Miracle-dz/UniFAR-FTUs huggingface dataset:
Approximate clustering without the approximation

Approximation algorithms for clustering points in metric spaces is a flourishing area of research, with much research effort spent on getting a better understanding of the approximation guarantees possible for many objective functions such as k-median, k-means, and min-sum clustering. This quest for better approximation algorithms is further fueled by the implicit hope that these better approximations also yield more accurate clusterings. E.g., for many problems such as clustering proteins by function, or clustering images by subject, there is some unknown correct "target" clustering and the implicit hope is that approximately optimizing these objective functions will in fact produce a clustering that is close pointwise to the truth. In this paper, we show that if we make this implicit assumption explicit---that is, if we assume that any c-approximation to the given clustering objective φ is e-close to the target---then we can produce clusterings that are O(e)-close to the target, even for values c for which obtaining a c-approximation is NP-hard. In particular, for k-median and k-means objectives, we show that we can achieve this guarantee for any constant c > 1, and for the min-sum objective we can do this for any constant c > 2. Our results also highlight a surprising conceptual difference between assuming that the optimal solution to, say, the k-median objective is e-close to the target, and assuming that any approximately optimal solution is e-close to the target, even for approximation factor say c = 1.01. In the former case, the problem of finding a solution that is O(e)-close to the target remains computationally hard, and yet for the latter we have an efficient algorithm.
Efficacy of myo-inositol in the treatment of cutaneous disorders in young women with polycystic ovary syndrome

Background. Polycystic ovary syndrome (PCOS) is the most common endocrine cause of hirsutism, acne and pattern alopecia, often characterised by ovulation disorders (usually manifested as oligo- or amenorrhea). In addition, 30–40% of women with PCOS have impaired glucose tolerance, and a defect in the insulin signalling pathway seems to be implicated in the pathogenesis of insulin resistance. For this reason, insulin-lowering medications represent novel approach in women with PCOS. The aim of this study was to evaluate the effects of myo-inositol (MYO), an isoform of inositol, belonging to the vitamin B complex, in the treatment of cutaneous disorders like hirsutism and acne. Methods. Fifty patients with PCOS were enrolled in the study. BMI, LH, FSH, insulin, HOMA index, androstenedione, testosterone, free testosterone, hirsutism and acne were evaluated at the baseline and after receiving MYO therapy for 6 months. Results. After 3 months of MYO administration, plasma LH, testosterone, free testosterone, insulin and HOMA index resulted significantly reduced; no significant changes were observed in plasma FSH and androstenedione levels. Both hirsutism and acne decreased after 6 months of therapy. Discussion. MYO administration is a simple and safe treatment that ameliorates the metabolic profile of patients with PCOS, reducing hirsutism and acne.
Engineered extracellular matrix components do not alter the immunomodulatory properties of mesenchymal stromal cells in vitro

Mesenchymal stromal cells (MSCs) have emerged as promising candidates for regenerative therapies, including tissue engineering. Recently it has been reported that engineered extracellular matrix (ECM) components support the differentiation of MSCs into osteocytes and chondrocytes, indicating that ECM components may represent attractive carriers for MSC transplants to repair damaged tissues. However, little is known about the impact of engineered ECM components on the immunosuppressive properties of MSCs, which may essentially contribute to the prevention of allogeneic MSC transplant rejection. In the present study, we explored the potential of fibronectin, fibrillar collagen I, tropocollagen and collagen I/heparin to influence the immunosuppressive capacities of MSCs. We found that these ECM components do not modulate the capability of MSCs to inhibit the proliferation of anti‐CD3/anti‐CD28 antibody‐stimulated CD4+ and CD8+ T cells and of lymphocytes in a mixed lymphocyte reaction. In addition, the potential of MSCs to impair the production of immunostimulatory IL‐12 and to improve the release of immunosuppressive IL‐10 by 6‐sulpho LacNAc+ (slan) dendritic cells (DCs), representing a pro‐inflammatory subset of human blood DCs, was not altered by the ECM components. Furthermore, ECM components do not influence the ability of MSCs to inhibit the slanDC‐induced proliferation of CD4+ T cells. In conclusion, the used engineered ECMs maintain important immunosuppressive properties of MSCs, which support their suitablility as carriers for MSC transplants in tissue engineering. Copyright © 2012 John Wiley & Sons, Ltd.
Example-based controlled translation

The first research on integrating controlled language data in an Example-Based Machine Translation (EBMT) system was published in [Gough & Way, 2003]. We improve on their sub-sentential alignment algorithm to populate the system’s databases with more than six times as many potentially useful fragments. Together with two simple novel improvements—correcting mistranslations in the lexicon, and allowing multiple translations in the lexicon—translation quality improves considerably when target language translations are constrained. We also develop the first EBMT system which attempts to filter the source language data using controlled language specifications. We provide detailed automatic and human evaluations of a number of experiments carried out to test the quality of the system. We observe that our system outperforms Logomedia in a number of tests. Finally, despite conflicting results from different automatic evaluation metrics, we observe a preference for controlling the source data rather than the target translations.
Comparative analysis of mammalian Y chromosomes illuminates ancestral structure and lineage-specific evolution

Although more than thirty mammalian genomes have been sequenced to draft quality, very few of these include the Y chromosome. This has limited our understanding of the evolutionary dynamics of gene persistence and loss, our ability to identify conserved regulatory elements, as well our knowledge of the extent to which different types of selection act to maintain genes within this unique genomic environment. Here, we present the first MSY (male-specific region of the Y chromosome) sequences from two carnivores, the domestic dog and cat. By combining these with other available MSY data, our multiordinal comparison allows for the first accounting of levels of selection constraining the evolution of eutherian Y chromosomes. Despite gene gain and loss across the phylogeny, we show the eutherian ancestor retained a core set of 17 MSY genes, most being constrained by negative selection for nearly 100 million years. The X-degenerate and ampliconic gene classes are partitioned into distinct chromosomal domains in most mammals, but were radically restructured on the human lineage. We identified multiple conserved noncoding elements that potentially regulate eutherian MSY genes. The acquisition of novel ampliconic gene families was accompanied by signatures of positive selection and has differentially impacted the degeneration and expansion of MSY gene repertoires in different species.
Generalized distances between rankings

Spearman's footrule and Kendall's tau are two well established distances between rankings. They, however, fail to take into account concepts crucial to evaluating a result set in information retrieval: element relevance and positional information. That is, changing the rank of a highly-relevant document should result in a higher penalty than changing the rank of an irrelevant document; a similar logic holds for the top versus the bottom of the result ordering. In this work, we extend both of these metrics to those with position and element weights, and show that a variant of the Diaconis-Graham inequality still holds - the generalized two measures remain within a constant factor of each other for all permutations. We continue by extending the element weights into a distance metric between elements. For example, in search evaluation, swapping the order of two nearly duplicate results should result in little penalty, even if these two are highly relevant and appear at the top of the list. We extend the distance measures to this more general case and show that they remain within a constant factor of each other. We conclude by conducting simple experiments on web search data with the proposed measures. Our experiments show that the weighted generalizations are more robust and consistent with each other than their unweighted counter-parts.
Endocytosis and intracellular transport of the glycolipid-binding ligand Shiga toxin in polarized MDCK cells

The glycolipid-binding cytotoxin produced by Shigella dysenteriae 1, Shiga toxin, binds to MDCK cells (strain 1) only after treatment with short-chain fatty acids like butyric acid or with the tumor promoter 12-O-tetradecanoylphorbol 13-acetate. The induced binding sites were found to be functional with respect to endocytosis and translocation of toxin to the cytosol. Glycolipids that bind Shiga toxin appeared at both the apical and the basolateral surface of polarized MDCK cells grown on filters, and Shiga toxin was found to be endocytosed from both sides of the cells. This was demonstrated by EM of cells incubated with Shiga-HRP and by subcellular fractionation of cells incubated with 125I-labeled Shiga toxin. The data indicated that toxin molecules are endocytosed from coated pits, and that some internalized Shiga toxin is transported to the Golgi apparatus. Fractionation of polarized cells incubated with 125I-Shiga toxin showed that the transport of toxin to the Golgi apparatus was equally efficient from both poles of the cells. After 1-h incubation at 37 degrees C approximately 10% of the internalized toxin was found in the Golgi fractions. The results thus suggest that glycolipids can be efficiently transported to the Golgi apparatus from both sides of polarized MDCK cell monolayers.
Structural Elements of the tRNA TΨC Loop Critical for Nucleocytoplasmic Transport Are Important for Human Immunodeficiency Virus Type 1 Primer Selection

ABSTRACT Human immunodeficiency virus type 1 (HIV-1) selects a host cell tRNA as the primer for the initiation of reverse transcription. In a previous study, transport of the intact tRNA from the nucleus to the cytoplasm during tRNA biogenesis was shown to be a requirement for the selection of the tRNA primer by HIV-1. To further examine the importance of tRNA structure for transport and the selection of the primer, yeast tRNAPhe mutants were designed such that the native tRNA structure would be disrupted to various extents. The capacity of the mutant tRNAPhe to complement a defective HIV-1 provirus that relies on the expression of yeast tRNAPhe for infectivity was determined. We found a direct relationship between intact tRNA conformation and the capacity to be selected by HIV-1 for use in reverse transcription. tRNAPhe mutants that retained the capacity for nucleocytoplasmic transport, indicative of overall intact conformation, complemented the defective provirus. The mutant tRNAs were not aminoacylated, and the levels of complementation were lower than that for wild-type tRNAPhe, which did undergo transport and aminoacylation. Taken together, these results demonstrate that HIV-1 primer selection is most dependent on a tRNA structure necessary for nucleocytoplasmic transport, consistent with primer selection occurring in the cytoplasm at or near the site of protein synthesis.
Significance of bronchoalveolar lavage for the diagnosis of idiopathic pulmonary fibrosis.

RATIONALE According to the 2002 ATS/ERS Consensus Classification, a confident diagnosis of idiopathic pulmonary fibrosis (IPF) without surgical lung biopsy is made with consistent clinical/physiological findings and the typical features on high-resolution computed tomography (HRCT). Bronchoalveolar lavage (BAL) and/or transbronchial biopsy, one of four major criteria in the 2000 ATS/ERS IPF Statement, was no more essential in the diagnostic algorithm of 2002 ATS/ERS Consensus Classification. OBJECTIVES To evaluate the additional utility of BAL for the diagnosis of IPF. METHODS A total of 101 patients with suspected IPF on HRCT were studied. Twenty-seven patients were excluded because of lack of functional impairment (n = 20), an underlying condition causing fibrosis (n = 5), or a clinical history inconsistent with IPF (n = 2). The remaining 74 patients met all the criteria recommended in the 2002 ATS/ERS Consensus Classification for making a diagnosis in the absence of surgical biopsy. The final diagnosis was made with further examinations, including pathological analysis, in patients who showed inconsistent findings for IPF on BAL. MEASUREMENTS AND MAIN RESULTS A cut-off level of 30% for lymphocytes in BAL demonstrated a favorable discriminative power for the diagnosis of IPF. Six of the 74 patients (8%) showed a lymphocytosis of 30% or greater in BAL. Their final diagnoses were idiopathic nonspecific interstitial pneumonia (n = 3) and extrinsic allergic alveolitis (n = 3). The change in perception of the diagnosis was validated by a surgical biopsy in two cases and by subsequent outcome in four cases. CONCLUSIONS BAL lymphocytosis changed the diagnostic perception in six of 74 patients who would have been misdiagnosed as having IPF without BAL.
A Constrained-Coding Alternative to MPPM

Multipulse pulse position modulation (MPPM) has been widely proposed to improve data rate over traditional pulse position modulation (PPM) in free-space optical communication systems. Encoders for MPPM are typically lookup-table-based, thus restricting the practical size of MPPM codebooks. Power-of-two-sized MPPM codebooks typically do not have an efficient soft-in soft-out decoder, making them poorly suited for concatenation with an outer code under iterative decoding. In this paper, a new coding technique based on constrained coding is introduced that allows construction of codes which have an efficient encoding algorithm. More importantly, these new codes are suitable for iterative soft-decision decoding in concatenation with an outer error-correcting code. Simulation results for both the Gaussian and Poisson channels show that a serial concatenation with an outer low-density parity-check code (LDPC) can achieve between 2 to 3 dB coding gain over comparable Reed-Solomon and LDPC-coded MPPM systems.
Use of bilevel positive airway pressure in out-of-hospital patients.

OBJECTIVE To evaluate the utility of bilevel positive airway pressure (BiPAP) in the out-of-hospital treatment of patients with presumed congestive heart failure (CHF). METHODS This was a prospective, sequential, parallel trial in an urban setting served by a single emergency medical services (EMS) system between January 4 and April 15, 1999. A convenience sampling of adults who were transported by rescue units judged to be in CHF by treating emergency medical technicians trained in advanced life support (ALS EMTs) was included. Rescue squads were divided into demographically matched pairs, and one of each was equipped with a BiPAP ventilatory support unit. Bilevel positive airway pressure therapy was added to the existing treatment protocols for eligible study patients. Main outcome measures were out-of-hospital treatment time, oxygen saturation changes, hospitalization length, need for endotracheal intubation, mortality rate, and ease of use of the device by EMS personnel. RESULTS Sixty-two of 71 enrolled patients completed the study. Out-of-hospital treatment times did not differ between groups (31.2 minutes vs 31.4 minutes; p = 0.931). The difference between pre- and post-treatment oxygen saturation levels was greater for the BiPAP group (13.71%) than the control group (6.69%) (p < 0.05). There was no statistical difference between groups in the length of hospital stay [control: 7.63 days, vs BiPAP: 6.33 days, p = 0.48], the intubation rate [control: 7 of 25 (28%) vs BiPAP: 4 of 37 (11%), p = 0.10], or death rate [control: 2 of 24, vs BiPAP: 6 of 37, p = 0.46]. All of the ALS EMTs who used BiPAP thought that it was safe to use, and 97% thought it was easy and appeared to improve patients' dyspnea and respiratory distress. CONCLUSIONS ALS EMTs can be trained to deliver noninvasive ventilation with BiPAP, find it easy to apply, and believe that it helps relieve dyspnea in patients with suspected CHF.
Smoking Paradox in Patients Hospitalized With Coronary Artery Disease or Acute Ischemic Stroke: Findings From Get With The Guidelines

Background—Smoking is a potent risk factor for coronary artery disease (CAD) and acute ischemic stroke (AIS), but there are numerous reports of lower in-hospital mortality among smokers versus nonsmokers hospitalized for these events. Methods and Results—We analyzed all consecutive patients hospitalized with a first index CAD (n=158 054) or AIS (n=899 295) event in Get With The Guidelines from 2002 to 2012; 20.4% of AIS and 30.4% of patients with CAD were past-year smokers. Multivariable models and age-stratified analyses were used to estimate the adjusted odds ratio of in-hospital mortality in smokers versus nonsmokers. Smokers were younger, more often male, with fewer vascular risk factors, and were more likely to be admitted to hospitals that were large, academic, or in the South. In-hospital mortality was significantly lower among smokers in both CAD (2.7% versus 5.2%; P<0.0001) and AIS (3.5% versus 5.8%; P<0.0001). The difference between unadjusted and adjusted odds ratios for smoking (0.57 versus 0.86 in CAD; 0.56 versus 0.86 in AIS) indicates the presence of substantial confounding by age and other covariates, but a significant association of past-year smoking remained. Conclusions—Among patients hospitalized with CAD and AIS, smoking is a risk factor for early age of onset, even among those with few vascular risk factors. The persistent association with lower in-hospital mortality after adjusted and stratified analyses probably represents residual unmeasured confounding, although a biological effect of smoking cannot be excluded. Further clinical and prospective population-based studies are needed to explore variables that contribute to outcomes in these patients.
IN PLANE DEBOND RESPONSE OF VACUUM ASSISTED RESIN TRANSFER MOLDED CARBON FIBER SHEETS ON CONCRETE SUBSTRATES

High quality and expedient processing repair methods are necessary for enhancing the service life of bridge structures. Deterioration of concrete can occur as a result of structural cracks, corrosion of reinforcement, and freeze-thaw cycles. Cost effective methods with potential for field implementation are necessary to address the issue of repair and vulnerability to bridge structures. Most infrastructure related applications of fibre-reinforced plastics (FRPs) use traditional hand lay-up technology. The hand lay-up is tedious, expensive, labour-intensive and prone to personnel skill level. An alternative to traditional hand lay-up of FRP for infrastructure applications is Vacuum Assisted Resin Transfer Molding (VARTM). VARTM uses single sided moulding technology to infuse resin over fabrics wrapping large structures, such as bridge girders spans and columns. There is no work available in understanding the interface developed, when VARTM processing is adopted to wrap fibres such as carbon and/or glass over concrete structures. A weak interface creates potential problems such as water seepage, fibre wrinkling, premature failure of beam caused by debonding at the interface and moisture induced delamination. This paper is aimed at understanding the interface formed by carbon fibre processed on to a concrete surface using the VARTM technique. Various surface treatments of the concrete including sandblasting were performed. Carbon fibre wrap Sikadur HEX 103C and low viscosity epoxy resin Sikadur 300 were considered in VARTM processing of concrete specimens. For the covering abstract see ITRD E122906.
Exploiting changes in the tumour microenvironment with sequential cytokine and matrix metalloprotease inhibitor treatment in a murine breast cancer model

The study of treatment-induced changes in the tumour microenvironment might lead to effective combinations of biological therapy. IL-12 induced tumour regression and cure of an experimental murine breast cancer, HTH-K, but only after long-term treatment that was associated with chronic toxicity. During IL-12 therapy, tumour levels of the matrix metalloprotease MMP-9 declined and its inhibitor TIMP-1 was strongly induced. We therefore administered alternate cycles of IL-12 and the MMP inhibitor Batimastat (BB94) to mice. Therapeutic efficacy was increased compared with short-term IL-12 therapy but without the chronic toxicity associated with long-term IL-12 treatment. Image analysis of treated tumours revealed that BB94 prevented regeneration of tumour and stromal compartments that normally occurred after short-term IL-12 therapy. © 2000 Cancer Research Campaign http://www.bjcancer. com
Evaluation of an adaptive linear model

This article reports on the experimental evaluation of an adaptive linear model that constructs improved query vectors from the user preference judgments on a sample set of documents. The performance of this method is compared with that of the standard relevance feedback techniques. The experimental results seem to demonstrate the effectiveness of the adaptive method. © 1991 John Wiley & Sons, Inc.
Comparing the mechanical properties of cold recycled mixture containing coal waste additive and ordinary Portland cement

Pavement cold recycling is considered as an efficient rehabilitation method, especially in severely distressed roads. Modifier additives have been used for improving the performance of cold recycled mixture (CRM), especially at initial days of curing. In this study, coal waste taken from coal washing plant and its ash produced through the incineration process were used as pozzolanic additives in CRM with bitumen emulsion. To assess the effects of using these additives on mechanical properties of CRM, Marshall stability, indirect tensile strength (ITS), resilient modulus, dynamic creep and fatigue tests were applied. Furthermore, the effect of using these additives on CRM moisture sensitivity was evaluated. Application of coal waste powder improved the mechanical properties of CRM, but it could not exert a positive effect on CRM moisture sensitivity. Thus, coal waste can be used as CRM additive in conditions that moisture damage does not significantly affect the pavement performance. Unlike the coal waste powder using the coal waste ash not only increased the durability of CRM, but also it showed upgrading the mechanical properties. In continue, the mechanical properties of the CRM containing coal waste and its ash were compared with the mix that stabilised with 1% and 2% ordinary Portland cement (OPC). Based on the comparisons, coal waste powder and its ash had comparable effects to OPC. For example, the results of fatigue tests revealed that at higher strain levels of 200 μϵ the fatigue life of the CRM mix containing 7% coal waste and coal waste ash was higher than that of containing 1% and 2% cement. Finally, apart from the several environmental advantages it was concluded that the use of coal waste powder and its ash had technical benefits in cold recycling with bitumen emulsion.