gebhart/patrepeval huggingface dataset:
Enzyme replacement therapy on hypophosphatasia mouse model (2013)

Hypophosphatasia (HPP) is an inborn error of metabolism caused by deficiency of the tissue-nonspecific alkaline phosphatase (TNSALP), resulting in a defect of bone mineralization. Natural substrates for this ectoenzyme accumulate extracellulary including inorganic pyrophosphate (PPi), an inhibitor of mineralization, and pyridoxal 5-phosphate (PLP), a co-factor form of vitamin B6. Enzyme replacement therapy (ERT) for HPP by functional TNSALP is one of the therapeutic options. The C-terminal-anchorless human recombinant TNSALP derived from Chinese hamster ovary cell lines was purified. TNSALP-null mice (Akp2 (-/-) ), an infantile model of HPP, were treated from birth using TNSALP and vitamin B6 diet. Long-term efficacy studies of ERT consisted of every 3 days subcutaneous or intravenous injections till 28 days old (dose 20 U/g) and subsequently every 3 days intravenous injections for 6 months (dose 10 U/g). We assessed therapeutic effect by growth and survival rates, fertility, skeletal manifestations, and radiographic and pathological finding. Treated Akp2 (-/-) mice grew normally till 4 weeks and appeared well with a minimum skeletal abnormality as well as absence of epilepsy, compared with untreated mice which died by 3 weeks old. The prognosis of TNSALP-treated Akp2 (-/-) mice was improved substantially: 1) prolonged life span over 6 months, 2) improvement of the growth, and 3) normal fertility. After 6 months of treatment, we found moderate hypomineralization with abnormal proliferative chondrocytes in growth plate and articular cartilage. In conclusion, ERT with human native TNSALP improves substantial clinical manifestations in Akp2 (-/-) mice, suggesting that ERT with anchorless TNSALP is also a potential therapy for HPP.
Your 80211 wireless network has no clothes (2002)

The explosive growth in wireless networks over the last few years resembles the rapid growth of the Internet within the last decade. To protect internal resources, organizations usually purchased and installed an Internet firewall. We believe that the currently deployed wireless access points present a larger security problem than the early Internet connections. A large number of organizations, based on vendor literature, believe that the security provided by their deployed wireless access points is sufficient to prevent unauthorized access and use. Unfortunately, nothing could be further from the truth. While the current access points provide several security mechanisms, our work combined with the work of others show that all of these mechanisms are completely ineffective. As a result, organizations with deployed wireless networks are vulnerable to unauthorized use of, and access to, their internal infrastructure. We present a novel solution that requires no changes or additions to any deployed wireless equipment, and is easily deployed and transparent to end users.
Meteor Universal: Language Specific Translation Evaluation for Any Target Language (2014)

This paper describes Meteor Universal, released for the 2014 ACL Workshop on Statistical Machine Translation. Meteor Universal brings language specific evaluation to previously unsupported target languages by (1) automatically extracting linguistic resources (paraphrase tables and function word lists) from the bitext used to train MT systems and (2) using a universal parameter set learned from pooling human judgments of translation quality from several language directions. Meteor Universal is shown to significantly outperform baseline BLEU on two new languages, Russian (WMT13) and Hindi (WMT14).
Cyclin D1 overexpression enhances radiation-induced apoptosis and radiosensitivity in a breast tumor cell line. (1999)

Overexpression of cyclin D1, a G1 cell cycle regulator, is often found in many different tumor types, such as breast carcinoma and squamous cell carcinoma of the head and neck. The overexpression of this protein is, in several cases, associated with a poor prognosis. In this study, the effect of cyclin D1 on radiosensitivity was investigated in a breast tumor cell line, MCF7, containing a cyclin D1 gene construct under the control of a tetracycline-sensitive regulator. MCF7 cells cultured without tetracycline resulted in a 6-fold increase in the cyclin D1 protein. Cyclin D1-overexpressing MCF7 cells were more sensitive to ionizing radiation than the nonoverexpressing counterparts. The cyclin D1-overexpressing cells also exhibited a higher induction of apoptosis. Treatment with a dose of 5 Gy resulted in a rapid increase of p53 and p21 in the cyclin D1-overexpressing cells. Nonoverexpressing cells showed a more transient expression of these proteins after ionizing radiation. A pronounced G2-M block was observed in both cell lines. The cyclin D1-overexpressing cells were, however, released earlier from the block than the control cells. These data suggest that overexpression of cyclin D1 alters sensitivity toward ionizing radiation by modulating gamma-radiation-induced G2-M transition.
Secure user authentication based on the trusted platform for mobile devices (2016)

In recent years, the use of mobile devices including smartphones has increased significantly all over the world, and e-commerce using smartphones has also greatly increased. Furthermore, many people are using their smartphones to carry out certain aspects of their work according to the BYOD trend. Therefore, it is extremely important that mobile device users are authenticated securely by remote servers when using their smartphones. Digital certificates are one of the many solutions available for authentication, but they are easy to copy and leak. Mobile device services need to properly manage registered devices and users, and trusted means of authenticating their identities are needed. In this paper, we propose a secure certificate-based user authentication framework using the trusted mobile zone (TMZ) system into which the trusted platform is built. The TMZ system is a secure mobile device into which a hypervisor is built on the mobile device, and in which the hypervisor separates the mobile device into a normal zone and a secure zone. Android OS operates in the normal zone on the TMZ systems, and secure OS is run in the secure zone at the same time. The trusted platform is built in the normal zone and the secure zone in order to provide the user with secure services. In this paper, we propose a TMZ system founded on the TEE system of the global platform. The TMZ system provides a secure execution environment in which to store sensitive data and execute security functions securely. In conclusion, we describe the experimental results of generating the signature data in the TMZ system.
Strategies in the Treatment of Systemic Fungal Infections (1980)

IN the past few years, there has been an increase in the number of systemic fungal infections seen in clinical practice. These infections have been of two types: those due to primary pathogens such as Coccidioides immitis, Histoplasma capsulatum, Sporothrix schenckii, Paracoccidioides brasiliensis, and Blastomyces dermatitidis; and those due to secondary or opportunistic pathogens such as Cryptococcus neoformans, Torulopsis glabrata, and species of candida, mucor, and aspergillus. The former have been appreciated as important causes of infection for many years; the latter are being recognized as major causes of disease, particularly in patients with impaired defense mechanisms.In . . .
CpR18, a novel SAP‐domain plant transcription factor, binds to a promoter region necessary for ABA mediated expression of the CDeT27‐45 gene from the resurrection plant Craterostigma plantagineum Hochst (2002)

CDeT27-45 is a lea-like gene from the resurrection plant Craterostigma plantagineum (Scrophulariaceae) which is strongly expressed in vegetative tissues in response to dehydration or treatment with abscisic acid (ABA). Expression of the gene is correlated with the acquisition of desiccation tolerance. Nuclear proteins bind to a 29-bp cis-regulatory region of the promoter which is essential for transcriptional activation of the CDeT27-45 gene by ABA. Using a yeast one-hybrid screen, the cDNA clone CpR18 was isolated, which encodes a protein with specific binding activity for the cis-regulatory element in the CDeT27-45 promoter. The protein contains an acidic region, a SAP-domain, a zinc finger of the C3H-type, and two motifs which are conserved in proteins from several plant species. One of the conserved regions is rich in basic residues and is predicted to form a helix-loop-helix structure. The R18 gene shows high similarities to genomic sequences and ESTs from other plant species. The tissue-specific expression pattern of the rare R18 mRNA and the distribution of nuclear protein binding activity for the CDeT27-45 promoter fragment are compared. The R18 protein is indeed localized in the nucleus, and activates transcription of CDeT27-45 promoter-GUS fusion constructs in tobacco protoplasts. DNA blot analysis and isolation of genomic clones reveal that two copies of R18 are present in the C. plantagineum genome.
Continuous hidden Markov modeling for speaker-independent word spotting (2003)

A word-spotting system using Gaussian hidden Markov models is presented. Several aspects of this problem are investigated. Specifically, results are reported on the use of various signal processing and feature transformation techniques. The authors have observed that performance can be greatly affected by the choice of features used, the covariance structure of the Gaussian models, and transformations based on energy and feature distributions. Due to the open-set nature of the problem, the specific techniques for modeling out-of-vocabulary speech and the choice of scoring metric can have a significant effect on performance.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Immunotherapy of minimal residual disease in conjunction with autologous and allogeneic bone marrow transplantation (BMT). (1992)

Recent investigations in animal models of human lymphoid and myeloid leukemia suggest that induction of immune-mediated antitumor effects is feasible at the stage of minimal residual disease (MRD) using allogeneic immunocompetent lymphocytes following initial reconstitution with T cell depletion and/or activation of reconstituting syngeneic or allogeneic immune cells by recombinant interleukin-2 (rIL2). Pilot clinical trials in patients with leukemias and lymphomas at high risk to relapse following autologous bone marrow transplantation (BMT) suggest that beneficial antitumor effects may be achieved at the stage of MRD by home immunotherapy as soon as hematopoietic reconstitution occurs using rIL2 (Cetus) and alpha interferon (Roferon A) (Hoffmann LaRoche). Although results obtained from our open trial seem encouraging, prospective randomized trials and longer observation periods are needed in order to confirm immune-mediated antitumor effects in conjunction with autologous BMT in patients with malignant hematological disorders at high risk to relapse. Likewise, it seems that amplification of anti-leukemia effects following allogeneic BMT is feasible by post-transplant infusion of donor's peripheral blood lymphocytes for prevention and/or treatment of relapse.
An RNA-Guided Pathway for the Epigenome (2002)

Like twins separated by early evolution, DNA and RNA are the principal molecules for storing and transducing genetic information. Messenger RNAs (mRNAs) are transcribed from genes that constitute as little as 10% of the genome. Most of the remaining noncoding DNA is occupied by a diverse family of repeats including arrays of satellite sequences and transposons. Since the pioneering work of Muller (1) and McClintock (2), these apparently "nonspecific" sequences have been thought of as "epigenetic elements" that control the stability of gene expression programs and organize heterochromatic domains at centromeres and telomeres (3). Although this concept has been instrumental in guiding epigenetics research (4), it has also posed a major paradox: How can stretches of DNA that appear so heterogeneous in sequence organize similar higher order chromatin structures (5)?
The particle tracking silicon microscope PTSM (2004)

A novel position- and energy-sensitive particle detector for radiobiological application is described. The aim is to support research in radiation response of biological systems, for example in the induction of mutations in C. elegans, where precise knowledge of location and intensity of the radiation is crucial to understand radiation sensitivity of individual cells. The "Particle Tracking Silicon Microscope" (PTSM) consists of a silicon strip detector in direct contact with radiobiological samples (e.g., C. elegans), such that the location and intensity of particle radiation can be controlled at the 10 /spl mu/m scale. The readout is performed with low-noise readout electronics, which allows the determination of the particle's position from the hit strip address and its energy from the specific energy loss. In our implementation, the energy loss is measured through the time-over-threshold (TOT). The noise rate at acceptable thresholds is so low that the single particles can be detected with 100% efficiency. The performance of the front-end ASIC is described, and the results of initial environmental tests are reported. These include placing biological samples and saline solutions in direct contact with the silicon detectors.
Vertical Loads Due to Wheat on Obstructions Located on the Floor of a Model Bin (2006)

Tests were conducted in a model grain bin to evaluate the vertical loads acting on differently shaped obstructions embedded in wheat during filling, detention, and discharge. The bin had corrugated galvanized steel walls with a 1.83 m diameter and a flat bottom. All tests were conducted in a bin that was centrically loaded and unloaded. Three differently shaped obstructions (disc, cone, and cylinder) were tested; each had a circular base equivalent to 6% of the bin floor area. The obstructions were supported in the bin using a three-legged support structure. Each leg of the support structure rested on a load cell attached to the bin floor. Tests were conducted with the obstructions located in the bin at three different eccentricity ratios (ratio of the centerline of the obstruction to the bin radius, ER = 0, 0.5, and 0.67) and at two different grain heights (height of grain depth to bin diameter ratio, H/D = 0.4 and 0.75). The radial distribution of vertical pressures in the bin varied, with the highest pressure in the center of the bin and the lowest at the bin wall. The largest vertical load on the disc and cone obstructions was measured at the end of filling. The largest load on the cylindrical obstruction was observed immediately after the initiation of bin discharge. At the end of filling and detention, the vertical loads on the disc, cone, and cylinder were 4.8, 3.7, and 4.9 kN, respectively, for obstructions located at ER = 0 and H/D = 0.4. At a location closest to the bin wall (ER = 0.67), the vertical loading on the disc, cone, and cylinder were 4.4, 3.4, and 4.4 kN, respectively. The greatest difference in vertical loading between the location and type of obstruction was on the order of 50%. Bending moments were also observed to act on these obstructions. Bending moments at ER = 0.67 were much larger than those determined at ER = 0.5. For the disc and cone, moments at ER = 0.67 were three times as large as those determined for tests conducted at ER = 0.0. At the onset of discharge, the vertical loading on both the disc and cone decreased significantly, while the vertical loading on the cylinder increased significantly. Recommendations based on Eurocode I were used to predict the vertical loading on the disc and cylinder embedded in grain. This technique did an adequate job of predicting the maximum loading on both obstructions within the bin; however, it did not take into account the effect of unloading on the obstruction forces.
Expression of endogenous peptide-major histocompatibility complex class II complexes derived from invariant chain-antigen fusion proteins. (1995)

CD4+ T cells recognize major histocompatibility complex (MHC) class II-bound peptides that are primarily obtained from extracellular sources. Endogenously synthesized proteins that readily enter the MHC class I presentation pathway are generally excluded from the MHC class II presentation pathway. We show here that endogenously synthesized ovalbumin or hen egg lysozyme can be efficiently presented as peptide-MHC class II complexes when they are expressed as fusion proteins with the invariant chain (Ii). Similar to the wild-type Ii, the Ii-antigen fusion proteins were associated intracellularly with MHC molecules. Most efficient expression of endogenous peptide-MHC complex was obtained with fusion proteins that contained the endosomal targeting signal within the N-terminal cytoplasmic Ii residues but did not require the luminal residues of Ii that are known to bind MHC molecules. These results suggest that signals within the Ii can allow endogenously synthesized proteins to efficiently enter the MHC class II presentation pathway. They also suggest a strategy for identifying unknown antigens presented by MHC class II molecules.
A sensitive assay for the quantification of reverse transcriptase activity based on the use of carrier-bound template and non-radioactive-product detection, with special reference to human-immunodeficiency-virus isolation. (1996)

A non-radioactive 96-well microtitre plate reverse transcriptase (RT) assay, based on the use of covalently bound riboadenosine homopolymer in the wells and 5-bromodeoxyuridined 5'-triphosphate (BrdUTP) as dNTP, is described. The whole assay is performed in a single well, including the quantitative detection of incorporated BrdU, which is performed immunologically using alkaline phosphatase-conjugated anti-BrdU antibody and colorometric reading. The system also allows the use of variable amounts of primer. The kinetics and characteristics of the assay using BrdUTP is similar to the use of [3H]dTTP. The sensitivity of the assay can be varied either by altering the duration of RT assay time and/or by prolonging the alkaline phosphatase reaction. Thus the assay can detect < 0.02 pg of recombinant human-immunodeficiency-virus (HIV) type I RT, < 0.005 m unit of avian-myeloblastosis-virus RT or < 0.02 m unit of recombinant Moloney-murine-leukaemia-virus RT. The assay was found to be useful with various types of cell-culture material, and a comparative study of 16 HIV-infected lymphocyte cultures, using 10 microliters of supernatant medium for RT assay and 22.5 microliters for p24 antigen assay showed that the new RT assay was at least 25-fold more sensitive than the p24 antigen assay. The results also show a good correlation between the RT activities found and the p24-antigen level detected, with exception for HIV2 isolates, as they only became positive in the RT assay. The technical performance and the capacity of the test compared with other available RT kits is discussed, as well as its use for other applications.
Fabrication of GaAs and InAs wires in nanochannel glass (1996)

A newly developed porous glass, nanochannel glass, was used to fabricate uniform, high-density GaAs and InAs micro- and nanowires with high aspect ratios. The fabrication process utilized reactions between organogallium and organoindium compounds with arsine to produce polycrystalline GaAs and InAs with crystallite sizes of approximately 50–130 Å when annealed at 400–500 °C. At the higher annealing temperatures, the InAs wires exhibited an increase in surface porosity and grain size, whereas the GaAs wires maintained a uniform, smooth texture.
Critical roles of c-Rel in autoimmune inflammation and helper T cell differentiation (2002)

Different members of the Rel/NF-κB family may play different roles in immunity and inflammation. We report here that c-Rel–deficient mice are resistant to autoimmune encephalomyelitis and are defective in Th1, but not Th2 responses. The Th1 deficiency appears to be caused by selective blockade of IL-12 production by c-Rel–deficient antigen-presenting cells, as well as by a complete abrogation of IFN-γ expression in c-Rel–deficient T cells. Interestingly, c-Rel deficiency does not affect T-bet expression, suggesting that c-Rel may act downstream of T-bet during Th1 cell differentiation. Thus, unlike NF-κB1, which selectively regulates Th2 cell differentiation, c-Rel is essential for Th1 cell differentiation and Th1 cell–mediated autoimmune inflammation.
Virucidal short wavelength ultraviolet light treatment of plasma and factor VIII concentrate: protection of proteins by antioxidants (1995)

The use of solvent/detergent mixtures and various forms of heat treatment to inactivate viruses has become widespread in the preparation of blood derivatives. Because viruses that lack lipid envelopes and/or are heat resistant, eg, hepatitis A virus (HAV) or parvovirus B19 may be present, the use of two methods of virus elimination that operate by different mechanisms has been advocated. We now report on short wavelength ultraviolet light (UVC) irradiation for virus inactivation and enhancement of its compatibility with proteins by quenchers of reactive oxygen species (ROS). Treatment of an antihemophilic factor (AHF) concentrate or whole plasma with 0.1 J/cm2 inactivated 10(5) to > or = 10(6) infectious doses (ID) of encephalomyocarditis virus (EMCV), HAV, bacteriophage M13, vesicular stomatitis virus (VSV), and porcine parvovirus. However, the recovery of factor VIII was 30% or lower on treatment of an AHF concentrate and 60% on treatment of plasma. Factor VIII recovery could be increased with little or no effect on virus kill by addition of rutin, a flavonoid known to quench both type I and type II ROS. On treatment of plasma in the presence of rutin, the recovery of several other coagulation factors was also enhanced by rutin addition and typically exceeded 75%. Electrophoretic analysis of treated AHF concentrate confirmed the advantage of rutin presence; UVC irradiation of plasma did not cause discernible changes in electrophoretic banding patterns, even in the absence of rutin. We conclude that addition of UVC treatment to existing processes used in the manufacture of blood derivatives will provide an added margin of safety, especially for nonenveloped or heat-stable viruses.
The Chemistry of Isocyanides, their MultiComponent Reactions and their Libraries (2003)

The first century of isocyanide chemistry, which was then still a rather empty part of Organic Chemistry, began in 1859. In 1958 isocyanides became generally available by dehydration the formylamines. One year later the four component reaction of isocyanides (U-4CR) was introduced. This one-pot reaction is accomplished just by mixing amines, carbonyl compounds, suitable acids and isocyanides. Most chemical reactions have their own ”scope and limitation”, whereas the U-4CR can convert almost all combinations of educts into their products. Until 1995 this chemistry was moderately used, but since then a new era of the U-4CR and its unions with further reactions have become increasingly popular, particularly as libraries. In industry this chemistry became one of its most often used methods of finding new desirable products. In contrast to most other areas of chemistry, isocyanide chemistry is not yet exhausted and still much progress can be expected there.
LncRNAnet: long non-coding RNA identification using deep learning (2018)

Data and codes are available in http://data.snu.ac.kr/pub/lncRNAnet.