gebhart/patrepeval huggingface dataset:
Passively transferred monoclonal antibody to the M2 protein inhibits influenza A virus replication in mice (1990)

The M2 protein of influenza A virus is expressed on the surfaces of infected cells, and a monoclonal antibody to this protein inhibits plaque enlargement of sensitive influenza A viruses without reducing plaque titer (S.L. Zebedee and R.A. Lamb, J. Virol. 62:2762-2772, 1988). In the current study, passively transferred monoclonal antibody to M2 reduced the level of replication of influenza A virus but not of influenza B virus in the lungs of mice. These experiments demonstrated that antibody to a protein conserved among influenza A virus subtypes inhibits virus growth in vivo.
Atomic layer deposition of Al2O3 on V2O5 xerogel film for enhanced lithium-ion intercalation stability (2011)

V2O5 xerogel films were fabricated by casting V2O5 sols onto fluorine-doped tin oxide glass substrates at room temperature. Five, ten and twenty atomic layers of Al2O3 were grown onto as-fabricated films respectively. The bare film and Al2O3-deposited films all exhibited hydrous V2O5 phase only. Electrochemical impedance spectroscopy study revealed increased surface charge-transfer resistance of V2O5 films as more Al2O3 atomic layers were deposited. Lithium-ion intercalation tests at 600 mAg−1 showed that bare V2O5 xerogel film possessed high initial discharge capacity of 219 mAhg−1 but suffered from severe capacity degradation, i.e., having only 136 mAhg−1 after 50 cycles. After deposition of ten atomic layers of Al2O3, the initial discharge capacity was 195 mAhg−1 but increased over cycles before stabilizing; after 50 cycles, the discharge capacity was as high as 225 mAhg−1. The noticeably improved cyclic stability of Al2O3-deposited V2O5 xerogel film could be attributed to the improved surface chemistry and enhanced mechanical strength. During repeated lithium-ion intercalation/de-intercalation, atomic layers of Al2O3 which were coated onto V2O5 surface could prevent V2O5 electrode dissolution into electrolyte by reducing direct contact between active electrode and electrolyte while at the same time acting as binder to maintain good mechanical contact between nanoparticles inside the film.
A Generic Deformation Model for Dense Non-rigid Surface Registration: A Higher-Order MRF-Based Approach (2013)

We propose a novel approach for dense non-rigid 3D surface registration, which brings together Riemannian geometry and graphical models. To this end, we first introduce a generic deformation model, called Canonical Distortion Coefficients (CDCs), by characterizing the deformation of every point on a surface using the distortions along its two principle directions. This model subsumes the deformation groups commonly used in surface registration such as isometry and conformality, and is able to handle more complex deformations. We also derive its discrete counterpart which can be computed very efficiently in a closed form. Based on these, we introduce a higher-order Markov Random Field (MRF) model which seamlessly integrates our deformation model and a geometry/texture similarity metric. Then we jointly establish the optimal correspondences for all the points via maximum a posteriori (MAP) inference. Moreover, we develop a parallel optimization algorithm to efficiently perform the inference for the proposed higher-order MRF model. The resulting registration algorithm outperforms state-of-the-art methods in both dense non-rigid 3D surface registration and tracking.
Facile and Efficient Guanylation of Amines Using Thioureas and Mukaiyama's Reagent (1997)

ADVERTISEMENT RETURN TO ISSUEPREVNoteNEXTFacile and Efficient Guanylation of Amines Using Thioureas and Mukaiyama's ReagentYaw Fui Yong, Jennifer A. Kowalski, and Mark A. LiptonView Author Information Department of Chemistry, Purdue University, West Lafayette, Indiana 47907 Cite this: J. Org. Chem. 1997, 62, 5, 1540–1542Publication Date (Web):March 7, 1997Publication History Received25 November 1996Published online7 March 1997Published inissue 1 March 1997https://pubs.acs.org/doi/10.1021/jo962196khttps://doi.org/10.1021/jo962196kbrief-reportACS PublicationsCopyright © 1997 American Chemical SocietyRequest reuse permissionsArticle Views3437Altmetric-Citations162LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose SUBJECTS:Amines,Anions,Chemical reactions,Reagents,Solvents Get e-Alerts
NanA, a Neuraminidase fromStreptococcus pneumoniae, Shows High Levels of Sequence Diversity, at Least in Part through Recombination withStreptococcus oralis (2005)

Streptococcus pneumoniae, an important human pathogen, contains at least two genes, nanA and nanB, that express sialidase activity. NanA is a virulence determinant of pneumococci which is important in animal models of colonization and middle ear infections. The gene encoding NanA was detected in all 106 pneumococcal strains screened that represented 59 restriction profiles. Sequencing confirmed a high level of diversity, up to 17.2% at the nucleotide level and 14.8% at the amino acid level. NanA diversity is due to a number of mechanisms including insertions, point mutations, and recombination generating mosaic genes. The level of nucleotide divergence for each recombinant block is greater than 30% and much higher than the 20% identified within mosaic pbp genes, suggesting that a high selective pressure exists for these alterations. These data indicate that at least one of the four recombinant blocks identified originated from a Streptococcus oralis isolate, demonstrating for the first time that protein virulence determinants of pneumococci have, as identified previously for genes encoding penicillin binding proteins, evolved by recombination with oral streptococci. No amino acid alterations were identified within the aspartic boxes or predicted active site, suggesting that sequence variation may be important in evading the adaptive immune response. Furthermore, this suggests that nanA is an important target of the immune system in the interaction between the pneumococcus and host.
RASSF2, a potential tumour suppressor, is silenced by CpG island hypermethylation in gastric cancer (2005)

RASSF2, a member of the RASSF1 family, has recently been identified as a potential tumour suppressor. We examined methylation status in multiple regions which included the CpG island and spanned the transcription start site of RASSF2 in 10 gastric cancer cell lines, as well as 78 primary gastric cancers and corresponding non-neoplastic gastric epithelia. Hypermethylation of RASSF2 in at least one of the regions examined was detected in seven (70%) of the 10 cell lines; two (20%) exhibited hypermethylation in all the regions examined including the transcription start site and lost expression of RASSF2 mRNA, which could, however, be restored by 5-aza-2' deoxycytidine treatment, while the other five (50%) cell lines exhibited hypermethylation at the 5'- and/or 3'- edge, with four of them expressing RASSF2 mRNA. In primary gastric cancers and corresponding non-neoplastic gastric epithelia, frequencies of RASSF2 methylation ranged from 29% (23 out of 78) to 79% (62 out of 78) and 3% (two out of 78) to 60% (47 out of 78), respectively, at different CpG sites examined. Methylation was frequently observed at the 5'- and 3'- edges, and became less frequent near the transcription start site in both the primary gastric cancers and corresponding non-neoplastic gastric epithelia. Hypermethylation near the transcription start site was mostly cancer-specific. We thus showed that RASSF2 is silenced by hypermethylation near the transcription start site in gastric cancer. Hypermethylation was found initially to occur at the 5'- and 3'- furthest regions of the CpG island in non-neoplastic gastric epithelia, to gradually spreads near the transcription start site to shut down RASSF2 expression, and ultimately to constitute a field-defect placing tissue increased risk for development of gastric cancer.
Effects of low-intensity pulsed ultrasound on osteosarcoma and cancer cells (2012)

Metastatic bone tumors cause pain and pathological fractures due to bone destruction. If we could enhance new osteogenic activities and prevent progression of osteolytic change by malignant cells, patients could achieve satisfactory activity of daily living. Low-intensity pulsed ultrasound (LIPUS), which leads to bone formation by osteoblasts, has been used for the treatment of fractures. LIPUS has been reported to enhance the effect of an anticancer drug on lymphoma and liver cancer cells. However, there have been no reports of proliferation, vascularization and migration effects on cancer cells. In this study, we investigated the effects of LIPUS treatment on cancer and osteosarcoma cells and specifically whether it promotes bone formation without accelerating proliferation of tumor cells. We used MC3T3-E1 cells, a mouse osteoblast cell line, LM8, a mouse osteosarcoma cell line, SaOS2, a human osteosarcoma cell line, 786-O, a human renal cancer cell line, PC-3, a human prostate cancer cell line, and A549, a human lung cancer cell line. The expression of extracellular signal-regulated kinase (ERK1/2), Akt, β-catenin, vascular endothelial growth factor (VEGF), and cell migration were analyzed. LIPUS stimulation did not affect proliferation of all the cells examined. The phosphorylation of ERK1/2 and Akt was induced by LIPUS stimulation in MC3T3-E1, LM8, SaOS2 and A549 cells, but not in PC-3 and 786-O cells. LIPUS stimulation did not significantly increase β-catenin. VEGF protein levels and cell migration were significantly increased only in MC3T3-E1 cells. It may be concluded that LIPUS stimulation on metastatic bone tumors induces differentiation of osteoblasts without proliferation of tumor cells. Our study suggests that LIPUS may be a new method of treatment without surgery for metastatic bone tumors.
A Framework for Linking Cybersecurity Metrics to the Modeling of Macroeconomic Interdependencies (2007)

Hierarchical decision making is a multidimensional process involving management of multiple objectives (with associated metrics and tradeoffs in terms of costs, benefits, and risks), which span various levels of a large-scale system. The nation is a hierarchical system as it consists multiple classes of decisionmakers and stakeholders ranging from national policymakers to operators of specific critical infrastructure subsystems. Critical infrastructures (e.g., transportation, telecommunications, power, banking, etc.) are highly complex and interconnected. These interconnections take the form of flows of information, shared security, and physical flows of commodities, among others. In recent years, economic and infrastructure sectors have become increasingly dependent on networked information systems for efficient operations and timely delivery of products and services. In order to ensure the stability, sustainability, and operability of our critical economic and infrastructure sectors, it is imperative to understand their inherent physical and economic linkages, in addition to their cyber interdependencies. An interdependency model based on a transformation of the Leontief input-output (I-O) model can be used for modeling: (1) the steady-state economic effects triggered by a consumption shift in a given sector (or set of sectors); and (2) the resulting ripple effects to other sectors. The inoperability metric is calculated for each sector; this is achieved by converting the economic impact (typically in monetary units) into a percentage value relative to the size of the sector. Disruptive events such as terrorist attacks, natural disasters, and large-scale accidents have historically shown cascading effects on both consumption and production. Hence, a dynamic model extension is necessary to demonstrate the interplay between combined demand and supply effects. The result is a foundational framework for modeling cybersecurity scenarios for the oil and gas sector. A hypothetical case study examines a cyber attack that causes a 5-week shortfall in the crude oil supply in the Gulf Coast area.
Sensor fusion for human safety in industrial workcells (2012)

Current manufacturing practices require complete physical separation between people and active industrial robots. These precautions ensure safety, but are inefficient in terms of time and resources, and place limits on the types of tasks that can be performed. In this paper, we present a real-time, sensor-based approach for ensuring the safety of people in close proximity to robots in an industrial workcell. Our approach fuses data from multiple 3D imaging sensors of different modalities into a volumetric evidence grid and segments the volume into regions corresponding to background, robots, and people. Surrounding each robot is a danger zone that dynamically updates according to the robot's position and trajectory. Similarly, surrounding each person is a dynamically updated safety zone. A collision between danger and safety zones indicates an impending actual collision, and the affected robot is stopped until the problem is resolved. We demonstrate and experimentally evaluate the concept in a prototype industrial workcell augmented with stereo and range cameras.
Transgenic Animal Models for Alzheimer's Diseasea (1993)

The neuropathology of Alzheimer's disease is characterized by the deposition of abnormal protein aggregates. The main constituent of the deposition is beta-amyloid protein. A seminal role of this protein is supported by the discovery of point mutations in the gene of its precursor protein in certain forms of familial Alzheimer's disease. In vitro (cultured neuronal cells), overexpression of the precursor protein or a part of the precursor leads to degeneration of neurons, suggesting neurotoxicity of its derivatives. At this time, all of the reported transgenic mice bearing DNA construct for the precursor or a part of the precursor, however, have not developed convincing pathological changes similar to what is observed in patients with Alzheimer's disease. This interesting discrepancy between in vitro and in vivo suggests suppressors in vivo which ameliorate beta-amyloid precursor protein derivative-mediated neurotoxicity.
Current topics in plant biochemistry and physiology: Volume 6 (1987)

These proceedings represent papers presented at the Sixth Annual Plant Biochemistry and Physiology Symposium held at the University of Missouri-Columbia, April 1-3, 1987 and hosted by the Interdisciplinary Plant Biochemistry and Physiology Group. The Interdisciplinary Plant Group was organized to facilitate research and training through interdisciplinary and cooperative approaches to problems facing Plant Biochemistry and Physiology. This annual Symposium is a means of maintaining an awareness of the advances in pertinent research areas.
Intrinsic stress and stress gradients at the SiO2/Si interface in structures prepared by thermal oxidation of Si and subjected to rapid thermal annealing (1989)

This paper reports on a study of the intrinsic stress and strain in thin films of SiO2 prepared by the thermal oxidation of crystalline silicon. We focus on the relationship between the inhomogeneity of thin-film properties and the thermal history of the oxide film, including both film growth and thermal annealing. We show that this film can be inhomogeneous in the sense that oxide formed initially at the silicon–silicon dioxide (Si/SiO2) interface has been annealed at the growth temperature for the time required for film growth, whereas newly formed oxide at the growth interface has not been annealed for any appreciable period. We demonstrate that thermal annealing cannot completely remove the thickness dependence in the strain induced by the mismatch between the molar volumes of silicon and silicon dioxide at the growth interface, subject to constraints introduced by the chemical bonding structure at that interface. Based on laser-beam deflection and photoreflectance measurements, we show that there is alway a substantial residual intrinsic interfacial stress, and that is independent of the growth temperature, and thermal annealing. A time scale for describing thermal relaxation of stress and strain profiles is given by the ratio of process time to the viscoelastic relaxation time at the processing temperatures.
A comparison of software and hardware techniques for x86 virtualization (2006)

Until recently, the x86 architecture has not permitted classical trap-and-emulate virtualization. Virtual Machine Monitors for x86, such as VMware ® Workstation and Virtual PC, have instead used binary translation of the guest kernel code. However, both Intel and AMD have now introduced architectural extensions to support classical virtualization.We compare an existing software VMM with a new VMM designed for the emerging hardware support. Surprisingly, the hardware VMM often suffers lower performance than the pure software VMM. To determine why, we study architecture-level events such as page table updates, context switches and I/O, and find their costs vastly different among native, software VMM and hardware VMM execution.We find that the hardware support fails to provide an unambiguous performance advantage for two primary reasons: first, it offers no support for MMU virtualization; second, it fails to co-exist with existing software techniques for MMU virtualization. We look ahead to emerging techniques for addressing this MMU virtualization problem in the context of hardware-assisted virtualization.
Molecular Characterization and Expression of Heparan-sulfate 6-Sulfotransferase (1998)

Heparan-sulfate 6-sulfotransferase (HS6ST) catalyzes the transfer of sulfate from 3'-phosphoadenosine 5'-phosphosulfate to position 6 of the N-sulfoglucosamine residue of heparan sulfate. The enzyme was purified to apparent homogeneity from the serum-free culture medium of Chinese hamster ovary (CHO) cells (Habuchi, H., Habuchi, O., and Kimata, K. (1995) J. Biol Chem. 270, 4172-4179). From the amino acid sequence data of the purified enzyme, degenerate oligonucleotides were designed and used as primers for the reverse transcriptase-polymerase chain reaction using poly(A)+ RNA from CHO cells as a template. The amplified cDNA fragment was then used as a probe to screen a cDNA library of CHO cells. The cDNA clone thus obtained encoded a partial peptide sequence composed of 236 amino acid residues that included the sequences of six peptides obtained after endoproteinase digestion of the purified enzyme. This cDNA clone was applied to the screening of a human fetal brain cDNA library by cross-hybridization. The isolated cDNA clones contained a whole open reading frame that predicts a type II transmembrane protein composed of 401 amino acid residues. No significant amino acid sequence identity to any other proteins, including heparan-sulfate 2-sulfotransferases, was observed. When the cDNA for the entire coding sequence of the protein was inserted into a eukaryotic expression vector and transfected into COS-7 cells, the HS6ST activity increased 7-fold over the control. The FLAG fusion protein purified by anti-FLAG affinity chromatography showed the HS6ST activity alone. Northern blot analysis revealed the occurrence of a single transcript of 3.9 kilobases in both human fetal brain and CHO cells. The results, together with the ones from our recent cDNA analysis of heparan-sulfate 2-sulfotransferase (Kobayashi, M., Habuchi, H., Yoneda, M., Habuchi, O., and Kimata, K. (1997) J. Biol. Chem. 272, 13980-13985), suggest that at least two different gene products are responsible for 6- and 2-O-sulfations of heparan sulfate.
Polymeric endoluminal gel paving: therapeutic hydrogel barriers and sustained drug delivery depots for local arterial wall biomanipulation. (1996)

Polymeric endoluminal paving is a process in which biodegradable polymers may be locally applied percutaneously to blood vessels as endoluminal liners, resurfacing or 'paving', the underlying vascular wall. Depending upon the type of polymer selected, endoluminal polymer layers may function as wall supports, barriers, therapeutic biomaterials or depots for local sustained drug delivery. In the original description of the paving process, that is solid paving, structural polymers were utilized. In this article a second form of paving--gel paving is described. In this process, hydrogel polymers are locally applied or polymerized on vascular endoluminal surfaces. Endoluminal hydrogel layers have been demonstrated to function as physical non-pharmacological barriers limiting cell and protein deposition and effectively reducing underlying arterial wall thrombogenicity. Hydrogel paving layers also provide a means for prolonged local arterial wall drug delivery. In this report an update on gel paving is provided. The overall process of polymeric endoluminal paving is initially reviewed. Gel paving and the rationale for this approach is described. Both thermoreversible as well as photopolymerizable PEG-lactide hydrogel paving systems are outlined. Recent experimental studies with gel paving examining polymer application, haemocompatability and endoluminal surface thromboprotection, effects on post-injury neointimal thickening and local drug delivery, are then reviewed. Finally, the role of gel paving in future approaches to vascular therapy is discussed.
A novel BH3 ligand that selectively targets Mcl-1 reveals that apoptosis can proceed without Mcl-1 degradation (2008)

Like Bcl-2, Mcl-1 is an important survival factor for many cancers, its expression contributing to chemoresistance and disease relapse. However, unlike other prosurvival Bcl-2-like proteins, Mcl-1 stability is acutely regulated. For example, the Bcl-2 homology 3 (BH3)-only protein Noxa, which preferentially binds to Mcl-1, also targets it for proteasomal degradation. In this paper, we describe the discovery and characterization of a novel BH3-like ligand derived from Bim, Bim(S)2A, which is highly selective for Mcl-1. Unlike Noxa, Bim(S)2A is unable to trigger Mcl-1 degradation, yet, like Noxa, Bim(S)2A promotes cell killing only when Bcl-x(L) is absent or neutralized. Furthermore, killing by endogenous Bim is not associated with Mcl-1 degradation. Thus, functional inactivation of Mcl-1 does not always require its elimination. Rather, it can be efficiently antagonized by a BH3-like ligand tightly engaging its binding groove, which is confirmed here with a structural study. Our data have important implications for the discovery of compounds that might kill cells whose survival depends on Mcl-1.