gebhart/patrepeval huggingface dataset:
Laser, optical, and thermomechanical properties of Yb-doped fluorapatite (1994)

The laser performance of Yb-doped fluorapatite (Ca/sub 5/(PO/sub 4/)/sub 3/F or FAP), is assessed by employing a Ti:sapphire laser operating at 905 nm as the pump source. We have measured slope efficiencies to be as high as 79%; the residual decrement from the quantum defect-limited efficiency of 87% is accounted for by the presence of passive loss at the 1043-nm laser wavelength. The important spectral properties of Yb:FAP were evaluated, including the absorption and emission cross sections, excited-state lifetime, and ground-state energy-level splitting. The emission and absorption cross sections of Yb/sup +3/ in FAP are found to be substantially larger than those of other Yb-doped media. The thermal, physical, and optical properties of the FAP host are reported as well.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
SAV-V: Securing Anti-Virus with Virtualization (2007)

Today’s desktop PCs rely on security software such as anti-v irus products and personal firewalls for protection. Unfortunately, malware authors have adapted by specifically targeting and disabling these defenses, a practice exacerbated by the rise in zero-day exploits. In this paper, we present the design, implementation, and evaluation of SAV-V, a platform that enhances the detection capabilities of antivirus software. Our platform leverages virtualization to p reserve the integrity of AV software and to guarantee access to AV updates. SAV-V also uses secure logging and a split file system to preserve the fidelity of input to the AV program. Combined with our technique of fake shutdowns, these measures allow SAV-V to eventually detect any zero-day malware that writes to disk. Benchmarks of our prototype system suggest that SAV-V can be implemented efficiently, an d we validate our prototype by testing it against real-world malware.
Identification of a Continuous Neutralizing Epitope within UL128 of Human Cytomegalovirus (2017)

As human cytomegalovirus (HCMV) is the most common infectious cause of fetal anomalies during pregnancy, development of a vaccine that prevents HCMV infection is considered a global health priority. Although HCMV immune correlates of protection are only poorly defined, neutralizing antibodies (NAb) targeting the envelope pentamer complex (PC) composed of the subunits gH, gL, UL128, UL130, and UL131A are thought to contribute to the prevention of HCMV infection. Here, we describe a continuous target sequence within UL128 that is recognized by a previously isolated potent PC-specific NAb termed 13B5. By using peptide-based scanning procedures, we identified a 13-amino-acid-long target sequence at the UL128 C terminus that binds the 13B5 antibody with an affinity similar to that of the purified PC. In addition, the 13B5 binding site is universally conserved in HCMV, contains a previously described UL128/gL interaction site, and interferes with the 13B5 neutralizing function, indicating that the 13B5 epitope sequence is located within the PC at a site of critical importance for HCMV neutralization. Vaccination of mice with peptides containing the 13B5 target sequence resulted in the robust stimulation of binding antibodies and, in a subset of immunized animals, in the induction of detectable NAb, supporting that the identified 13B5 target sequence constitutes a PC-specific neutralizing epitope. These findings provide evidence for the discovery of a continuous neutralizing epitope within the UL128 subunit of the PC that could be an important target of humoral immune responses that are involved in protection against congenital HCMV infection.<b>IMPORTANCE</b> Neutralizing antibodies (NAb) targeting the human cytomegalovirus (HCMV) envelope pentamer complex (PC) are thought to be important for preventing HCMV transmission from the mother to the fetus, thereby mitigating severe developmental disabilities in newborns. However, the epitope sequences within the PC that are recognized by these potentially protective antibody responses are only poorly defined. Here, we provide evidence for the existence of a highly conserved, continuous, PC-specific epitope sequence that appears to be located within the PC at a subunit interaction site of critical importance for HCMV neutralization. These discoveries provide insights into a continuous PC-specific neutralizing epitope, which could be an important target for a vaccine formulation to interfere with congenital HCMV infection.
Topical Administration of Bosentan Prevents Retinal Neurodegeneration in Experimental Diabetes (2018)

Experimental evidence suggests that endothelin 1 (ET-1) is involved in the development of retinal microvascular abnormalities induced by diabetes. The effects of ET-1 are mediated by endothelin A- and B-receptors (ETA and ETB). Endothelin B-receptors activation mediates retinal neurodegeneration but there are no data regarding the effectiveness of ETB receptor blockage in arresting retinal neurodegeneration induced by diabetes. The main aim of the present study was to assess the usefulness of topical administration of bosentan (a dual endothelin receptor antagonist) in preventing retinal neurodegeneration in diabetic (db/db) mice. For this purpose, db/db mice aged 10 weeks were treated with one drop of bosentan (5 mg/mL, <i>n</i> = 6) or vehicle (<i>n</i> = 6) administered twice daily for 14 days. Six non-diabetic (db/+) mice matched by age were included as the control group. Glial activation was evaluated by immunofluorescence using specific antibodies against glial fibrillary acidic protein (GFAP). Apoptosis was assessed by TUNEL method. A pharmacokinetic study was performed in rabbits. We found that topical administration of bosentan resulted in a significant decrease of reactive gliosis and apoptosis. The results of the pharmacokinetic study suggested that bosentan reached the retina through the trans-scleral route. We conclude that topical administration of bosentan was effective in preventing neurodegeneration in the diabetic retina and, therefore, could be a good candidate to be tested in clinical trials.
Immunogenicity of Plant-Produced Human Papillomavirus (HPV) Virus-Like Particles (VLPs) (2020)

Cervical cancer is ranked fourth among the top cancers in women and is the second most common cancer in low- and middle-income regions, with ~570,000 new cases reported in 2018, which attributed to 84% of worldwide cervical cancer cases. Three commercially available prophylactic Human papillomavirus (HPV) vaccines are effective at preventing HPV infections. However, these vaccines are expensive due to their complex production systems, therefore limiting their use in developing countries. Recently, the use of plants to produce vaccines has emerged as a cost-effective alternative to conventionally used expression systems. Here, L1 proteins of eight high-risk (HPV 16, 18, 31, 33, 35, 45, 52, and 58) and two low risk (HPV 6 and 34) HPV types were successfully expressed in <i>Nicotiana benthamiana,</i> and transmission electron microscopy (TEM) analysis showed the presence of VLPs and/or capsomeres. Immunogenicity studies were conducted in mice utilizing HPV 35, 52, and 58 and showed that type-specific L1-specific antibodies were produced which were able to successfully neutralize homologous HPV pseudovirions in pseudovirion-based neutralization assays (PBNAs). This work demonstrated the potential for using plant-based transient expression systems to produce affordable and immunogenic HPV vaccines, particularly for developing countries.
Transcription factor p63 controls the reserve status but not the stemness of horizontal basal cells in the olfactory epithelium (2015)

Adult tissue stem cells can serve two broad functions: to participate actively in the maintenance and regeneration of a tissue or to wait in reserve and participate only when activated from a dormant state. The adult olfactory epithelium, a site for ongoing, life-long, robust neurogenesis, contains both of these functional stem cell types. Globose basal cells (GBCs) act as the active stem cell population and can give rise to all the differentiated cells found in the normal tissue. Horizontal basal cells (HBCs) act as reserve stem cells and remain dormant unless activated by tissue injury. Here we show that HBC activation following injury by the olfactotoxic gas methyl bromide is coincident with the down-regulation of protein 63 (p63) but anticipates HBC proliferation. Gain- and loss-of-function studies show that this down-regulation of p63 is necessary and sufficient for HBC activation. Moreover, activated HBCs give rise to GBCs that persist for months and continue to act as bona fide stem cells by participating in tissue maintenance and regeneration over the long term. Our analysis provides mechanistic insight into the dynamics between tissue stem cell subtypes and demonstrates that p63 regulates the reserve state but not the stem cell status of HBCs.
‘Living’ and controlled radical polymerization (1995)

Abstract Radical polymerizations cannot truly be ‘living’ because of the inevitable termination between growing radicals. However, relatively good control of molecular weights, polydispersities and terminal functionalities can be achieved by using either unimolecular or bimolecular exchange between growing radicals and dormant chains. The dormant chains can be in the form of either covalent species or organometallic compounds. Some systems based on alkoxyamines, organochromium compounds, organoaluminum compounds and alkyl iodides were studied and are discussed in detail.
The design and testing of a dual fiber textile matrix for accelerating surface hemostasis (2009)

The standard treatment for severe traumatic injury is frequently compression and application of gauze dressing to the site of hemorrhage. However, while able to rapidly absorb pools of shed blood, gauze fails to provide strong surface (topical) hemostasis. The result can be excess hemorrhage-related morbidity and mortality. We hypothesized that cost-effective materials (based on widespread availability of bulk fibers for other commercial uses) could be designed based on fundamental hemostatic principles to partially emulate the wicking properties of gauze while concurrently stimulating superior hemostasis. A panel of readily available textile fibers was screened for the ability to activate platelets and the intrinsic coagulation cascade in vitro. Type E continuous filament glass and a specialty rayon fiber were identified from the material panel as accelerators of hemostatic reactions and were custom woven to produce a dual fiber textile bandage. The glass component strongly activated platelets while the specialty rayon agglutinated red blood cells. In comparison with gauze in vitro, the dual fiber textile significantly enhanced the rate of thrombin generation, clot generation as measured by thromboelastography, adhesive protein adsorption and cellular attachment and activation. These results indicate that hemostatic textiles can be designed that mimic gauze in form but surpass gauze in ability to accelerate hemostatic reactions.
A multi-center study on the regenerative effects of erythropoietin in burn and scalding injuries: study protocol for a randomized controlled trial (2013)

Although it was initially assumed that erythropoietin (EPO) was a hormone that only affected erythropoiesis, it has now been proposed that EPO plays an additional key role in the regulation of acute and chronic tissue damage. Via the inhibition of inflammatory reactions and of apoptosis, stem cell recruitment, advancement of angiogenesis and growth factor release, EPO enhances healing and thus restitutio ad integrum after trauma. Human skin contains EPO receptors and is able to synthesize EPO. We therefore hypothesize that EPO is able to optimize wound healing in thermally injured patients. This is a large, prospective, randomized, double-blind, multi-center study, funded by the German Federal Ministry of Education and Research, and fully approved by the designated ethics committee. The trial, which is to investigate the effects of EPO in severely burned patients, is in its recruitment phase and is being carried out in 13 German burn care centers. A total of 150 patients are to be enrolled to receive study medication every other day for 21 days (EPO 150 IU/kg body weight or placebo). A follow-up of one year is planned. The primary endpoint of this study is the time until complete re-epithelialization of a defined skin graft donor site is reached. Furthermore, clinical parameters such as wound healing, scar formation (using the Vancouver scar scale), laboratory values, quality of life (SF-36), angiogenic effects, and gene- and protein-expression patterns are to be determined. The results will be carefully evaluated for gender differences. We are seeking new insights into the mechanisms of wound healing in thermally injured patients and more detailed information about the role EPO plays, specifically in these complex interactions. We additionally expect that the biomimetic effects of EPO will be useful in the treatment of acute thermal dermal injuries. EudraCT Number: 2006-002886-38, Protocol Number: 0506, ISRCT Number: http://controlled-trials.com/ISRCTN95777824/ISRCTN95777824 .
Directed evolution of CRISPR-Cas9 to increase its specificity (2018)

The use of CRISPR-Cas9 as a therapeutic reagent is hampered by its off-target effects. Although rationally designed S. pyogenes Cas9 (SpCas9) variants that display higher specificities than the wild-type SpCas9 protein are available, these attenuated Cas9 variants are often poorly efficient in human cells. Here, we develop a directed evolution approach in E. coli to obtain Sniper-Cas9, which shows high specificities without killing on-target activities in human cells. Unlike other engineered Cas9 variants, Sniper-Cas9 shows WT-level on-target activities with extended or truncated sgRNAs with further reduced off-target activities and works well in a preassembled ribonucleoprotein (RNP) format to allow DNA-free genome editing.
Monoclonal antibody against adult marrow‐derived mesenchymal stem cells recognizes developing vasculature in embryonic human skin (1998)

We have described previously a monoclonal antibody (SH2) that specifically recognizes undifferentiated mesenchymal progenitor cells isolated from adult human bone marrow. These cells, which we operationally refer to as mesenchymal stem cells, have the capacity to differentiate and form distinct mesenchymal tissues such as bone and cartilage when the isolated cells are placed in the appropriate in vivo or in vitro environment. We report here the partial biochemical characterization of the antigen recognized by the SH2 antibody. Metabolically radiolabelled adult marrow-derived mesenchymal stem cells in culture were extracted and immunoprecipitated with the SH2 antibody. The purified antigen migrated as a single band of 90 kDa after sodium dodecyl sulfate polyacrylamide gel electrophoresis was performed under reducing conditions. The SH2-immunoprecipitated protein exhibited a molecular weight band shift after removal of N-linked oligosaccharides. We investigated the expression of the SH2 antigen, along with the endothelial markers factor VIII–related antigen and Ulex europaeus I (UEA-I) lectin during specific developmental periods in human dermal embryogenesis and in the postnatal period through aged adults. Frozen sections of human embryonic, fetal, or postnatal skin ranging from 8 weeks estimated gestational age (EGA) through 84 years of age were immunostained or double immunolabelled with antibodies SH2, UEA-I, or factor VIII–related antigen followed by second antibodies with fluorescent markers. Positive cell surface reactivity with the SH2 antibody was seen in cells in the vascular plane in the earliest specimens (day 55 EGA) corresponding to the late cellular dermis period. During the period of the cellular to fibrous transition, in which the initiation of appendage development occurs, most SH2-reactive cells colocalized with vasculature markers UEA-I and factor VIII–related antigen, although there was a subset of cells recognized by SH2 antibody that did not colocalize with the endothelial markers. In contrast to the endothelial markers UEA-I and factor VIII–related antigen, in which the number of immunopositive cells became more prominent with age and maturation of the dermis, the frequency of cells that contained the SH2-reactive antigen diminished with age. The SH2 reactivity evident in embryonic, fetal, and early postnatal periods was not observed in human skin specimens taken from adults greater than 30 years old. These observations support the hypothesis that the SH2 antigen is a cell surface marker of developing microvasculature and may play a role in dermal embryogenesis and angiogenesis. Dev. Dyn. 1998;212:119–132. © 1998 Wiley-Liss, Inc.
Efficient state space exploration: Interleaving stateless and state-based model checking (2010)

State-based model checking methods comprise computing and storing reachable states, while stateless model checking methods directly reason about reachable paths using decision procedures, thereby avoiding computing and storing the reachable states. Typically, state-based methods involve memory-intensive operations, while stateless methods involve time-intensive operations. We propose a divide-and-conquer strategy to combine the complementary strengths of these methods for efficient verification of embedded software. Specifically, our model checking engine uses both state decomposition and state prioritization to guide the combination of a Presburger arithmetic based symbolic traversal algorithm (state-based) and an SMT based bounded model checking algorithm (stateless). These two underlying algorithms are interleaved-based on memory/time bounds and dynamic task partitioning-in order to systematically explore the state space and to avoid storing the entire reachable state set. We have implemented our new method in a tightly integrated verification tool called HMC (Hybrid Model Checker). We demonstrate the efficacy of the proposed method on some industry examples.
Multiple Sensor Array of Mn<sup>2+</sup>, Fe<sup>2+</sup>, Co<sup>2+</sup>, Ni<sup>2+</sup>, Cu<sup>2+</sup>, and Zn<sup>2+</sup> Complexes of a Triazole Linked Imino-Phenol Based Calix[4]arene Conjugate for the Selective Recognition of Asp, Glu, Cys, and His (2012)

The triazole linked o-imino phenol appended calix[4]arene conjugate (L) has been synthesized and characterized. The structure of L has been established based on single crystal XRD. The binding and recognition behavior of conjugate, L toward the transition metal ions, such as Mn(2+), Fe(2+), Co(2+), Ni(2+), Cu(2+), and Zn(2+), has been demonstrated using fluorescence, absorption and ESI-MS techniques. The in situ prepared complexes of these metal ions, namely, [Mn(2)L], [Fe(2)L], [Co(2)L], [Ni(2)L], [Cu(2)L], and [Zn(2)L] have shown recognition toward Glu, Asp, His and Cys. Hence L provides a multiple sensing molecular tool where the response for the recognition of biologically active amino acids of metalloproteins is elicited by the presence of specific metal ion.
Kinetic Assessment of <i>N</i>-Methyl-2-methoxypyridinium Species as Phosphonate Anion Methylating Agents (2013)

Organophosphate nerve agents and pesticides are potent inhibitors of acetylcholinesterase (AChE). Although oxime nucleophiles can reactivate the AChE-phosphyl adduct, the adduct undergoes a reaction called aging. No compounds have been described that reactivate the aged-AChE adduct. A family of 2-methoxypyridinium species which reverse aging in a model system is presented. A kinetic study of this system, which includes an SAR analysis, demonstrates that the reaction is highly tunable based on the ring substituents.
Technology-independent table-based diode model for rectenna design in RF energy harvesting (2012)

A novel non-quasi-static table-based diode model has been built for applications involving wireless power transmission. This model is technology-independent and is suitable for different diodes. Without complicated curve fitting and de-embedding process, this model is directly generated from S-parameters and DC measurements. A new way to deal with DC characteristic is presented. Excellent fitness is achieved at both AC and DC fields as a result. This large-signal model is used in Agilent ADS software. Simulated and measured efficiency results of a rectenna prove the accuracy of the model.
High-Power Magnetically Actuated Microswitches Fabricated in Laminates (2012)

We report on a microelectromechanical magnetic dc switch that operates at low control voltage (3 V), magnetically latches at on/off stage, and switches large voltages and currents, both dc and ac, in under 3 ms. The device, which measures 3 mm × 3 mm fully packaged, has been measured to handle 0.97 A at 10.6 Vdc (10.2 W) and 15 W at 110 Vac. This represents a remarkable power-handling capability for such a small device, which is almost impossible to achieve in conventional microelectromechanical system devices. The device is constructed using laminate MEMS technology, which is fully compatible with large-scale manufacturing by advanced microelectronics packaging manufacturers. This device has important applications in electronic switching applications for dc circuits, ac circuits, and, potentially, for RF circuits.
UniLMv2: Pseudo-Masked Language Models for Unified Language Model Pre-Training (2020)

We propose to pre-train a unified language model for both autoencoding and partially autoregressive language modeling tasks using a novel training procedure, referred to as a pseudo-masked language model (PMLM). Given an input text with masked tokens, we rely on conventional masks to learn inter-relations between corrupted tokens and context via autoencoding, and pseudo masks to learn intra-relations between masked spans via partially autoregressive modeling. With well-designed position embeddings and self-attention masks, the context encodings are reused to avoid redundant computation. Moreover, conventional masks used for autoencoding provide global masking information, so that all the position embeddings are accessible in partially autoregressive language modeling. In addition, the two tasks pre-train a unified language model as a bidirectional encoder and a sequence-to-sequence decoder, respectively. Our experiments show that the unified language models pre-trained using PMLM achieve new state-of-the-art results on a wide range of natural language understanding and generation tasks across several widely used benchmarks.
Why cutting strength is an indicator of fatigue threshold (2019)

Crack tip fields during cutting and tensile loading have been computed via finite element analysis, and measured using Digital Image Correlation during experiments executed on the Coesfeld Intrinsic Strength Analyser. The results show that cutting with a sharp blade while the specimen is under a small amount of tension produces a much-reduced dissipative process zone in front of the crack tip, in comparison with the process zone produced by tensile loading alone (no blade) at nominally similar conditions. Because the energy released by a growing crack supplies both the process of breaking polymer chains to form crack faces, and the dissipative process at the crack tip, minimizing crack tip dissipation causes the observed remaining energy release rate during a cutting experiment to approach the limit reflecting the breakage of polymer chains. Conveniently, this implies that a relatively brief cutting experiment may be used as an indicator of long-term fatigue behavior. The continuum-based analysis provided here offers an interpretation of cutting experiments that does not depend upon arguments about polymer chain details, and that is complementary to classical molecular theories about the origins of the threshold effect.