gebhart/patrepeval huggingface dataset:
Comparison of transcription of the Haemophilus influenzae iron/heme modulon genes in vitro and in vivo in the chinchilla middle ear (2013)

Haemophilus influenzae is a significant cause of childhood otitis media, and also has an absolute growth requirement for heme. Recent microarray studies using three H. influenzae isolates were used to propose a putative core of genes responsive to iron and heme levels. Included in the core modulon were thirty seven genes that are preferentially expressed under iron/heme limitation, most of which are directly involved with iron and or heme acquisition. In this report, the core iron/heme modulon was further refined following microarray analysis of two additional nontypeable H. influenzae isolates from patients with otitis media. The transcriptional status of the genes comprising the refined iron/heme core modulon was then assessed in vivo, in a chinchilla model of otitis media. These in vivo experiments were performed to address the hypothesis that iron and heme regulated genes are both highly expressed in vivo and important, during clinical infection. Microarray analysis of two additional H. influenzae strains resulted in the definition of a core of iron/heme responsive genes. This core consisted of 35 genes maximally expressed under heme restriction and a further 20 genes maximally expressed in heme replete conditions. In vivo studies were performed with two nontypeable H. influenzae strains, 86-028NP and HI1722. The majority of operons identified as members of the core modulon by microarray were also actively upregulated in the chinchilla ear during otitis media. In 86-028NP, 70% of the operons were significantly upregulated while in HI1722 100% of the operons were upregulated in samples recovered from the chinchilla middle ear. This study elucidates a conserved core of H. influenzae genes the transcription of which is altered by the availability of iron and heme in the growth environment, and further assesses transcription of these genes in vivo. Elucidation of this modulon allows for identification of genes with unrecognized roles in iron/heme acquisition or homeostasis and/or potential roles in virulence. Defining these core genes is also of potential importance in identifying targets for therapeutic and vaccine designs since products of these genes are likely to be preferentially expressed during growth in iron/heme restricted sites of the human body.
Overlap of reflux and eosinophilic esophagitis in two patients requiring different therapies: A review of the literature (2008)

Eosinophilic esophagitis (EE) and gastroesophageal reflux disease (GERD) have overlapping clinical, manometric, endoscopic and histopathologic features. The diagnosis of EE is nowadays based upon the presence of 15 or more eosinophils per high power field (eo/HPF) in esophageal biopsies. We report the cases of two young males suffering from dysphagia and recurrent food impaction with reflux esophagitis and more than 20 eo/HPF in upper-mid esophagus biopsies, both of which became asymptomatic on proton pump inhibitor (PPI) therapy. The first patient also achieved a histologic response, while EE remained in the other patient after effective PPI treatment, as shown by 24-h esophageal pH monitoring. Topical steroid therapy combined with PPI led to complete remission in this latter patient. GERD and EE may be undistinguishable, even by histology, so diagnosis of EE should only be established after a careful correlation of clinical, endoscopic and pathologic data obtained under vigorous acid suppression. These diagnostic difficulties are maximal when both diseases overlap. Limited data are available about this topic, and the interaction between EE and GERD is a matter of debate. In this setting, upper-mid esophagus step biopsies and esophageal pH monitoring of patients on PPI therapy are pivotal to evaluate the role of each disease. A PPI trial is mandatory in patients with a histopathologic diagnosis of EE; in those unresponsive to PPI treatment, EE should be suggested. However, a clinical response to PPI may not rule out quiescent EE, as shown in this report.
ChemInform Abstract: V‐TRIAZOLO(4,5‐D)PYRIMIDINES (8‐AZAPURINES). PART 21. SYNTHESIS OF 2‐SUBSTITUTED 8‐AZAPURIN‐6‐ONES FROM 4‐AMINO‐1,2,3‐TRIAZOLE‐5‐CARBOXAMIDES AND AMIDINES (1979)

Abstract Die 4‐Amino‐5‐carboxamid‐triazole (I) reagieren mit den Amidinacetaten (II) zu den 8‐Azapurinonen (H1).
The Collapse of the Indus-Script Thesis: The Myth of a Literate Harappan Civilization (2016)

Archaeologists have long claimed the Indus Valley as one of the four literate centers of the early ancient world, complete with long texts written on perishable materials. We demonstrate the impossibility of the lost-manuscript thesis and show that Indus symbols were not even evolving in linguistic directions after at least 600 years of use. Suggestions as to how Indus symbols were used are noted in nonlinguistic symbol systems in the Near East that served key religious, political and social functions without encoding speech or serving as formal memory aids. Evidence is reviewed that the Harappans' lack of a true script may have been tied to the role played by their symbols in controlling large multilinguistic populations; parallels are drawn to the later resistance of Brahmin elites to the literate encoding of Vedic sources and to similar phenomena in esoteric traditions outside South Asia. Discussion is provided on some of the political and academic forces that helped sustain the Indus-script myth for over 130 years and on ways in which our findings transform current views of the Indus Valley and of literacy in the ancient world in general.
Aromatic Poly(ether imide oxadiazole)s (1992)

Two oxadiazole containing aromatic diamines were synthesized. The diamines were prepared by reaction of aminophenols with 2,5-bis(4-fluorophenyl)-4l3,4-oxadiazole in a polar aprotic solvent in the presence of potassium carbonate. Reaction of the resulting 2,5-bis(4-(aminophenoxy)phenyl)-1,3,4-oxadiazoles with dianhydrides gave a series of polymeric amic acids. Thermal treatment yielded poly(imide ether oxadazole) films which displayed good thermal stability, flexibility, and glass transition temperatures ranging from 241 to 344C. The dielectric constants of the films were characterized as a function of relative humidity.
New Wide-Aperture Cata-Dioptric Systems (1947)

The inherent limitations of the Maksutov lens are examined, both as regards the higher orders of spherical aberration (and hence maximum relative aperture) and residual oblique aberrations. Two-meniscus spherical surfaced systems are described giving a good axial correction up to f /0.7 with almost complete correction of all orders of oblique aberration, other than field curvature, for a 30° field. Very large glass masses may be avoided by “paraxial division” of the menisci, and considerable departure from symmetry leads to forms in which the small residual higher order spherical aberration terms may be balanced. The degree of correction attainable, and the influence of the probable glass inhomogeneity are discussed.
Techniques for Efficient Resource Management for Context-Sensitive Mobile Applications (2008)

Context-sensitive mobile applications require a certain amount of flexibility due to the fact that they have to provide services for many different situations. The limited resources available make resource management a major challenge in such applications. In this paper, we present different techniques for the efficient use of resources of mobile devices. These techniques support the development of adaptable and flexible context-sensitive applications.
Summary of Major Changes in the <i>1994 Red Book: Report of the Committee on Infectious Diseases</i> (1994)

The 1994 edition of the Red Book was recently published by the American Academy of Pediatrics (AAP), providing the most recent recommendations and guidelines for prevention, control, and treatment of infectious diseases in infants and children.1 These recommendations and guidelines are based on information available through 1993 and replace those given in the 1991 Red Book. To aid physicians and other health care professionals in assimilating new recommendations and information into their practices, a summary of major changes is given in the Red Book. This summary, with minor changes, is reprinted here. Subsequent recommendations of the AAP are published as Committee statements in AAP News and Pediatrics. In keeping with the current 3-year intervals between editions of the Red Book, the next edition is anticipated no later than 1997. Major changes in recommendations and related information in the 1994 Red Book are summarized as follows: 1. Immunization recommendations. The schedules for routine immunization, including changes in recommendations for Haemophilus influenzae type b, hepatitis B, measles, and oral polio vaccines have been revised. In view of the increasing complexity of the immunization recommendations for infants and children, particular attention should be given to the comments and footnotes in these schedules. In addition, because licensure of new vaccines and revised recommendations after publication of the Red Book will result in continuing changes, the Committee anticipates the publication of an updated immunization schedule each year in the interval before the next edition of the Red Book is published. 2. Guidelines on active immunization.
Beauty and the Beast: Diverting Modern Web Browsers to Build Unique Browser Fingerprints (2016)

Worldwide, the number of people and the time spent browsing the web keeps increasing. Accordingly, the technologies to enrich the user experience are evolving at an amazing pace. Many of these evolutions provide for a more interactive web (e.g., boom of JavaScript libraries, weekly innovations in HTML5), a more available web (e.g., explosion of mobile devices), a more secure web (e.g., Flash is disappearing, NPAPI plugins are being deprecated), and a more private web (e.g., increased legislation against cookies, huge success of extensions such as Ghostery and AdBlock). Nevertheless, modern browser technologies, which provide the beauty and power of the web, also provide a darker side, a rich ecosystem of exploitable data that can be used to build unique browser fingerprints. Our work explores the validity of browser fingerprinting in today's environment. Over the past year, we have collected 118,934 fingerprints composed of 17 attributes gathered thanks to the most recent web technologies. We show that innovations in HTML5 provide access to highly discriminating attributes, notably with the use of the Canvas API which relies on multiple layers of the user's system. In addition, we show that browser fingerprinting is as effective on mobile devices as it is on desktops and laptops, albeit for radically different reasons due to their more constrained hardware and software environments. We also evaluate how browser fingerprinting could stop being a threat to user privacy if some technological evolutions continue (e.g., disappearance of plugins) or are embraced by browser vendors (e.g., standard HTTP headers).
Thickness-limited performance of CuInSe_2 nanocrystal photovoltaic devices (2010)

This paper reports our latest results using colloidal CuInSe₂ nanocrystal inks to prepare photovoltaic (PV) devices. Thus far, devices with nanocrystal layers processed under ambient conditions with no post-deposition treatment have achieved power conversion efficiencies of up to 3.1%. Device efficiency is largely limited by charge carrier trapping in the nanocrystal layer, and the highest device efficiencies are obtained with very thin layers-less than 150 nm-absorbing only a fraction of the incident light. Devices with thicker nanocrystal layers had lower power conversion efficiency, despite the increased photon absorption, because the internal quantum efficiency of the devices decreased significantly. The thin, most efficient devices exhibited internal quantum efficiencies as high as 40%, across a wide spectrum. Mott-Schottky measurements revealed that the active region thickness in the devices is approximately 50 nm.
The use of magnesium in bronchial asthma: a new approach to an old problem (2007)

Magnesium deficiency is a common electrolyte disorder in patients with acute severe asthma, but intracellular magnesium content better reflects its homeostasis than does its serum concentration. Magnesium takes part in many metabolic processes in the organism, including energy metabolism, protein and nucleic acid synthesis, cell cycle, the binding of substances to the plasma membrane, and maintenance of cytoskeletal and mitochondrial integrity. It also modulates ion transport and influences intracellular calcium concentration. Maintenance of the cells' transmembrane gradient depends on the presence of magnesium, and hypomagnesemia may result in an increase in neuromuscular cell excitability. Magnesium is a cation modulating the smooth muscle contractility of different tissues: hypomagnesemia causes their contraction and hypermagnesemia their relaxation. Suggestions of a positive influence of magnesium in the treatment of asthma exacerbation have been known for a long time, but research results differ. A single dose of intravenous magnesium sulfate given to patients with acute asthma exacerbation has been shown to be safe, but its efficiency is still under discussion. According to the Global Initiative for Asthma GINA-2005, magnesium sulfate administration is not recommended for routine treatment, but it is permitted in patients with severe asthma exacerbation not responding to treatment (evidence category A). Recommendations of the British Thoracic Society allow one dose of magnesium sulfate to patients with acute severe asthma exacerbation and inadequate initial response to broncho-dilating inhalation treatment (evidence category A). Future investigations should help to establish the indications for magnesium use in the treatment of acute asthma exacerbations as well as the magnesium dose and the scheme of its administration.
<title>Advancements in NDE for utilities and the petrochemical industry through electromagnetic acoustic transducers (EMATs)</title> (1998)

The ultrasonic testing (UT) method continues to broaden in its effectiveness and capabilities for nondestructive evaluation (NDE). Much of this expansion can be attributed to advancements in specific techniques of the method. The utilization of electromagnetic acoustic transducers (EMATs) in dedicated ultrasonic systems has provided McDermott Technology, Inc. (MTI), formerly Babcock & Wilcox, with significant advantages over conventional ultrasonics. In recent years, through significant R&D, MTI has been instrumental in bringing about considerable advancements in the maturing EMAT technology. Progress in electronic design, magnet configurations, and sensor concepts has greatly improved system capabilities while reducing cost and equipment size. These improvements, coupled with the inherent advantages of utilizing the non-contact EMAT technique, have combined to make this technology a viable option for many commercial system inspection applications. MTI has recently completed the development and commercialization of an EMAT-based UT scanner for boiler tube thickness measurements. MTI is currently developing an automated EMAT scanner, based on phased array technology, for complete volumetric inspection of circumferential girth welds associated with pipelines (intended primarily for offshore applications). Additional benefits of phased array technology for providing materials characterization are currently being researched.
Fixing deadlocks via lock pre-acquisitions (2016)

Manual deadlock fixing is error-prone and time-consuming. Existing generic approach (GA) simply inserts gate locks to fix deadlocks by serializing executions, which could introduce various new deadlocks and incur high runtime overhead. We propose a novel approach DFixer to fix deadlocks without introducing any new deadlocks by design. DFixer only selects one thread of a deadlock to pre-acquire a lock w together with another lock h, where before fixing, the deadlock occurs when the thread holds lock h and waits for lock w. As such, DFixer eliminates a hold-and-wait necessary condition, preventing the deadlock from occurring. The thread performing pre-acquisition is carefully selected such that no other synchronization exists in between the two original acquisitions. Otherwise, DFixer further introduces a context-aware conditional protected by above lock w to guarantee the correctness of DFixer. The evaluation is on 20 deadlocks, including 17 from widely-used real-world C/C++ programs. It shows that DFixer successfully fixed all deadlocks. Whereas GA introduced 9 new deadlocks; a latest work Grail failed to fix 8 deadlocks and introduced 3 new deadlocks on others. On average, DFixer incurred only 2.1% overhead, where GA and Grail incurred 15.8% and 11.5% overhead, respectively.
Generation of Java programs properties from test purposes (2013)

Software formal verification is a technique used to ensure that computational systems have high-quality and work properly. From the system specification described in a formal language, we define properties that must be satisfied during system execution to guarantee the software quality. Then, these properties should be implemented in a verifier, tool responsible for running the verification and for notifying which properties were satisfied or not. When the verification process finishes, the verifier will indicate to software developers the possible location of each code fault in the system. The disadvantages of using formal verification are the high cost to apply this technique in real systems, and the necessity of having people with experience in formal languages and formal methods. In addition, the implementation of properties related to a particular system in a verifier is a complex task.
A comparative look at recommended nutrient intakes (1976)

Recommended nutrient intakes are difficult values to produce; good human data are scarce, and even nonexistent for some age groups; requirements vary between individuals and in response to the common illnesses and demands of life. Committees that draw them up first have to balance the interpretations of their different experts and then decide whether to estimate the average physiological minimum requirements, plus a margin to allow for most of the upper range among individuals, or to aim for the more intangible ideal of optimal intakes.
A high-performance analog front-end for an intraoral tongue-operated assistive technology (2011)

Tongue Drive System (TDS) is a tongue-operated, wireless assistive technology that infers its users' intentions by detecting their voluntary tongue motions, and translating them into user-defined commands. In this paper, we present the design of a low-power analog front-end (AFE) with configurable characteristics that tracks the tongue motion by reading four intra-oral 3-D magnetic sensors to indicate the position of a small magnet attached to the tongue. Duty cycling is employed as a key feature in this system to reduce power consumption in the sensors and in the low-noise interfacing circuits, allowing for energy savings as much as 92%, which greatly extends the battery life. The AFE has been implemented in a 0.5-μm CMOS process and consumes 7.1 μA per sensor readout from a 1.8/4.2 V supply at a minimum duty cycle of 2%. Post-layout simulations show that the readout channels typically feature a noise density of 57 nV/VHz and a CMRR above 120 dB within the frequency band of interest (DC-2.5 kHz). Moreover, it presents a typical THD of 0.025%, a maximum input-referred offset of 5 μV, and a gain that is independent of temperature and process variations.
The <i>sen1<sup>+</sup></i> Gene of <i>Schizosaccharomyces</i> <i>pombe</i>, a Homologue of Budding Yeast <i>SEN1,</i> Encodes an RNA and DNA Helicase (1999)

Two polynucleotide-dependent ATPases, 95 and 181 kDa in size, have been purified to near homogeneity from cell-free extracts of Schizosaccharomyces pombe. Despite their size differences, their biochemical properties were strikingly similar. Both enzymes were capable of unwinding RNA and DNA duplexes in keeping with their ability to hydrolyze ATP in the presence of either ribo- or deoxyribopolynucleotide. In addition, they were capable of unwinding DNA/RNA or RNA/DNA hybrid duplexes and translocated in the 5' to 3' direction. These results strongly indicate that they are closely related to each other. Determination of the partial amino acid sequence of the 95-kDa enzyme revealed that it is encoded by the sen1(+)() gene, an S. pombe homologue of yeast SEN1, a protein essential for the processing of small nucleolar RNA, transfer RNA, and ribosomal RNA. The molecular weight of the S. pombe Sen1 protein (SpSen1p) predicted from the sen1(+)() open reading frame was 192.5 kDa, suggesting that the 181-kDa enzyme is likely to be a full-length protein, whereas the 95-kDa polypeptide has arisen by proteolysis. In accord with this possibility, polyclonal antibodies specific to the C-terminal region of sen1(+)() cross-reacted with both 95- and 181-kDa polypeptides. We discuss the biochemical activities associated with SpSen1p and their relevance to the apparently divergent functions ascribed to the yeast Sen1 protein in RNA metabolism.
A single amino acid substitution in the cyclin D binding domain of the infected cell protein no. 0 abrogates the neuroinvasiveness of herpes simplex virus without affecting its ability to replicate (1999)

The infected cell protein no. 0 (ICP0) of herpes simplex virus 1 is a promiscuous transactivator shown to enhance the expression of genes introduced into cells by infection or transfection. The protein interacts with several viral and cellular proteins. Earlier studies have shown that ICP0 binds and stabilizes cyclin D3 but does interfere with the phosphorylation of retinoblastoma protein, its major function. Cyclin D3 plays a key role in the transition from G1 to S phase. To define the role of cyclin D3 in productive infection, the ICP0 binding site for cyclin D3 was mapped and mutagenized by substitution of aspartic acid codon 199 with the alanine codon. We report that the substitution precluded the interaction of this protein with cyclin D3 in the yeast two-hybrid system and the stabilization of cyclin D3 in infected cells. A recombinant virus carrying this mutation could not be differentiated from wild-type parent with respect to replication in dividing cells but yielded 10-fold less progeny from infected resting cells and serum-deprived or contact-inhibited human fibroblasts. In mice, the mutant was only slightly less pathogenic than the wild-type parent by intracerebral route but was significantly less neuroinvasive after peripheral inoculation. Replacement of the mutated amino acid with aspartic acid restored wild-type phenotype. Stabilization of cyclin D3 therefore is linked to higher virus yields in nondividing cells and potentially higher virulence in experimental and natural hosts. One function of ICP0 is to scavenge the cell for proteins that could bolster viral replication.