Miracle-dz/UniFAR-FTUs huggingface dataset:
Putative glycoprotein gene of varicella-zoster virus with variable copy numbers of a 42-base-pair repeat sequence has homology to herpes simplex virus glycoprotein C

A strain variation of varicella-zoster virus that maps to the UL region of the genome was found to be due to different copy numbers of a high GC 42-base-pair repeat. DNA sequence analysis of this variable region showed the sequence to be 5-GCGGGATCGGGCTTTCGGG(A/T)AGCGGCCGAGGTGGGCGCGACG-3. Strains Scott and Webster both contain 7 and 32/42 copies of the repeat, whereas strain Oka has exactly 4 copies less. Microheterogeneity exists within the repeated sequences, depending on the strain and the repeat number. Sequencing of the entire EcoRI P fragment (which contains the repeated sequences) and part of the adjacent EcoRI M and EcoRI Q fragments from strain Scott showed that the repeats are part of a large open reading frame that could code for a polypeptide core with a molecular weight of 66,000. Several potential TATA boxes exist upstream and two polyadenylation signals are found downstream of the open reading frame. The predicted protein bears several characteristics of a glycoprotein. The region is transcriptionally active in varicella-zoster virus-infected cells, specifying at least three RNA species of 1.7, 1.95, and 2.5 kilobases, which are transcribed from the same DNA strand. Part of the predicted protein has a high degree of homology to the herpes simplex virus type 1 glycoprotein gC.
Channelization problem in large scale data dissemination

In many large scale data dissemination systems, a large number of information flows must be delivered to a large number of information receivers. However, because of differences in interests among receivers, not all receivers are interested in all of the information flows. Multicasting provides the opportunity to deliver a subset of the information flows to a subset of the receivers. With a limited number of multicast groups available, the channelization problem is to find an optimal mapping of information flows to a fixed number of multicast groups, and a subscription mapping of receivers to multicast groups so as to minimize a function of the total bandwidth consumed and the amount of unwanted information received by receivers. We formally define two versions of the channelization problem and subscription problem (a subcomponent of the channelization problem). We analyze the complexity of each version of the channelization problem and show that they are both NP-complete. We also find that the subscription problem is NP-complete when one flow can be assigned to multiple multicast groups. We also study and compare different approximation algorithms to solve the channelization problem, finding that one particular heuristic, flow-based-merge, finds good solutions over a range of problem configurations.
Indexing and Compression in Data Warehouses

E cient query processing is critical in a data warehouse environment because the warehouse is very large, queries are often adhoc and complex, and decision support applications typically require interactive response times. Existing approaches often use indexes to speed up such queries. However, the addition of index structures can signi cantly increase storage costs. In this paper, we consider the application of compression techniques to data warehouses. In particular, we examine a recently proposed access structure for warehouses known as DataIndexes, and discuss the application of several wellknown compression methods to this approach. We also include a brief performance analysis, which indicates that the DataIndexing approach is well-suited to compression techniques in many cases. The copyright of this paper belongs to the paper's authors. Permission to copy without fee all or part of this material is granted provided that the copies are not made or distributed for direct commercial advantage. Proceedings of the International Workshop on Design and Management of Data Warehouses (DMDW'99), Heidelberg, Germany, 14. 15.6. 1999 (S. Gatziu, M. Jeusfeld, M. Staudt, Y. Vassiliou, eds.) http://sunsite.informatik. rwth-aachen.de/Publications/CEUR-WS/Vol-19/
oqxAB Encoding a Multidrug Efflux Pump in Human Clinical Isolates of Enterobacteriaceae

ABSTRACT The genes for multidrug efflux pump OqxAB, which is active on fluoroquinolones, were found in human clinical isolates on a plasmid in Escherichia coli and on the chromosome of Klebsiella pneumoniae. IS26-like sequences flanked the plasmid-mediated oqxAB genes, suggesting that they had been mobilized as part of a composite transposon.
An integrated fully-differential CMOS-MEMS z-axis accelerometer utilizing a torsional suspension

This paper presents an integrated fully-differential CMOS-MEMS z-axis accelerometer utilizing a torsional sensing element. The sidewall capacitors formed by multiple CMOS interconnect metal layers are exploited for fully differential displacement sensing with a common-centroid wiring configuration. A deep reactive ion etching (DRIE) based micro-fabrication process with large processing tolerance has been developed to allow robust sensor structures and high fabrication yield. With a monolithically integrated low-power, low-noise, dual-chopper amplifier which has a measured 44.5 dB gain and 1 mW power consumption, the fabricated integrated z-axis accelerometer demonstrates a sensitivity of 320 mV/g and an overall noise floor of 110 mug/radicHz.
High Seroprevalence of Mycoplasma pneumoniae IgM in Acute Q Fever by Enzyme-Linked Immunosorbent Assay (ELISA)

Q fever is serologically cross-reactive with other intracellular microorganisms. However, studies of the serological status of Mycoplasma pneumoniae and Chlamydophila pneumoniae during Q fever are rare. We conducted a retrospective serological study of M. pneumoniae and C. pneumoniae by enzyme-linked immunosorbent assay (ELISA), a method widely used in clinical practice, in 102 cases of acute Q fever, 39 cases of scrub typhus, and 14 cases of murine typhus. The seropositive (57.8%, 7.7%, and 0%, p<0.001) and seroconversion rates (50.6%, 8.8%, and 0%, p<0.001) of M. pneumoniae IgM, but not M. pneumoniae IgG and C. pneumoniae IgG/IgM, in acute Q fever were significantly higher than in scrub typhus and murine typhus. Another ELISA kit also revealed a high seropositivity (49.5%) and seroconversion rate (33.3%) of M. pneumoniae IgM in acute Q fever. The temporal and age distributions of patients with positive M. pneumoniae IgM were not typical of M. pneumoniae pneumonia. Comparing acute Q fever patients who were positive for M. pneumoniae IgM (59 cases) with those who were negative (43 cases), the demographic characteristics and underlying diseases were not different. In addition, the clinical manifestations associated with atypical pneumonia, including headache (71.2% vs. 81.4%, p=0.255), sore throat (8.5% vs. 16.3%, p=0.351), cough (35.6% vs. 23.3%, p=0.199), and chest x-ray suggesting pneumonia (19.3% vs. 9.5%, p=0.258), were unchanged between the two groups. Clinicians should be aware of the high seroprevalence of M. pneumoniae IgM in acute Q fever, particularly with ELISA kits, which can lead to misdiagnosis, overestimations of the prevalence of M. pneumoniae pneumonia, and underestimations of the true prevalence of Q fever pneumonia.
Warming accelerates decomposition of decades-old carbon in forest soils

Global climate carbon-cycle models predict acceleration of soil organic carbon losses to the atmosphere with warming, but the size of this feedback is poorly known. The temperature sensitivity of soil carbon decomposition is commonly determined by measuring changes in the rate of carbon dioxide (CO2) production under controlled laboratory conditions. We added measurements of carbon isotopes in respired CO2 to constrain the age of carbon substrates contributing to the temperature response of decomposition for surface soils from two temperate forest sites with very different overall rates of carbon cycling. Roughly one-third of the carbon respired at any temperature was fixed from the atmosphere more than 10 y ago, and the mean age of respired carbon reflected a mixture of substrates of varying ages. Consistent with global ecosystem model predictions, the temperature sensitivity of the carbon fixed more than a decade ago was the same as the temperature sensitivity for carbon fixed less than 10 y ago. However, we also observed an overall increase in the mean age of carbon respired at higher temperatures, even correcting for potential substrate limitation effects. The combination of several age constraints from carbon isotopes showed that warming had a similar effect on respiration of decades-old and younger (<10 y) carbon but a greater effect on decomposition of substrates of intermediate (between 7 and 13 y) age. Our results highlight the vulnerability of soil carbon to warming that is years-to-decades old, which makes up a large fraction of total soil carbon in forest soils globally.
The Majority of Accredited Continuing Professional Development Activities Do Not Target Clinical Behavior Change

Purpose Continually improving patient outcomes requires that physicians start new behaviors, stop old behaviors, or adjust how they practice medicine. Continuing professional development (CPD) is the method most commonly used by physicians to improve their knowledge and skills. However, despite regular physician attendance at these activities, change in clinical behavior is rarely observed. The authors sought to identify which of Bloom’s domains (cognitive, affective, or psychomotor) are targeted by the learning objectives of CPD activities offered by medical associations, regulatory bodies, and academic institutions in the province of Quebec, Canada. Method The authors evaluated the objectives of 110 accredited CPD activities offered to physicians and other health professionals from November 2012 to March 2013. The objectives of each activity were extracted and classified into learning domains using Bloom’s taxonomy. Results Ninety-six percent of the learning objectives analyzed targeted the cognitive domain, which consists of six levels of increasing complexity: knowledge, comprehension, application, analysis, synthesis, and evaluation. Half (47%) targeted knowledge and comprehension, whereas only 26% aimed to improve skills in analysis, synthesis, and evaluation. Conclusions Most accredited CPD activities within this sample were generally not designed to promote clinical behavior change because the focus of these activities was on remembering and understanding information instead of preparing physicians to put knowledge into practice by analyzing information, evaluating new evidence, and planning operations that lead to behavior change. Educators and CPD providers should take advantage of well-established theories of health professional behavior change, such as sociocognitive theories, to develop their activities.
Linear Subspace Reduction for Quasistatic Field Simulations to Accelerate Repeated Computations

The design of electrical machines and high-voltage devices requires the simulation of non-linear low frequency electromagnetic problems in time domain. Typically magneto- and electro-quasistatic problems in magnetic vector/electric scalar potential formulation lead after space discretization to differential-algebraic or ordinary differential equations, respectively. Therefore, huge systems of equations have to be solved in both cases. Typically a large number of degrees of freedom (DoF) is in domains with constant material parameters, i.e., linear subdomains, e.g., air or vacuum in exterior domains. In this paper, we present a method for low frequency simulations based on the proper orthogonal decomposition to reduce the DoF in these linear subspaces. The application of the method will be shown for a simple transformer model and within a global sensitivity analysis (uncertainty quantification) of the switching point in a non-linear resistive material used in a 11 kV standard insulator model.
Developmental changes in proteins and glycoproteins revealed by direct radio-iodination of viable Taenia saginata larvae

Summary Direct surface I radio-isotope labelling techniques and SDS—PAGE analysis were used to compare the proteins and lentil—lectin adherent glycoproteins of the bovine stage of viable Taenia saginata larvae at three points in their development, the invasive oncospheres, immature (4-week-old) and mature (12 to 16-week-old) cysticerci. Some proteins and glycoproteins were present on all three of the ages of the parasite examined but there were also distinct age-specific proteins and glycoproteins detected on oncospheres and 4-week-old cysticerci and a marked difference between the protein/glycoprotein profiles of the parasite was apparent at these earlier stages of development and the mature cysticerci. The latter were characterized by the presence of high, 160–200 kDa molecular weight, lysine rich, glycoproteins, whereas small 16 and 18 kDa glycoproteins and a reduction-sensitive 23 kDa glycoprotein were first detected on 4-week-old immature cysticerci. Antigenic characterization of the isotope-labelled proteins and glycoproteins by immunoprecipitation against a panel of clinically defined bovine sera combined with SDS–PAGE analysis indicated that relatively few proteins were precipitated by sera from T. saginata-infected cattle as compared to the glycoproteins. However, both protein and glycoprotein antigens of possible protective and/or diagnostic significance were identified from oncospheres and cysticerci.
A novel potent synthetic steroidal liver X receptor agonist lowers plasma cholesterol and triglycerides and reduces atherosclerosis in LDLR–/– mice

BACKGROUND AND PURPOSE Potent synthetic nonsteroidal liver X receptor (LXR) agonists like T0901317 induce triglyceridaemia and fatty liver, effects not observed with some natural and synthetic steroidal, relatively weak agonists of LXR. To determine if potency is responsible for the lack of side effects with some steroidal agonists, we investigated the in vivo effects of a novel steroidal LXR agonist, ATI‐111, that is more potent than T0901317.
The affinity of signal recognition particle for presecretory proteins is dependent on nascent chain length.

We have developed an assay in which incomplete preprolactin chains of varying lengths are targeted to the endoplasmic reticulum (ER) membrane in an elongation independent manner. The reaction had the same molecular requirements as nascent chain translocation across the ER membrane, namely, it was signal recognition particle (SRP) dependent, and required the nascent chain to be present as peptidyl tRNA (i.e. most likely ribosome associated) and to have its signal sequence exposed outside the ribosome. We found that the efficiency of the targeting reaction dropped dramatically as the chains grew longer than 140 amino acids in length, which probably reflected a decrease in affinity of the nascent chain‐ribosome complex for SRP. Thus at physiological SRP concentrations (10 nM) there appears a sharp cut‐off point in the ability of these chains to be targeted, while at high SRP concentrations (270 nM) all chains could be targeted. In kinetic experiments, high concentrations of SRP were found to change the time in elongation after which translocation of the nascent polypeptide could no longer occur.
North American megadroughts in the Common Era: reconstructions and simulations

During the Medieval Climate Anomaly (MCA), Western North America experienced episodes of intense aridity that persisted for multiple decades or longer. These megadroughts are well documented in many proxy records, but the causal mechanisms are poorly understood. General circulation models (GCMs) simulate megadroughts, but do not reproduce the temporal clustering of events during the MCA, suggesting they are not caused by the time history of volcanic or solar forcing. Instead, GCMs generate megadroughts through (1) internal atmospheric variability, (2) sea‐surface temperatures, and (3) land surface and dust aerosol feedbacks. While no hypothesis has been definitively rejected, and no GCM has accurately reproduced all features (e.g., timing, duration, and extent) of any specific megadrought, their persistence suggests a role for processes that impart memory to the climate system (land surface and ocean dynamics). Over the 21st century, GCMs project an increase in the risk of megadrought occurrence through greenhouse gas forced reductions in precipitation and increases in evaporative demand. This drying is robust across models and multiple drought indicators, but major uncertainties still need to be resolved. These include the potential moderation of vegetation evaporative losses at higher atmospheric [CO2], variations in land surface model complexity, and decadal to multidecadal modes of natural climate variability that could delay or advance onset of aridification over the the next several decades. Because future droughts will arise from both natural variability and greenhouse gas forced trends in hydroclimate, improving our understanding of the natural drivers of persistent multidecadal megadroughts should be a major research priority. WIREs Clim Change 2016, 7:411–432. doi: 10.1002/wcc.394
An intertropical opossum (Mammalia, Marsupialia, Didelphidae) from the late Middle–Late Pleistocene of austral South America

Abstract The record of an opossum is reported here coming from a Middle–Late Pleistocene fluvial sedimentary sequence outcropping in the austral Chaco geomorphological region, Santa Fe province. Despite this family has different living forms widely distributed in South American plains, with great tolerance to diverse habitats conditions, the Pleistocene occurrence of didelphoids is very scarce and only limited to Holocene deposits sensu lato from austral pampean plains. The specimen found represents at the moment the only Pleistocene didelphoid opossum from Argentina with an accurate stratigraphical context. In a taphonomic framework, MFA-Pv 1582 shows no evidence of abrasion produced by transport, probably resulting of a very short time-transport. This intertropical form of Didelphis genus from Pleistocene sequences displays undoubtedly novel and sustancial paleoenvironmental and ecomorphological conditions to test in the austral Chaco region. Although the specimen shares a generalized didelphoid form, some morphologies in the humerus are closer with arboreal habits. In this context, added to the sedimentological and stratigraphical framework, it’s possible to suggest that subtropical conditions with some woodlands and wetlands dominate the provenance region of the fossil material, over a late Middle–Late Pleistocene interglacial period.
Muon radiography and deformation analysis of the lava dome formed by the 1944 eruption of Usu, Hokkaido —Contact between high-energy physics and volcano physics—

Lava domes are one of the conspicuous topographic features on volcanoes. The subsurface structure of the lava dome is important to discuss its formation mechanism. In the 1944 eruption of Volcano Usu, Hokkaido, a new lava dome was formed at its eastern foot. After the completion of the lava dome, various geophysical methods were applied to the dome to study its subsurface structure, but resulted in a rather ambiguous conclusion. Recently, from the results of the levelings, which were repeated during the eruption, “pseudo growth curves” of the lava dome were obtained. The curves suggest that the lava dome has a bulbous shape. In the present work, muon radiography, which previously proved effective in imaging the internal structure of Volcano Asama, has been applied to the Usu lava dome. The muon radiography measures the distribution of the “density length” of volcanic bodies when detectors are arranged properly. The result obtained is consistent with the model deduced from the pseudo growth curves. The measurement appears to afford useful method to clarify the subsurface structure of volcanoes and its temporal changes, and in its turn to discuss volcanic processes. This is a point of contact between high-energy physics and volcano physics.
TOR links starvation responses to telomere length maintenance

Telomeres are nucleoprotein structures that protect the ends of eukaryotic chromosomes and play important roles in ensuring the genome’s integrity. Telomere length is maintained by complex mechanisms that ensure length homeostasis. Recent work has linked telomere length maintenance to the Tor protein kinases, which are central regulators of cellular growth. Here we summarize these results, which suggest a link between nutrient availability, telomere length maintenance and chronological lifespan.
Phenolic Antioxidants as Drugs for Alzheimer's Disease: Oxidative Stress and Selectivity

Two of the pathological features of Alzheimer’s disease are senile plaques (or neuritic plaques) and neuro fibrillary tangles, including amyloid-βpeptides [1]. Suggested mechanisms for formation of these proteins include oxidation by reactive oxygen species (ROS) and reactive nitrogen species (RNS), advanced glycation end products (AGE) formation via oxidation and metal compound involvement, where AOs may have a significant impact. A recent review addressed AGE based on oxidative events [2] in which quinones comprise an important class of electron transfer (ET) agents that generate ROS and OS. The ET agents are often formed by oxidation of phenolic compounds that make up part of drugs and physiologically active species. The phenolic are the focus of this commentary.
Automatic identification of semantic relations in Italian complex nominals

This paper addresses the problem of the identification of the semantic relations in Italian complex nominals (CNs) of the type N+P+N. We exploit the fact that the semantic relation, which is underspecified in most cases, is partially made explicit by the preposition. We develop an annotation framework around five different semantic relations, which we use to create a corpus of 1700 Italian CNs, obtaining an inter-annotator agreement of K=. 695. Exploiting this data, for each preposition p we train a classifier to assign one of the five semantic relations to any CN of the type N+p+N, by using both string and supersense features. To obtain supersenses, we experiment with a sequential tagger as well as a plain lookup in MultiWordNet, and find that using information obtained from the former yields better results.
Adipocytes properties and crosstalk with immune system in obesity‐related inflammation

Obesity is a condition likely associated with several dysmetabolic conditions or worsening of cardiovascular and other chronic disturbances. A key role in this mechanism seem to be played by the onset of low‐grade systemic inflammation, highlighting the importance of the interplay between adipocytes and immune system cells. Adipocytes express a complex and highly adaptive biological profile being capable to selectively activate different metabolic pathways in order to respond to environmental stimuli. It has been demonstrated how adipocytes, under appropriate stimulation, can easily differentiate and de‐differentiate thereby converting themselves into different phenotypes according to metabolic necessities. Although underlying mechanisms are not fully understood, growing in adipocyte size and the inability of storing triglycerides under overfeeding conditions seem to be crucial for the switching to a dysfunctional metabolic profile, which is characterized by inflammatory and apoptotic pathways activation, and by the shifting to pro‐inflammatory adipokines secretion. In obesity, changes in adipokines secretion along with adipocyte deregulation and fatty acids release into circulation contribute to maintain immune cells activation as well as their infiltration into regulatory organs. Over the well‐established role of macrophages, recent findings suggest the involvement of new classes of immune cells such as T regulatory lymphocytes and neutrophils in the development inflammation and multi systemic worsening. Deeply understanding the pathways of adipocyte regulation and the de‐differentiation process could be extremely useful for developing novel strategies aimed at curbing obesity‐related inflammation and related metabolic disorders.