Miracle-dz/UniFAR-FTUs huggingface dataset:
An insight into biological datamining based on rarity and correlation as constraints

Association-rules mining techniques have been widely applied to identify differently expressed gene expressions among micro-array data. Rare correlated patterns are identified as efficient in generating accurate association rules. To our knowledge, no any algorithm which is able to perform this challenging task is currently available. Therefore, we designed CPMiner, a new generic method for mining interesting correlations from data. It performs the extraction of the sets of both frequent correlated and rare correlated patterns as well as their associated condensed representations according to two distinct measures: all-confidence and bond. CPMiner has been applied on processing biological data. To this end we developed CoRaM, the first unified framework dedicated to the extraction of a generic basis of Correlated-Rare association rules from gene expression data. It relies on CPMiner extracting the rare correlated patterns and both a specific discretization method and the derivation of the generic basis of the rare correlated association rules. Our proposed approach has been successfully applied on a breast-cancer Gene Expression Matrix (GSE1379) with very promising results.
Sphingosine 1‐phosphate‐primed astrocytes enhance differentiation of neuronal progenitor cells

Sphingosine 1‐phosphate (S1P) is a bioactive signaling lysophospholipid. Effects of S1P on proliferation, survival, migration, and differentiation have already been described; however, its role as a mediator of interactions between neurons and glial cells has been poorly explored. Here we describe effects of S1P, via the activation of its receptors in astrocytes, on the differentiation of neural progenitor cells (NPC) derived from either embryonic stem cells or the developing cerebral cortex. S1P added directly to NPC induced their differentiation, but S1P‐primed astrocytes were able to promote even more pronounced changes in maturation, neurite outgrowth, and arborization in NPC. An increase in laminin by astrocytes was observed after S1P treatment. The effects of S1P‐primed astrocytes on neural precursor cells were abrogated by antibodies against laminin. Together, our data indicate that S1P‐treated astrocytes are able to induce neuronal differentiation of NPC by increasing the levels of laminin. These results implicate S1P signaling pathways as new targets for understanding neuroglial interactions within the central nervous system. © 2012 Wiley Periodicals, Inc.
Refactoring von Ereignisgesteuerten Prozessketten

Unter dem Begriff Refactoring werden bisher innerhalb der Literatur vornehmlich Techniken zur Verbesserung der Qualitat von Programmcode diskutiert. In dieser Arbeit wird der Begriff Refactoring ebenso auf die Verbesserung der Qualitat von Informationsmodellen ausgeweitet. Zur Demonstration werden verschiedene Techniken zum Refactoring von Ereignisgesteuerten Prozessketten vorgestellt. Diese umfassen bspw. Techniken zur strukturierten Modellierung von Prozessen oder der Verwendung ausgewiesener Verknupfungsoperatoren von Prozessstrangen. Derartige Model Refactoring-Techniken konnen die Funktionalitat von Werkzeugen zur Prozessmodellierung sinnvoll erganzen, indem dem Modellierer abstraktionsreiche Operationen zur Verfugung gestellt werden.
Heart rate variability: a telltale of health or disease.

accompanied by cessation classes, was followed by apparent increases in smoking cessation by employees. Finally, it should be emphasized that in addition to skill building, nicotine replacement therapy, prescribing bupropion and social support one should realize that tobacco places an enormous burden on public health and society as a whole. A comprehensive strategy aiming at a smoking free society is necessary, including regulatory activities, protection of nonor ex-smokers at work and during leisure time activities (restaurants, public places, transport), de-legitimization of tobacco use and denormalization of the tobacco industry. Physicians and cardiologists should be at the forefront — leading the implementation of smoking cessation programmes in clinical practice. G. DE BACKER H. BOUDREZ Cardiac Rehabilitation Centre, University Hospital, Gent, Belgium References
Pairwise normalization in SimRank variants: problem, solution, and evaluation

Despite of the success in the real-world applications, SimRank and its variants, rvs-SimRank and PRank, suffer from the pairwise normalization problem (PNP) as a counter intuitive property hidden in their computation paradigm. Jac-Sim, a state-of-the-art measure, provides an effective solution to PNP; however, it considers PNP and the effectiveness of the provided solution only in SimRank. In this paper, we consider PNP in SimRank variants, generalize the solution to those measures, conduct extensive experiments with two real-world datasets to accurately perform parameter tuning, and verify the effectiveness of applying the solution to SimRank variants with both un-weighted and weighted graphs.
Interaction between Fosamprenavir, with and without Ritonavir, and Nevirapine in Human Immunodeficiency Virus-Infected Subjects

ABSTRACT Fosamprenavir (FPV) with and without ritonavir (RTV) was added to the antiretroviral regimens of human immunodeficiency virus-infected subjects receiving nevirapine (NVP) to evaluate this drug interaction. Significant reductions in plasma amprenavir exposure (25 to 35%) were observed following coadministration of 1,400 mg of FPV twice a day (BID) and 200 mg of NVP BID. A regimen of 700 mg of FPV BID plus 100 mg of RTV BID may be coadministered with NVP without dose adjustment.
Vascular Biology of Reactive Oxygen Species and NADPH Oxidases: Role in Atherogenesis

Eukaryotic cells face constantly the formation of reactive oxygen species (ROS) as a result of their aerobic metabolism. ROS play an important role in the regulation of signal transduction pathways and gene expression but its over-production is acutely harmful to cells, particularly in cardiovascular diseases (CVD) by a mechanism that is not fully understood. Most CVD (the leading cause of mortality in developed countries) entail the focal development of atherosclerotic plaques in response to various deleterious insults that affect the artery wall’s cells (Simionescu, 2007). Atheroma may occlude partially or totally the arterial lumen and ultimately, rupture of the vulnerable plaques results in thrombus formation and obstruction of the vessels of vital organs like heart, brain, lung, and kidney. Atheroma formation is characterized by progressive lipid accumulation in the vessel’s intima, dysfunctions of endothelial cells (EC) and smooth muscle cells (SMC), and a strong inflammatory reaction with the participation of extravasated immune cells (Fearon & Faux, 2009). Compelling evidence (including ours) revealed that oxidative stress and NADPH oxidase derived ROS play the key role in all stages of atherosclerosis and that genetic ablation of various oxidase components protects the cells against the detrimental effects of oxidative stress (Simionescu et al., 2009). Therefore, understanding the molecular mechanisms of ROS formation and function is a prerequisite of an effective anti-oxidative stress therapy.
Chronic lymphocytic leukemia in china

Chronic lymphocytic leukemia (CLL) is a very common form of leukemia among middle‐aged and elderly persons in Western countries. In the Japanese, or in those with Japanese ancestry born and living in the USA, CLL is rather rare. It is also rare in China, but convincing data to support this statement are found primarily in the Chinese literature. We have reviewed previously unpublished data from Peking Union Medical College (PUMC) concerning the frequency of CLL among adult patients with the four common types of leukemia. Of 4,174 such patients (1952–1986), 4.6% had CLL; 22.9% chronic myeloid leukemia (CML); 50.3% acute myeloid leukemia (AML); and 22.3% acute lymphoblastic leukemia (ALL). This low frequency of CLL is none the less higher than that found in a multiinstitutional collection of Chinese patients with leukemia. Various clinical and laboratory aspects of a carefully studied, previously published group of patients with CLL from PUMC were compared to similar published findings in patients from the University of Utah. No differences in the overall nature of the disease were detected between these groups. However, not unexpectedly, the duration of symptoms before the diagnosis was made longer in Chinese than in USA patients and the proportion diagnosed at a time when no CLL related symptoms had been noted was less in Chinese. Neither differences in life span in the two populations nor an excess of CML, AML, and ALL at the expense of CLL were viable hypotheses to explain the rarity of CLL in China. We suggest that the dearth of CLL in Chinese is on a genetic basis, as it is thought to be in the Japanese.
Revisiting continuous deployment maturity: a two-year perspective

Background: Achieving a steady stream of small releases and employing practices such as continuous deployment requires maturity in company processes. Maturity models provide one approach for companies to pinpoint areas of improvement by providing a position and hints to reflect on. Incorporating maturity models with agile software development and continuous deployment has its challenges, though. Aims: The focus of the study is in understanding the evolution of software processes towards continuous deployment in an industry organization over time when a maturity model is used as a yardstick in evaluation. Method: An embedded case study by design, the study utilizes and replicates a survey on the state of software projects in a large Finnish software company, Solita. The survey was initially conducted in 2015 with responses from 35 projects and now replicated in 2017 with responses from 43 projects. Both quantitative and qualitative approaches for survey responses are used in the analysis. Results: Maturity of software processes in the case company show improvement in deployment and in monitoring, albeit short of statistical significance. Technological advances in the application of cloud computing have likely spurred development in these areas. Capability in processes related to test automation and quality has not changed much in two years. Conclusions: Maintaining maturity in software processes requires constant attention as impressions on process quality can gradually diminish. Projects which are built on a compatible technology stack have a greater chance in achieving continuous deployment and thus being more mature. Customer preferences also make a difference in the ability to reach certain maturity levels.
Comparison of glucose/electrolyte and maltodextrin/glycine/glycyl-glycine/electrolyte oral rehydration solutions in cholera and watery diarrhoea in adults.

One hundred and eight male adults (mean age 33 +/- 1.7 years) presenting with watery diarrhoea of less than 48 hours duration at home prior to hospitalization and with clinically evident (grade II, severe) dehydration were admitted into a randomized double-blind clinical trial; 54 were treated with standard oral rehydration solution (ORS)--WHO formulation containing citrate--and 54 with an improved ORS formulation which contained, in addition to the standard formula, maltodextrin 20 g (instead of glucose), glycine 4 g and glycyl-glycine 4 g. Patients with clinical cholera were given tetracycline 500 mg q.i. d. Vibrio cholerae was detected in 85 patients. The clinical characteristics of patients in the two groups were comparable. The improved ORS did not reduce the volume of diarrhoeic stools in cholera; indeed, patients with cholera who were treated with improved ORS had larger diarrhoea stool volumes. However, those cholera patients given improved ORS showed significantly greater weight gains during the first six-hour period, at the end of the second day, and at discharge. On the other hand, non-cholera patients treated with improved ORS had significantly smaller diarrhoeic stool volumes during the six to 24-hour significantly smaller diarrhoeic stool volumes during the six to 24-hour period (i.e. during the commencement of maintenance rehydration therapy).
Unusual X‐chromosome inactivation pattern in patients with Xp11.23‐p11.22 duplication: Report and review

In females carrying structural rearrangements of an X‐chromosome, cells with the best dosage balance are preferentially selected, frequently resulting in a skewed inactivation pattern and amelioration of the phenotype. The Xp11.23‐p11.22 region is involved in a recently described microduplication syndrome associated with severe clinical consequences in males and females, causing intellectual disability, behavior problems, epilepsy with electroencephalogram anomalies, minor facial anomalies, and early onset of puberty. Female carriers usually present an unusual X‐chromosome inactivation pattern in favor of the aberrant chromosome, resulting in functional disomy of the duplicated segment. Here, we describe a girl carrying a de novo ∼9.7 Mb Xp11.3‐p11.22 duplication of paternal origin and skewed X‐chromosome inactivation pattern of the normal X‐chromosome. We reviewed other cases previously reported and determined the minimal critical region possibly responsible for this unusual inactivation pattern. The critical region encompasses 36 RefSeq genes, including at least 10 oncogenes and/or genes related to the cell cycle control. We discuss the molecular mechanisms that underlie the positive selection of the cells with the active duplicated chromosome. © 2016 Wiley Periodicals, Inc.
A Study on the Loss in a Superconducting Magnet by the Control Current in a Hybrid Electro-Magnetic Suspension System

A proto-type hybrid electro-magnetic suspension system (hybrid EMS system) was developed by Yonsei university . It is the first step of study on fundamental technology for advanced railroad system development. The proto-type hybrid EMS system consists of a ferromagnetic-core, a superconducting magnet (Bi-2223) for generating magneto-motive force (MMF) and a control coil for levitation control. This system has the characteristic of a control coil generating a magnetic flux to keep the levitation gap in constant value when the gap is attempted to be varied by external physical factors. In doing so, the induced current by the magnetic flux generate loss to the superconducting magnet inducing the possibility of an unstable system. Therefore, we have experimented and documented the results of evaluating the loss in the superconducting magnet generated by the control coil. This paper can be expected to suggest useful data for the design and operation of a hybrid EMS system.
Excimer laser therapy (308 nm) for mycosis fungoides palmaris et plantaris: a skin‐directed and anatomically feasible treatment

human scleroderma. Furthermore, we have shown that RGZ dose-dependently inhibits CXCL10 secretion induced by IFN-c alone or with TNF-a in fibroblasts. These results are in agreement with a recent study showing that RGZ attenuates inflammation and dermal fibrosis in a mouse model of bleomycin-induced scleroderma. RGZ may act by decreasing CXCL10 promoter activity and inhibiting protein binding to the two nuclear factor (NF)-jB sites; by reducing CXCL10 levels dose dependently at nanomolar concentrations that did not affect messenger RNA levels or NF-jB activation; or by rapidly increasing phosphorylation of extracellular signal-regulated kinases (ERK1 ⁄2). The actual therapeutic role of RGZ in patients with SSc needs to be investigated in further prospective studies.
Role oftfdCIDIEIFIandtfdDIICIIEIIFIIGene Modules in Catabolism of 3-Chlorobenzoate by Ralstonia eutropha JMP134(pJP4)

ABSTRACT The enzymes chlorocatechol-1,2-dioxygenase, chloromuconate cycloisomerase, dienelactone hydrolase, and maleylacetate reductase allow Ralstonia eutropha JMP134(pJP4) to degrade chlorocatechols formed during growth in 2,4-dichlorophenoxyacetate or 3-chlorobenzoate (3-CB). There are two gene modules located in plasmid pJP4,tfdCIDIEIFI(module I) andtfdDIICIIEIIFII(module II), putatively encoding these enzymes. To assess the role of both tfd modules in the degradation of chloroaromatics, each module was cloned into the medium-copy-number plasmid vector pBBR1MCS-2 under the control of the tfdR regulatory gene. These constructs were introduced into R. eutropha JMP222 (a JMP134 derivative lacking pJP4) and Pseudomonas putidaKT2442, two strains able to transform 3-CB into chlorocatechols. Specific activities in cell extracts of chlorocatechol-1,2-dioxygenase (tfdC), chloromuconate cycloisomerase (tfdD), and dienelactone hydrolase (tfdE) were 2 to 50 times higher for microorganisms containing module I compared to those containing module II. In contrast, a significantly (50-fold) higher activity of maleylacetate reductase (tfdF) was observed in cell extracts of microorganisms containing module II compared to module I. The R. eutropha JMP222 derivative containingtfdR-tfdCIDIEIFIgrew four times faster in liquid cultures with 3-CB as a sole carbon and energy source than in cultures containingtfdR-tfdDIICIIEIIFII. In the case of P. putida KT2442, only the derivative containing module I was able to grow in liquid cultures of 3-CB. These results indicate that efficient degradation of 3-CB by R. eutropha JMP134(pJP4) requires the two tfd modules such that TfdCDE is likely supplied primarily by module I, while TfdF is likely supplied by module II.
Reactive microservices for the internet of things: a case study in fog computing

The Future Internet will be able to connect most of the objects that are not yet connected on the current Internet. The Internet of Things (IoT) is an important part of the Future Internet and involves connectivity between several physical and virtual objects, allowing the emergence of new services and applications. These intelligent objects, along with their tasks, constitute domain-specific applications (vertical markets), while ubiquitous and analytic services form independent domain services (horizontal markets). The development of these applications and services in these markets brings challenges such as deployment, scalability, integration, interoperability, mobility and performance. Recent research indicates that Microservices has been successfully applied by companies such as Netflix and SoundCloud to address some of these issues in their cloud computing applications. However, in the field of IoT, the use of Microservices to deal with these challenges still presents unresolved issues. In this paper, we present a reactive Microservices architecture and apply it in a Fog Computing case study to investigate these challenges at the edge of the network. Finally, we evaluate our proposal from the perspective of performance of Microservices provided by intelligent objects (IoT gateways) at the edge of the network.
Profiles of the daytime atmospheric turbulence above Big Bear solar observatory

Context. Space weather has become acutely critical for today’s global communication networks. To understand its driving forces we need to observe the Sun with high angular-resolution, and within large fields-of-view, i.e. with multi-conjugate adaptive optics correction. Aims. The design of a multi-conjugate adaptive optical system requires the knowledge of the altitude distribution of atmospheric turbulence. We have therefore measured daytime turbulence profiles above the New Solar Telescope (NST), on Big Bear Lake. Methods. To this purpose, a wide-field wavefront sensor was installed behind the NST. The variation of the wavefront distortions with angular direction allows the reconstruction of the distribution of turbulence. Results. The turbulence is found to have three origins: 1. a ground layer (<500 m) that contains 55–65% of the turbulence, 2. a boundary layer between 1–7 km comprises 30–40% of the turbulent energy, 3. and the remaining ∼5% are generated in the tropopause, which is above 12 km in summer and between 8 and 12 km in winter. Conclusions. A multi-conjugate adaptive optical system should thus aim at correcting the ground turbulence, the center of the boundary layer at roughly 3 km altitude and, eventually, the upper boundary layer around 6 km altitude.
Data Integration and Visualization for Knowledge Mapping in Strasbourg University

The work described in this paper is part of the IDEX (excellence initiative) project ``Complex Identities" launched by Strasbourg University in 2015. The main goal is to map available knowledge in Strasbourg university in order to provide a comprehensive and structured view of its different components. Our approach consists, first, in building an ontology able to represent available knowledge in the university, making it understandable by users. Then, we are interested in visualizing the ontology to help users explore easily the represented knowledge.
Reovirus infection and tissue injury in the mouse central nervous system are associated with apoptosis

Reovirus serotype 3 strains infect neurons within specific regions of the neonatal mouse brain and produce a lethal meningoencephalitis. Viral replication and pathology colocalize and have a predilection for the cortex, hippocampus, and thalamus. We have shown previously that infection of cultured fibroblasts and epithelial cells with reovirus type 3 Dearing (T3D) and other type 3 reovirus strains results in apoptotic cell death, suggesting that apoptosis is a mechanism of cell death in vivo. We now report that T3D induces apoptosis in infected mouse brain tissue. To determine whether reovirus induces apoptosis in neural tissues, newborn mice were inoculated intracerebrally with T3D, and at various times after inoculation, brain tissue was assayed for viral antigen by immunostaining and apoptosis was identified by DNA oligonucleosomal laddering and in situ terminal deoxynucleotidyl transferase-mediated dUTP nick end labeling. Cells were also stained with cresyl violet to detect morphological changes characteristic of apoptosis, including chromatin condensation and cell shrinkage. DNA laddering was detected in T3D- but not in mock-infected brain tissue. Apoptotic cells were restricted to the same regions of the brain in which infected cells and tissue damage were observed. These findings suggest that virus-induced apoptosis is a mechanism of cell death, tissue injury, and mortality in reovirus-infected mice. The correlation between apoptosis and pathogenesis in vivo identifies apoptosis as a potential target for molecular and pharmacological strategies designed to curtail or prevent diseases resulting from induction of this cell death pathway.
Integration of multiple signaling pathways shapes the auxin response

The phytohormone auxin is a pivotal signaling molecule that functions throughout the plant lifecycle. Proper regulation of the auxin response is critical for optimizing plant growth under ever-changing environmental conditions. Recent studies have demonstrated that the signaling components that modulate auxin sensitivity and responses are functionally and mechanically diverse. In addition to auxin itself, various environmental and hormonal signals are integrated to modulate the auxin response through directly controlling auxin signaling components. This review explores the non-canonical mechanisms that modulate auxin signaling components, including transcriptional, translational, and post-translational regulation. All of these contribute to the wide range in sensitivity and complexity in auxin responses to various signaling cues.