gebhart/patrepeval huggingface dataset:
Cerebellar ataxia and coenzyme Q10 deficiency (2003)

The authors measured coenzyme Q10 (CoQ10) concentration in muscle biopsies from 135 patients with genetically undefined cerebellar ataxia. Thirteen patients with childhood-onset ataxia and cerebellar atrophy had markedly decreased levels of CoQ10. Associated symptoms included seizures, developmental delay, mental retardation, and pyramidal signs. These findings confirm the existence of an ataxic presentation of CoQ10 deficiency, which may be responsive to CoQ10 supplementation.
Evaluation of three topical anaesthetic agents against pain : A clinical study (2006)

Benzocaine gel had the rapidest onset of action. EMLA 5% cream proved to be superior in pain reduction compared to benzocaine and lignocaine. Taste acceptance was better with benzocaine gel. Further studies are required for EMLA cream with an improved formulation more suitable for mucosal application before its routine use in dentistry.
Mirror Image DNA Nanostructures for Chiral Supramolecular Assemblies (2008)

L-DNA, the mirror image of natural D-DNA, can be readily self-assembled into designer discrete or periodic nanostructures. The assembly products are characterized by polyacrylamide gel electrophoresis, circular dichroism spectrum, atomic force microscope, and fluorescence microscope. We found that the use of enantiomer DNA as building material leads to the formation of DNA supramolecules with opposite chirality. Therefore, the L-DNA self-assembly is a substantial complement to the structural DNA nanotechnology. Moreover, the L-DNA architectures feature superior nuclease resistance thus are appealing for in vivo medical applications.
Hiding scattering layers for noninvasive imaging of hidden objects (2015)

The ability to noninvasive image through turbid media has long been a major scientific and technological goal in many disciplines. A breakthrough has been made to observe objects that were completely hidden behind an opaque scattering layer. However, such approach needs not only to scan both illumination light and detector but further off-line procedures to numerically retrieve the image of the objects. Here, we report a distant invisibility-based noninvasive method that can hide scattering layers and allows to directly image objects behind. By recording holograms of the objects through a ground glass and then using the holograms produced time-reversal lights to re-illuminate the objects, we implemented to observe objects with feature size ranging from 39 μm to 80 μm that were hidden behind a 3 mm thick ground glass. Of importance, our approach opens a door towards real-time, high speed biomedical imaging and in-site inspection of integrated devices.
Bank Web Sites Phishing Detection and Notification System Based on Semantic Web technologies (2012)

Phishing is an online theft of sensitive information that swindles innocent users into disclosing private information such as user names, passwords, and credit card numbers. The reported number of phishing attacks is growing daily, hence, the loss of the resulting damages are escalating. As a result, there is an urgent need for anti-phishing solutions that is arisen by researchers as well as the IT industry worldwide. Although a number of solutions to mitigate phishing attacks have been proposed, yet they still suffer from high false positive and negative results as well as questioning the feasibility of their implementation. In this work, we propose a system for client-side defenses such as browser plug-ins and classification techniques that are adopted in such detection scenarios. The system inspects the HTML pages as an annotated document represented or embedded in XHTML format using RDF annotations. While the proposed solution has been tested using real sites acquired from the World Wide Web and government agencies concerned on the problem , the method has a better detection accuracy that reaches 96% while false positive rate decreased to 4%. The results show a promising findings in the area of phishing detection that requires hand-in-hand collaboration between various banking branches and the country’s central or authorized bank. Additionally, the system notifies the corresponding bank about the phishing web sites, and the bank in turn notifies its clients.
Patterning and Templating for Nanoelectronics (2009)

The semiconductor industry will soon be launching 32 nm complementary metal oxide semiconductor (CMOS) technology node using 193 nm lithography patterning technology to fabricate microprocessors with more than 2 billion transistors. To ensure the survival of Moore's law, alternative patterning techniques that offer advantages beyond conventional top-down patterning are aggressively being explored. It is evident that most alternative patterning techniques may not offer compelling advantages to succeed conventional top-down lithography for silicon integrated circuits, but alternative approaches may well indeed offer functional advantages in realising next-generation information processing nanoarchitectures such as those based on cellular, bioinsipired, magnetic dot logic, and crossbar schemes. This paper highlights and evaluates some patterning methods from the Center on Functional Engineered Nano Architectonics in Los Angeles and discusses key benchmarking criteria with respect to CMOS scaling.
Canine Osteosarcoma: A Naturally Occurring Disease to Inform Pediatric Oncology (2014)

Osteosarcoma (OSA) is the most common form of malignant bone cancer in children and dogs, although the disease occurs in dogs approximately 10 times more frequently than in people. Multidrug chemotherapy and aggressive surgical techniques have improved survival; however, new therapies for OSA are critical, as little improvement in survival times has been achieved in either dogs or people over the past 15 years, even with significant efforts directed at the incorporation of novel therapeutic approaches. Both clinical and molecular evidence suggests that human and canine OSA share many key features, including tumor location, presence of microscopic metastatic disease at diagnosis, development of chemotherapy-resistant metastases, and altered expression/activation of several proteins (e.g. Met, ezrin, phosphatase and tensin homolog, signal transducer and activator of transcription 3), and p53 mutations, among others. Additionally, canine and pediatric OSA exhibit overlapping transcriptional profiles and shared DNA copy number aberrations, supporting the notion that these diseases are similar at the molecular level. This review will discuss the similarities between pediatric and canine OSA with regard to histology, biologic behavior, and molecular genetic alterations that indicate canine OSA is a relevant, spontaneous, large animal model of the pediatric disease and outline how the study of naturally occurring OSA in dogs will offer additional insights into the biology and future treatment of this disease in both children and dogs.
Prolonged effect of CGRP in Raynaud's patients: a double‐blind randomised comparison with prostacyclin. (1991)

1. Calcitonin gene related peptide (CGRP) is a potent endogenous vasodilator to which we have previously demonstrated a specific hypersensitivity in skin blood flow in the hands in patients with Raynaud's disease. 2. We have now investigated whether long infusion of CGRP can relieve symptoms of patients with Raynaud's disease using prostacyclin as a control. 3. Six patients were randomised to receive intravenous infusion of either human alpha-CGRP on one occasion, or prostacyclin (PGI2) on another occasion in a double-blind and cross-over design. The dose of each agent was initially titrated up to 8 ng kg-1 min-1 or to a maximum increase in heart rate of 25 beats min-1. 4. In addition to blood pressure, heart rate and skin blood flow measurements, infrared thermography and cold stress challenge was performed before, immediately after infusion and at 3 and 14 days post-infusion. 5. CGRP caused an increase in hand skin blood flow throughout its infusion, whilst PGI2 caused only a short lived increase. The thermographic results showed significant improvement in hand rewarming 3 days after CGRP but not after PGI2. 6. We conclude that 3 h infusion of CGRP was better tolerated than PGI2 and caused objective improvement up to 3 days. CGRP may be an alternative to PGI2 in some patients.
BMP2-Induced Inflammation Can Be Suppressed by the Osteoinductive Growth Factor NELL-1 (2013)

Bone-morphogenetic protein 2 (BMP2) is currently the only Food and Drug Administration-approved osteoinductive growth factor used in clinical settings for bone regeneration and repair. However, the use of BMP2 is encumbered by numerous clinical complications, including postoperative inflammation and life-threatening cervical swelling. Thus, methods to prevent BMP2-induced inflammation would have far-reaching clinical implications toward improving current BMP2-based methods for bone regeneration. For the first time, we investigate the potential role of the growth factor Nel-like molecule-1 (NELL-1) in inhibiting BMP2-induced inflammation. Adult rats underwent a femoral bone onlay procedure, treated with either BMP2 protein (4 mg/mL), NELL-1 protein (4 mg/mL), or both proteins combined. Animals were evaluated at 3, 7, and 14 days postoperatively by histology, histomorphometry, immunohistochemistry, and real-time PCR for markers of inflammation (TNFα, IL6). The relative levels of TNFα and IL6 in serum were also detected by ELISA. The mechanism for NELL-1's anti-inflammatory effect was further assessed through examining inflammatory markers and generation of reactive oxygen species (ROS) in the mouse embryonic fibroblast NIH3T3 cells. BMP2 significantly induced local inflammation, including an early and pronounced polymorphonuclear cell infiltration accompanied by increased expression of TNFα and IL6. Treatment with NELL-1 alone elicited no significant inflammatory response. However, NELL-1 significantly attenuated BMP2-induced inflammation by all markers and at all timepoints. These local findings were also confirmed using systemic serum inflammatory biomarkers (TNFα, IL6). In each case, NELL-1 fully reversed BMP2-induced systemic inflammation. Lastly, our findings were recapitulated in vitro, where NELL-1 suppressed BMP2 induced expression of inflammatory markers, as well as NF-κB transcriptional activity and generation of ROS. BMP2-induced inflammation is a serious public health concern with potentially life-threatening complications. In the present study, we observed that the growth factor, NELL-1, significantly attenuates or completely reverses BMP2-induced inflammation. The mechanisms of NELL-1's anti-inflammatory effect are only partially elucidated, and may include reduction of NF-κB transcriptional activity or ROS generation.
Visualising Nucleic Acids (1997)

This chapter contains sections titled: Visualising DNA/RNA Using Stains Electron Microscopy Indirect Biophysical Methods
The 3f Enable sutureless bioprosthesis: Early results, safeguards, and pitfalls (2014)

The 3f Enable bioprosthesis is an important alternative to conventional prostheses, with reduction of surgery times and good hemodynamic results on discharge. It is especially useful for high-risk patients and octogenarians. Studies on a greater number of patients and long-term follow-ups are necessary.
Tissue-specific expression of human CD4 in transgenic mice. (1993)

The gene for the human CD4 glycoprotein, which serves as the receptor for human immunodeficiency virus type 1, along with approximately 23 kb of sequence upstream of the translational start site, was cloned. The ability of 5' flanking sequences to direct tissue-specific expression was tested in cell culture and in transgenic mice. A 5' flanking region of 6 kb was able to direct transcription of the CD4 gene in NIH 3T3 cells but did not result in detectable expression in the murine T-cell line EL4 or in four lines of transgenic mice. A larger 5' flanking region of approximately 23 kb directed high-level CD4 transcription in the murine T-cell line EL4 and in three independent lines of transgenic mice. Human CD4 expression in all tissues analyzed was tightly correlated with murine CD4 expression; the highest levels of human CD4 RNA expression were found in the thymus and spleen, with relatively low levels detected in other tissues. Expression of human CD4 protein in peripheral blood mononuclear cells was examined by flow cytometry in these transgenic animals and found to be restricted to the murine CD4+ subset of lymphocytes. Human CD4 protein, detected with an anti-human CD4 monoclonal antibody, was present on the surface of 45 to 50% of the peripheral blood mononuclear cells from all transgenic lines.
Regression of Presumed Primary Conjunctival and Corneal Intraepithelial Neoplasia With Topical Interferon Alpha-2b (2002)

Topical IFNalpha2b alone may be an effective treatment of primary CIN. It appears to be a safe alternative to radiation, intralesional IFNalpha2b injection, and surgical excision with cryotherapy. Larger population studies with longer follow-up are recommended to better assess the risk of recurrence and other possible adverse effects.
Leukocyte Traffic Blockade as a Therapeutic Strategy in Inflammatory Bowel Disease (2013)

Dysregulated recruitment of leukocytes into the intestine is a characteristic feature of IBD. Several families of molecules regulate the influx of these cells into sites of inflammation within the gastrointestinal tract. Pharmacological blockade of interactions between molecules that mediate the formation of stable bonds (integrins) and their endothelial ligands has already shown clinical efficacy. Antibodies that target participant molecules have been approved by the US Federal Drug Administration for use in Crohn's, multiple sclerosis (MS) (i.e. natalizumab) and psoriasis (i.e. efalizumab). A more recent additional family of drugs, which might also interfere with lymphocyte traffic (i.e. sphingosine-1- phosphate receptor agonists: fingolimod) is in clinical use for MS and just recently entered the clinical trial stage for ulcerative colitis. In the present review we discuss basic aspects of clinically relevant molecules and compile the clinical studies that support the targeting of specific steps of the leukocyte adhesion cascade for therapeutic purposes in IBD.
Epigenetic downregulation of the ISG15-conjugating enzyme UbcH8 impairs lipolysis and correlates with poor prognosis in nasopharyngeal carcinoma (2015)

We identified the UBE2L6 gene, encoding the ISG15-conjugating enzyme UbcH8, as one gene significantly downregulated by promoter hypermethylation in nasopharyngeal carcinoma (NPC). Reduced expression of the UbcH8 protein correlated with poor outcome in NPC patients. Restored expression of UBE2L6 suppressed proliferation and colony formation in NPC cells, while inducing apoptosis. Of particular interest, we found that aberrant lipid turnover was controlled by UbcH8 in NPC through ISG15-conjugation of valosin-containing protein (VCP). Tumor tissue and NPC cell lines showed conspicuously strong accumulation of lipid droplets (LDs) compared to control nasopharyngeal epithelium and non-cancerous cell lines. We demonstrated that UbcH8 counteracts degradation of adipocyte triglyceride lipase (ATGL), a key enzyme in lipid catabolism.
Endometrial receptivity markers, the journey to successful embryo implantation (2006)

Human embryo implantation is a three-stage process (apposition, adhesion and invasion) involving synchronized crosstalk between a receptive endometrium and a functional blastocyst. This ovarian steroid-dependent phenomenon can only take place during the window of implantation, a self-limited period of endometrial receptivity spanning between days 20 and 24 of the menstrual cycle. Implantation involves a complex sequence of signalling events, consisting in the acquisition of adhesion ligands together with the loss of inhibitory components, which are crucial to the establishment of pregnancy. Histological evaluation, now considered to add little clinically significant information, should be replaced by functional assessment of endometrial receptivity. A large number of molecular mediators have been identified to date, including adhesion molecules, cytokines, growth factors, lipids and others. Thus, endometrial biopsy samples can be used to identify molecules associated with uterine receptivity to obtain a better insight into human implantation. In addition, development of functional in vitro systems to study embryo-uterine interactions will lead to better definition of the interactions existing between the molecules involved in this process. The purpose of this review was not only to describe the different players of the implantation process but also to try to portray the relationship between these factors and their timing in the process of uterine receptivity.
Inferior Parietal Lobule Function in Spatial Perception and Visuomotor Integration (1987)

The sections in this article are: 1 Lesion Studies 1.1 Lesions in Humans 1.1.1 Attentional Deficits 1.1.2 Constructional Apraxia 1.1.3 Visual Mislocalization 1.1.4 Visual Disorientation 1.1.5 Topographical and Spatial-Memory Deficits 1.2 Lesions in Monkeys 2 Anatomical and Functional Organization 2.1 Cytoarchitectural Subdivisions 2.2 Functional Subdivisions 2.3 Corticocortical Connections 2.3.1 Anatomical Subdivisions Defined by Corticocortical Connections 2.3.2 Visual Pathways into IPL 2.3.3 Callosal Connections 2.4 Thalamocortical Connections—Pulvinar 2.4.1 Possible Role of Pulvinar in Attention 2.4.2 Medial Pulvinar Disks as One Possible Anatomical Substrate for an Attention Mechanism 2.5 Corticopontine Projections 3 Physiology 3.1 Response Properties of IPL Neurons 3.1.1 Fixation—Eye-Position Activity 3.1.2 Smooth-Pursuit (Tracking) Activity 3.1.3 Saccadic Activity 3.1.4 Somatosensory and Reach Activity 3.1.5 Visual Sensitivity 3.1.6 Angle-of-Gaze Effects on Light Sensitivity 3.1.7 Visual Motion Selectivity 3.1.8 Attentional Effects 4 Speculations Regarding Role of IPL in Behavior 4.1 Command Hypothesis 4.2 Attention Hypothesis 4.3 Visuomotor Integration Hypothesis 5 conclusion5 Conclusion
Endoglucanases: insights into thermostability for biofuel applications (2013)

Abstract Obtaining bioethanol from cellulosic biomass involves numerous steps, among which the enzymatic conversion of the polymer to individual sugar units has been a main focus of the biotechnology industry. Among the cellulases that break down the polymeric cellulose are endoglucanases that act synergistically for subsequent hydrolytic reactions. The endoglucanases that have garnered relatively more attention are those that can withstand high temperatures, i.e., are thermostable. Although our understanding of thermostability in endoglucanases is incomplete, some molecular features that are responsible for increased thermostability have been recently identified. This review focuses on the investigations of endoglucanases and their implications for biofuel applications.
Capture PCR: efficient amplification of DNA fragments adjacent to a known sequence in human and YAC DNA. (1991)

We have devised a procedure, termed capture PCR (CPCR), that permits the rapid isolation of DNA segments situated adjacent to a characterized nucleotide sequence. In this procedure, a DNA sample is restriction-digested and a linker, comprising two base-paired oligonucleotides, is added to the ends by ligation. Multiple extension reactions are performed using a biotinylated primer derived from the known sequence, permitting the subsequent isolation of extension products on a streptavidin-coated support. The enriched fragments are amplified exponentially using another specific oligonucleotide, hybridizing 3' to the biotinylated primer in combination with one of the linker oligonucleotides, now functioning as a PCR primer. The convenience of CPCR is greatly enhanced by using a novel streptavidin-coated manifold, which is constructed so that it projects into each individual well of a microtiter plate. The procedure permits the simultaneous isolation of fragments from large numbers of DNA samples and minimizes the risk of contamination between reactions. We have applied this method to identify DNA sequences located downstream of known sequences in the human genome. The technique has also been used to identify end fragments of sequences cloned in a yeast artificial chromosome (YAC) vector. The reactions can be initiated directly from yeast colonies and provide access to DNA sequence information for these end fragments in a minimal number of steps. With the aid of the present technique, we have isolated over 100 end fragments from YACs derived from the human X chromosome. Isolated end sequences have been used to order YAC clones into a contig.
Worshippers’ Exposure to Particulate Matter in Two Temples in Taiwan (2003)

Worshippers in temples may be exposed to high concentrations of pollutants emitted from incense burning. This work assessed the PM2.5 and PM10 exposures of temple worshippers in Taiwan and explored the important exposure determinants such as numbers of passing visitors and joss sticks in censers, worshipping dates, and temple characteristics. Sampling was conducted on the 1st, 2nd, 15th, and 16th of the lunar month in two temples in Taichung, Taiwan. Research staff took samples by wearing one PM2.5 and one PM10 sampler and imitating worshipping activity. Personal environmental monitors connected to personal pumps with 2-L/min flow rates were used for sampling. PM10 samples were also simultaneously taken outside the temples. The results suggested that burning joss sticks in temples is a significant PM exposure source. The geometric mean of personal exposure was 444 microg/m3 PM2.5 [geometric standard deviation (GSD) = 1.8] and 583 microg/m3 PM10 (GSD = 1.4). The latter was approximately 4-6 times that of roadside concentrations. Exposures on the 1st and 15th (with more visitors and more joss sticks) were about 130 microg/m3 PM2.5 and 249 microg/m3 PM10 higher than those on the 2nd and the 16th. Furthermore, each joss stick in the censer contributed about 0.40 microg/m3 of particles to the worshippers' exposure. In the worst case, PM exposure during one temple visit would account for 11% of the personal exposure in one day.
Insights into Thermal Stability from a Comparison of the Glutamate Dehydrogenases from Pyrococcus furiosus and Thermococcus litoralis (1995)

In the light of the solution of the three-dimensional structure of the NAD(+)-linked glutamate dehydrogenase from the mesophile Clostridium symbiosum, we have undertaken a detailed examination of the alignment of the sequences for the thermophilic glutamate dehydrogenases from Thermococcus litoralis and Pyrococcus furiosus against the sequence and the molecular structure of the glutamate dehydrogenase from C. symbiosum, to provide insights into the molecular basis of their thermostability. This homology-based modelling is simplified by the relatively small number of amino acid substitutions between the two thermophilic glutamate dehydrogenase sequences. The most frequent amino acid exchanges involve substitutions which increase the hydrophobicity and sidechain branching in the more thermostable enzyme; particularly common is the substitution of valine to isoleucine. Examination of the sequence differences suggests that enhanced packing within the buried core of the protein plays an important role in maintaining stability at extreme temperatures. One hot spot for the accumulation of exchanges lies close to a region of the molecule involved in its conformational flexibility and these changes may modulate the dynamics of this enzyme and thereby contribute to increased stability.