4.21), and higher serum triglycerides (OR 1.32; 95% CI 1.01-1.47, all P<0.05) in the total study population. Compared with normotensive patients, MHT was characterized by a higher prevalence of high-normal office BP (OR 2.05; 95% CI 1.08-3.90), obesity (OR 2.67; 95% CI 1.31-5.47), and arterial damage (OR 2.87; 95% CI 1.46-5.66, all P<0.05). Compared with patients with sustained hypertension, MHT was associated with a lower prevalence of arterial damage (OR 0.48; 95% CI 0.23-0.99, P=0.05) despite a higher prevalence of high-normal office BP and comparable ambulatory BP values.


CONCLUSION
Among young and middle-aged ischemic stroke patients, MHT was found in 12% and associated with high-normal office BP, obesity, and more prevalent arterial damage compared with normotensive patients, underscoring the importance of identification of MHT in these patients.
Pharmacokinetics and pharmacodynamics of intravenous and inhaled fluticasone furoate in healthy Caucasian and East Asian subjects

AIM
The aim of the study was to evaluate the pharmacokinetics (PK) of inhaled and intravenous (i.v.) fluticasone furoate (FF) in healthy Caucasian, Chinese, Japanese and Korean subjects.


METHOD
This was an open label, randomized, two way crossover study in healthy Caucasian, Chinese, Japanese and Korean subjects (n = 20 per group). Inhaled FF (200 μg for 7 days, then 800 μg for 7 days from a dry powder inhaler [DPI]) was administered in one treatment period and i.v.FF (250 μg infusion) in the other. FF PK and serum cortisol (inhaled 200 μg only) were compared between the ethnic groups using analysis of variance. P450 CYP3A4 activity and safety were also assessed.


RESULTS
Ethnic differences in i.v. FF PK were accounted for by body weight differences. CYP3A4 activity was similar across the groups. Higher FF systemic exposure was seen following inhaled dosing in Chinese, Japanese and Korean subjects compared with Caucasian subjects. Absolute bioavailability was greater (36%-55%) in all East Asian groups than for Caucasian subjects following inhaled FF 800 μg. Deconvolution analysis suggested inhaled FF resided in the lung of East Asian subjects longer than for Caucasians (time for 90% to be absorbed [t90]: 29.1-30.8 h vs. 21.4 h). In vitro simulation method predicted comparable delivered lung dose across ethnic groups. Serum cortisol weighted mean was similar between Caucasians and Chinese or Koreans, while in Japanese was on average 22% lower than in Caucasians. All FF treatments were safe and well tolerated.


CONCLUSION
Modestly higher (<50%) FF systemic exposure seen in East Asian subjects following inhaled dosing was not associated with a clinically significant effect on serum cortisol, suggesting that a clinical dose adjustment in East Asian subjects is not required.
The effects of violent video games on adolescents : The overlooked influence of development

Recent acts of extreme violence involving teens and associated links to violent video games have led to an increased interest in video game violence. Research suggests that violent video games influence aggressive behavior, aggressive affect, aggressive cognition, and physiological arousal. Anderson and Bushman [Annu. Rev. Psychol. 53 (2002) 27.] have posited a General Aggression Model (GAM) to explain the mechanism behind the link between violent video games and aggressive behavior. However, the influence of violent video games as a function of developmental changes across adolescence has yet to be addressed. The purpose of this review is to integrate the GAM with developmental changes that occur across adolescence. D 2002 Elsevier Science Ltd. All rights reserved.
Semi-isostatic densification of heat-treated radiata pine

Semi-isostatic densification is a useful method to increase the density and to improve the mechanical properties of fast-grown softwood species like radiata pine. A major disadvantage of this method is the almost complete recovery of the original dimensions when densified wood is exposed to moisture. Heat treatment improves the dimensional stability of wood and might be a useful method to prevent this shape-recovery after densification. However, no or only a limited effect on the shape-recovery was found when densified radiata pine was exposed to moisture.
Hive - A Warehousing Solution Over a Map-Reduce Framework

The size of data sets being collected and analyzed in the industry for business intelligence is growing rapidly, making traditional warehousing solutions prohibitively expensive. Hadoop [3] is a popular open-source map-reduce implementation which is being used as an alternative to store and process extremely large data sets on commodity hardware. However, the map-reduce programming model is very low level and requires developers to write custom programs which are hard to maintain and reuse. In this paper, we present Hive, an open-source data warehousing solution built on top of Hadoop. Hive supports queries expressed in a SQL-like declarative language HiveQL, which are compiled into map-reduce jobs executed on Hadoop. In addition, HiveQL supports custom map-reduce scripts to be plugged into queries. The language includes a type system with support for tables containing primitive types, collections like arrays and maps, and nested compositions of the same. The underlying IO libraries can be extended to query data in custom formats. Hive also includes a system catalog, Hive-Metastore, containing schemas and statistics, which is useful in data exploration and query optimization. In Facebook, the Hive warehouse contains several thousand tables with over 700 terabytes of data and is being used extensively for both reporting and ad-hoc analyses by more than 100 users. The rest of the paper is organized as follows. Section 2 describes the Hive data model and the HiveQL language with an example. Section 3 describes the Hive system architecture and an overview of the query life cycle. Section 4 provides a walk-through of the demonstration. We conclude with future work in Section 5.
A task shifting approach to primary mental health care for adults in South Africa: human resource requirements and costs for rural settings.

BACKGROUND A recent situational analysis suggests that post-apartheid South Africa has made some gains with respect to the decentralization and integration of mental health into primary health care. However, service gaps within and between provinces remain, with rural areas particularly underserved. Aim This study aims to calculate and cost a hypothetical human resource mix required to populate a framework for district adult mental health services. This framework embraces the concept of task shifting, where dedicated low cost mental health workers at the community and clinic levels supplement integrated care. METHOD The expected number and cost of human resources was based on: (a) assumptions of service provision derived from existing services in a sub-district demonstration site and a literature review of evidence-based packages of care in low- and middle-income countries; and (b) assumptions of service needs derived from other studies. RESULTS For a nominal population of 100 000, minimal service coverage estimates of 50% for schizophrenia, bipolar affective disorder, major depressive disorder and 30% for post-traumatic stress disorder and maternal depression would require that the primary health care staffing package include one post for a mental health counsellor or equivalent and 7.2 community mental health worker posts. The cost of these personnel amounts to £28 457 per 100 000 population. This cost can be offset by a reduction in the number of other specialist and non-specialist health personnel required to close service gaps at primary care level. CONCLUSION The adoption of the concept of task shifting can substantially reduce the expected number of health care providers otherwise needed to close mental health service gaps at primary health care level in South Africa at minimal cost and may serve as a model for other middle-income countries.
Constructing critical literacy: Self-reflexive ways for curriculum and pedagogy

Schools have the potential to be places where students can come to understand how and why knowledge and power are constructed (Aronowitz & Giroux, 1993). This paper provides an overview of critical literacy from a critical theory/Freirian perspective. Within it, critical literacy is posited as a necessary component of all classroom practices, one that is elemental to Dewey’s (1916) view of democracy, social justice, and what it means to be literate. Features of a critical literacy approach to instruction are provided along with rationales for the necessity of its inclusion in a democratic society.
Geometric substitution using random L-systems

Abstract Most scientific disciplines rely on models to describe their objects of interest and their behavior. This is also the case in computer graphics where different models are used to describe different entities commonly used in computer graphics systems. Specifically, fractal and procedural models have experienced a recent comeback due to their suitability to represent natural phenomena. Our work mainly concentrates on this area, where we analyze the relationship between geometric substitution techniques and rewrite or symbol pushing systems. Our conclusion is that any substitution rule can be equivalently expressed as a production rule in what we call a random L-system. Random L-systems, however, are more powerful and versatile than earlier techniques like parametric and stochastic L-systems and geometric substitution models. We show in this paper how random L-systems can be used to improve modeling in computer graphics applications. First, we present the model and explain its main features. Then we describe how symbol strings obtained by substitution can be applied to generate both two-dimensional and three-dimensional textures. We also detail how to use local and global perturbations of geometric substitution to obtain realistic models of certain types of objects. Finally, we discuss how the model allows the possibility of generating different level-of-detail geometries of an object, depending on its distance to the viewer. Our main contribution is a new rule-based model, the random L-system, that provides a compact representation for complex procedural objects with added functionality not present in previous models.
Psychodynamic Motivation and Training program (PMT) for the secondary prevention in patients with stable coronary heart disease: study protocol for a randomized controlled trial of feasibility and effects

BACKGROUND
Nonpharmacological secondary prevention of coronary heart disease is considered a safe and effective measure to substantially reduce mortality. Despite the effectiveness of lifestyle changes, the compliance rate of patients is very low mainly due to psychosocial barriers. Psychotherapeutic approaches that address how persons think about themselves and their behaviors appear to have a significant potential for improving health behavior.


METHODS/DESIGN
Against this background, our study aims to examine the feasibility and effects of a Psychodynamic Motivation and Training program (PMT) as compared to one session of advice in exercise training (EX) and treatment as usual (TAU). For that purpose, 90 patients with stable coronary heart disease and a physically inactive lifestyle will be randomly assigned to the three groups (each with n = 30). The primary outcome is the change in the individual anaerobic threshold as determined by spiroergometry from baseline to six month follow-up. Secondary endpoints include change in endothelial function, biomarkers of inflammation and oxidative stress, quality of life, symptoms of fatigue, illness perception and feasibility of the treatment approach. We hypothesize that physical fitness will improve more in PMT than in EX and TAU, with PMT and EX more than TAU, and that the effects will be more pronounced for participants with current mental or psychosocial distress.


DISCUSSION
The results of the study will help to determine the effectiveness of a psychodynamic lifestyle change approach and to identify measures for designing specifically tailored interventions to improve compliance with cardiovascular prevention.


TRIAL REGISTRATION
ClinicalTrials.gov Identifier: NCT01445808.
Management of intellectual capital in textile companies of the state of Ceará

The new context of the knowledge-based economy demands from companies new techniques and forms of business administration. The amount of organizational knowledge has become the most preeminent resource among the company’s assets and its management and measurement should be prioritized. In view of the importance of the intellectual assets in the context of the contemporary economy and the need for a better knowledge of the process of managing the intellectual assets in companies in the state of Ceara, this paper identifies the main characteristics of the process of management of the intellectual capital through a field study on for textile companies in the state of Ceara, Brazil. In order to carry out this exploratory-descriptive study of a qualitative nature, which was conducted in January and February of 2004, the primary data were collected by using the technique of semi-structured interviews with company managers. It was found that no single company already has an already implemented project or program to manage its intellectual assets. The management of financial indicators continues to be prioritized by the companies, demonstrating that the traditional administration prevails over new approaches. Despite being non-expressive, the indicators related to the management of the customer’s capital are the most disseminated ones, whereas the indicators related to the human capital seem to be secondary. Thus, this fact may represent a clear opportunity to further develop studies on this topic, in the light of its strategic importance for the state of Ceara. Key words: management, administration techniques, intellectual assets.
Mass spectrometry based metabolomic approaches in urinary biomarker study of women's cancers.

BACKGROUND
The metabolomic approaches for mining biomarkers of women's cancers based on gas chromatography-mass spectrometry and liquid chromatography-mass spectrometry combined with partial least squares-discriminant analysis are described.


METHODS
To identify urinary potential biomarkers, the qualitative and quantitative analyses were introduced with 10 breast, 9 ovarian and 12 cervical cancer patients as well as 22 normal controls, which were considered with their ages and menopausal state.


RESULTS
For comprehensive metabolomic approaches, the non-targeted qualitative profiling was first achieved to get metabolic patterns of collected samples and the targeted quantitative analysis focused on hormonal metabolism was also conducted. Two known biomarkers, i.e., 5-hydroxymethyl-2-deoxyuridine and 8-hydroxy-2-deoxyguanosine, in breast cancer were also confirmed using the present methods. In addition, 3 potential biomarkers for ovarian cancer i.e. 1-methyladenosine, 3-methyluridine, and 4-androstene-3,17-dione, which were categorized in significantly increased level using one way of variance analysis (p<0.05), were identified as quantitatively targeted metabolites with pattern analysis. The cancer markers identified in this study are highly related to metabolites which are responsible for oxidative DNA damage and DNA methylation process.


CONCLUSION
The present metabolomic approaches are not only useful for diagnostic tools and patient stratification, but may be mapped on metabolic network to reflect disease states.
Accurate De Novo Prediction of Protein Contact Map by Ultra-Deep Learning Model

MOTIVATION
Protein contacts contain key information for the understanding of protein structure and function and thus, contact prediction from sequence is an important problem. Recently exciting progress has been made on this problem, but the predicted contacts for proteins without many sequence homologs is still of low quality and not very useful for de novo structure prediction.


METHOD
This paper presents a new deep learning method that predicts contacts by integrating both evolutionary coupling (EC) and sequence conservation information through an ultra-deep neural network formed by two deep residual neural networks. The first residual network conducts a series of 1-dimensional convolutional transformation of sequential features; the second residual network conducts a series of 2-dimensional convolutional transformation of pairwise information including output of the first residual network, EC information and pairwise potential. By using very deep residual networks, we can accurately model contact occurrence patterns and complex sequence-structure relationship and thus, obtain higher-quality contact prediction regardless of how many sequence homologs are available for proteins in question.


RESULTS
Our method greatly outperforms existing methods and leads to much more accurate contact-assisted folding. Tested on 105 CASP11 targets, 76 past CAMEO hard targets, and 398 membrane proteins, the average top L long-range prediction accuracy obtained by our method, one representative EC method CCMpred and the CASP11 winner MetaPSICOV is 0.47, 0.21 and 0.30, respectively; the average top L/10 long-range accuracy of our method, CCMpred and MetaPSICOV is 0.77, 0.47 and 0.59, respectively. Ab initio folding using our predicted contacts as restraints but without any force fields can yield correct folds (i.e., TMscore>0.6) for 203 of the 579 test proteins, while that using MetaPSICOV- and CCMpred-predicted contacts can do so for only 79 and 62 of them, respectively. Our contact-assisted models also have much better quality than template-based models especially for membrane proteins. The 3D models built from our contact prediction have TMscore>0.5 for 208 of the 398 membrane proteins, while those from homology modeling have TMscore>0.5 for only 10 of them. Further, even if trained mostly by soluble proteins, our deep learning method works very well on membrane proteins. In the recent blind CAMEO benchmark, our fully-automated web server implementing this method successfully folded 6 targets with a new fold and only 0.3L-2.3L effective sequence homologs, including one β protein of 182 residues, one α+β protein of 125 residues, one α protein of 140 residues, one α protein of 217 residues, one α/β of 260 residues and one α protein of 462 residues. Our method also achieved the highest F1 score on free-modeling targets in the latest CASP (Critical Assessment of Structure Prediction), although it was not fully implemented back then.


AVAILABILITY
http://raptorx.uchicago.edu/ContactMap/.