gebhart/patrepeval huggingface dataset:
Aggregating IaaS Service (2011)

Infrastructure-as-a-Service (IaaS) is the most acceptable Cloud Computing delivery model that CIO and IT managers are exploring as they relook at their IT infrastructure. However, the adoption of IaaS faces challenge/concerns such as provider lock-in, reliability, and regulatory compliance for data locality. Our project, Aggregated IaaS Service, addresses this issue by providing a common interface and description of IaaS services across multiple IaaS service provider. We had developed an abstraction model for Iaas services and then provide the interface to the commercial IaaS providers: AWS and GoGrid. The Aggregated IaaS services are exposed to the users through a portal which allow users to subscribe, monitor, and manage the life-cycle of IaaS services from multiple providers. To meet the requirements of the enterprise users the IaaS Aggregator portal have modules such as corporate account management and policy enforcement modules which transform it from a single client user to corporate/company usage of IaaS service from multiple providers.
Cooling catheter for spinal cord preservation in thoracic aortic surgery. (1993)

Effective topical cooling of the spinal cord can be achieved via a specially designed, self-contained cooling catheter placed into the intra-thecal space. This catheter holds promise for spinal cord protection in aortic surgery. Also, this catheter may be useful as well in mitigating injury to the spinal cord in cases of traumatic spinal column injury.
Design and Implementation of Embedded Printed Antenna Arrays in Small UAV Wing Structures (2010)

Unmanned aerial vehicles (UAV) are extensively being used in exploration, surveillance and military applications. Such vehicles often collect data via special sensors and send the data back to the central station via wireless links. Embedded in wing structure printed antennas will eliminate the drag due to friction, and allow for extended load capability due to their extra light weight. In this work we present the design and implementation of a 4-element linear antenna array embedded in a small UAV wing structure. The antenna array operates in the 2.4 GHz ISM band. Simulations and measurements that characterize the performance of the antenna array are presented. Field measurements show the impact of utilizing beam-forming in enhancing the communication link throughput.
Impact of Overlapping Functional Gastrointestinal Disorders on the Presentation and Quality of Life of Patients with Erosive Esophagitis and Nonerosive Reflux Disease (2015)

There was a high prevalence of overlapping FGID, with both FD and IBS, among the GERD patients. The individuals with overlapping GERD and FD had lower quality of life scores than those with GERD alone.
Synthesis of Chiral Sulfoxides by Metal-Catalyzed Oxidation with<i>t</i>-Butyl Hydroperoxide (1984)

Oxydation par l'hydroperoxyde de t-butyle, de (methyl p-tolyl), (t-butyl phenyl)-, (benzyl methyl) sulfures et de chloro-4' phenylthio-2 ethanol en presence de propanolate-2 de Ti(IV) et de tartrate de diethyle
Schottky Barriers and Coulomb Blockade in Self-Assembled Carbon Nanotube FETs (2003)

We report low-temperature electronic transport in batch-processed single-walled carbon nanotube (SWNT) field-effect transistors (FETs). SWNTs are in situ synthesized and wired between submicrometer metallic electrodes in a single-step process involving hot-filament-assisted chemical vapor deposition. FETs show a pronounced ambipolar field effect between 1 and 300 K. Moreover, the gate dependence exhibits hysteresis at any temperature because of the extraction and trapping of charges. We find Schottky barriers at the SWNT/metal contact to be responsible for the field effect. Below 30 K, potential barriers along the SWNT induce a Coulomb blockade at low drain-source bias, leading to the suppression of the field-effect gain and inducing fluctuations in the transconductance.
A component-based approach to reliability analysis of distributed systems (2003)

This paper proposes a reliability analysis technique for distributed software systems. The technique is based on scenarios that are modeled as sequence diagrams. Using scenarios, we construct component-dependency graphs (CDG). CDGs have been introduced for reliability analysis of component-based systems. They are extended to serve the complex nature of distributed systems by applying nesting and hierarchy. CDGs include component and link reliabilities, which are treated as first class elements of the model. Based on CDGs, we present an algorithm to analyze the sensitivity of system reliability to reliabilities of its components, subsystems, and links. The proposed analysis technique is useful in identifying critical components and critical component links. An example based on medical informatics standard is presented to illustrate our methodology.
Lysosomal cathepsins and their regulation in aging and neurodegeneration (2016)

Lysosomes and lysosomal hydrolases, including the cathepsins, have been shown to change their properties with aging brain a long time ago, although their function was not really understood. The first biochemical and clinical studies were followed by a major expansion in the last 20 years with the development of animal disease models and new approaches leading to a major advancement of understanding of the role of physiological and degenerative processes in the brain at the molecular level. This includes the understanding of the major role of autophagy and the cathepsins in a number of diseases, including its critical role in the neuronal ceroid lipofuscinosis. Similarly, cathepsins and some other lysosomal proteases were shown to have important roles in processing and/or degradation of several important neuronal proteins, thereby having either neuroprotective or harmful roles. In this review, we discuss lysosomal cathepsins and their regulation with the focus on cysteine cathepsins and their endogenous inhibitors, as well as their role in several neurodegenerative diseases.
Inhibition of Terminal Complement Components in Presensitized Transplant Recipients Prevents Antibody-Mediated Rejection Leading to Long-Term Graft Survival and Accommodation (2007)

Ab-mediated rejection (AMR) remains the primary obstacle in presensitized patients following organ transplantation, as it is refractory to anti-T cell therapy and can lead to early graft loss. Complement plays an important role in the process of AMR. In the present study, a murine model was designed to mimic AMR in presensitized patients. This model was used to evaluate the effect of blocking the fifth complement component (C5) with an anti-C5 mAb on prevention of graft rejection. BALB/c recipients were presensitized with C3H donor skin grafts 7 days before heart transplantation from the same donor strain. Heart grafts, transplanted when circulating anti-donor IgG Abs were at peak levels, were rejected in 3 days. Graft rejection was characterized by microvascular thrombosis and extensive deposition of Ab and complement in the grafts, consistent with AMR. Anti-C5 administration completely blocked terminal complement activity and local C5 deposition, and in combination with cyclosporine and short-term cyclophosphamide treatment, it effectively prevented heart graft rejection. These recipients achieved permanent graft survival for >100 days with normal histology despite the presence of systemic and intragraft anti-donor Abs and complement, suggesting ongoing accommodation. Furthermore, double-transplant experiments demonstrated that immunological alterations in both the graft and the recipient were required for successful graft accommodation to occur. These data suggest that terminal complement blockade with a functionally blocking Ab represents a promising therapeutic approach to prevent AMR in presensitized recipients.
Preliminary safety and pharmacodynamic (PD) activity of XmAb20717, a PD-1 x CTLA-4 bispecific antibody, in a phase I dose escalation study of patients with selected advanced solid tumors. (2020)

e15001 Background: Interim safety and PD data from an ongoing first-in-human, multi-center, open-label dose escalation study of XmAb20717 (XmAb20717-01; NCT03517488) are reported here. The primary objectives were to determine safety, tolerability, and the MTD and/or recommended doses (RDs). Secondary objectives included preliminary anti-tumor activity and PK/PD. Methods: A 3+3 dose escalation design was used to establish an MTD/RD(s) for infusions on Days 1 and 15 of each 28-day cycle. DLT evaluation was based on Cycle 1 through Day 28. Patients with selected solid tumors (in indications both with and without approved checkpoint therapy) who have exhausted standard of care are eligible. Results: As of 05FEB 2020, 34 patients were treated in cohorts 1-6 at fixed doses of 0.15 to 10 mg/kg. Patients had a median age of 57 years (range 32-81), a median time since initial diagnosis of 42 months (range 3 -313), and a median of 4 prior systemic therapies (range 0-9). 68% of patients had a TNM stage of III/IV, and 68% had been exposed to checkpoint therapy. XmAb20717 treatment was generally well tolerated through the highest dose cohort tested. Overall rates of Gr3/4 immune-related AEs occurred in 8 (24%) patients including elevations of transaminases 3 (9%), rash 2 (6%), lipase and amylase 1 (3%, without clinical symptoms or radiographic evidence of pancreatitis), lipase (alone) 1 (3%), pruritus 1 (3%), hyperglycaemia 1 (3%), arthritis 1 (3%) and colitis 1 (3%), all reversible. Responses were evaluated based on RECIST 1.1 criteria, and there was 1 CR reported (melanoma, progressed on prior pembrolizumab) at 10 mg/kg (highest dose level). Dose-dependent pharmacodynamic activity consistent with dual PD-1/CTLA-4 blockade was noted, namely a proliferative burst of both CD8 and CD4 T cells and induction of IFN-inducible chemokines (Table). Conclusions: XmAb20717 is generally safe and has demonstrated PD activity in heavily pretreated patients with selected advanced solid tumors. Dose escalation continues. Clinical trial information: NCT03517488 . [Table: see text]
The Crystal Structure of the Ribosome Bound to EF-Tu and Aminoacyl-tRNA (2009)

The ribosome selects a correct transfer RNA (tRNA) for each amino acid added to the polypeptide chain, as directed by messenger RNA. Aminoacyl-tRNA is delivered to the ribosome by elongation factor Tu (EF-Tu), which hydrolyzes guanosine triphosphate (GTP) and releases tRNA in response to codon recognition. The signaling pathway that leads to GTP hydrolysis upon codon recognition is critical to accurate decoding. Here we present the crystal structure of the ribosome complexed with EF-Tu and aminoacyl-tRNA, refined to 3.6 angstrom resolution. The structure reveals details of the tRNA distortion that allows aminoacyl-tRNA to interact simultaneously with the decoding center of the 30S subunit and EF-Tu at the factor binding site. A series of conformational changes in EF-Tu and aminoacyl-tRNA suggests a communication pathway between the decoding center and the guanosine triphosphatase center of EF-Tu.
Adaptation of <i>Mycobacterium smegmatis</i> to Stationary Phase (1999)

Mycobacterium tuberculosis can persist for many years within host lung tissue without causing clinical disease. Little is known about the state in which the bacilli survive, although it is frequently referred to as dormancy. Some evidence suggests that cells survive in nutrient-deprived stationary phase. Therefore, we are studying stationary-phase survival of Mycobacterium smegmatis as a model for mycobacterial persistence. M. smegmatis cultures could survive 650 days of either carbon, nitrogen, or phosphorus starvation. In carbon-limited medium, cells entered stationary phase before the carbon source (glycerol) had been completely depleted and glycerol uptake from the medium continued during the early stages of stationary phase. These results suggest that the cells are able to sense when the glycerol is approaching limiting concentrations and initiate a shutdown into stationary phase, which involves the uptake of the remaining glycerol from the medium. During early stationary phase, cells underwent reductive cell division and became more resistant to osmotic and acid stress and pool mRNA stabilized. Stationary-phase cells were also more resistant to oxidative stress, but this resistance was induced during late exponential phase in a cell-density-dependent manner. Upon recovery in fresh medium, stationary-phase cultures showed an immediate increase in protein synthesis irrespective of culture age. Colony morphology variants accumulated in stationary-phase cultures. A flat colony variant was seen in 75% of all long-term-stationary-phase cultures and frequently took over the whole population. Cryo scanning electron microscopy showed that the colony organization was different in flat colony strains, flat colonies appearing less well organized than wild-type colonies. Competition experiments with an exponential-phase-adapted wild-type strain showed that the flat strain had a competitive advantage in stationary phase, as well a providing evidence that growth and cell division occur in stationary-phase cultures of M. smegmatis. These results argue against stationary-phase M. smegmatis cultures entering a quiescent state akin to dormancy but support the idea that they are a dynamic population of cells.
CD45 Regulated Signaling Pathways (2003)

CD45 is expressed on all nucleated haematopoietic cells and was originally identified as the first and prototypic transmembrane protein tyrosine phosphatase (PTPase). CD45 has been extensively studied for over two decades as a PTPase that functions in antigen receptor signaling by dephosphorylation of Src-kinases. CD45 can operate as a positive as well negative regulator of Src-family kinases. In CD45 mutant cell lines, CD45-deficient mice, and CD45-deficient human SCID patients, CD45 is required for signal transduction through antigen receptors. Our group has recently shown that CD45 can also function as a Janus kinase (JAK) tyrosine phosphatase that negatively regulates cytokine receptor signaling involved in the differentiation, proliferation, and antiviral immunity of haematopoietic cells. Moreover, a point mutation in CD45, implicated in affecting CD45 dimerization, and a genetic polymorphism that affects alternative CD45 splicing have been implicated in autoimmunity in mice and humans. CD45 is expressed in multiple isoforms and modulation of specific CD45 splice variants with antibodies can prevent transplant rejections. Moreover, loss of CD45 can affect microglia activation in a mouse model for Alzheimer's disease. Modulation of CD45 splice variants and CD45 activity might provide a unique opportunity to design drugs that turn off or turn-on antigen and cytokine receptor signaling in cancer, allergy, transplantation, or autoimmunity.
InSb nanowires for multispectral infrared detection (2019)

Abstract InSb nanowire (NW) arrays fabricated by a top-down etching process were investigated for multispectral infrared photodetection. A 2.5 μ m thick film of InSb was grown on Si (100) by molecular beam epitaxy using an AlSb buffer layer to alleviate defects associated with lattice mismatch strain, as confirmed by scanning electron microscopy and x-ray diffraction. Using a Ti mask patterned by electron beam lithography, InSb NW arrays with diameters ranging from 300 to 1300 nm (100 nm steps) and pitches ranging from 1000 nm to 3500 (500 nm steps) were reactive ion etched from the thin film. For each 100 nm increase in NW diameter, the peak absorptance wavelength, as measured by Fourier transform infrared spectroscopy, increased by 0.53 ± 0.2 μ m. The ability of InSb nanowires to produce highly tunable absorptance from 1.61 to 6.86 μ m was demonstrated.
Continuously pulse width tunable Nd:YAG ceramic micro giant-pulse laser for laser induced breakdown (2016)

We present a compact, high peak-power, and widely pulse-width tunable monolithic Nd:YAG/Cr:YAG ceramic micro laser by cavity-length control. Pulse-width dependent fluence threshold of air-breakdown is investigated in sub-ns region showing a local breakdown threshold.
A high-speed ATM switch architecture using random access input buffers and multi-cell-time arbitration (2002)

We introduce a new high-speed ATM switch using random access input buffers (RAIB) and multi-cell-time arbitration (MCTA), and evaluate its performance for uniform traffic by a numerical method and by computer simulations. The switch has N same input modules each of which is similar to the common shared buffer switch. N address buffers (ABs) in the input module are used for the N output, and the ABs for a certain output in different input modules are controlled by an external arbitrator. The MCTA arbitration is employed in order to reduce the required arbitration rate as well as to provide the guard time when the switch is operated at a very high-speed. In MCTA arbitration, the service order of two or more cells destined for the same output is determined by one arbitration, but the cells are transmitted one by one in each time slot.
A complete landscape of post-transcriptional modifications in mammalian mitochondrial tRNAs (2014)

In mammalian mitochondria, 22 species of tRNAs encoded in mitochondrial DNA play crucial roles in the translation of 13 essential subunits of the respiratory chain complexes involved in oxidative phosphorylation. Following transcription, mitochondrial tRNAs are modified by nuclear-encoded tRNA-modifying enzymes. These modifications are required for the proper functioning of mitochondrial tRNAs (mt tRNAs), and the absence of these modifications can cause pathological consequences. To date, however, the information available about these modifications has been incomplete. To address this issue, we isolated all 22 species of mt tRNAs from bovine liver and comprehensively determined the post-transcriptional modifications in each tRNA by mass spectrometry. Here, we describe the primary structures with post-transcriptional modifications of seven species of mt tRNAs which were previously uncharacterized, and provide revised information regarding base modifications in five other mt tRNAs. In the complete set of bovine mt tRNAs, we found 15 species of modified nucleosides at 118 positions (7.48% of total bases). This result provides insight into the molecular mechanisms underlying the decoding system in mammalian mitochondria and enables prediction of candidate tRNA-modifying enzymes responsible for each modification of mt tRNAs.
Three-dimensional characterization ahd modeling of porosity in PM steels (2009)

Visualization of porosity in three dimensions (3D) is critical to a detailed under-standing of the microstructure and properties of powder metallurgy (PM) steels. Two techniques are described to characterize porosity in 3D: serial sectioning and X-ray tomog- raphy. Both techniques can be used to visualize porosity, and to quantify pore fraction and the degree of pore interconnectiuity. The use of image-based finite element simulations, using two-dimensional (2D) images of the microstructure, is also described. This is an invaluable tool in correlating pore structure with the mechanical properties of the steel.
A silicon-29 NMR study of the silanol population at the surface of derivatized silica (1990)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTA silicon-29 NMR study of the silanol population at the surface of derivatized silicaAlain Tuel, Hubert Hommel, Andre Pierre Legrand, and Ervin S. KovatsCite this: Langmuir 1990, 6, 4, 770–775Publication Date (Print):April 1, 1990Publication History Published online1 May 2002Published inissue 1 April 1990https://pubs.acs.org/doi/10.1021/la00094a009https://doi.org/10.1021/la00094a009research-articleACS PublicationsRequest reuse permissionsArticle Views643Altmetric-Citations55LEARN 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 Get e-Alerts
The Yeast Mitochondrial Citrate Transport Protein (2004)

Previous examination of the accessibility of a panel of single-Cys mutants in transmembrane domain III (TMDIII) of the yeast mitochondrial citrate transport protein to hydrophilic, cysteine-specific methanethiosulfonate reagents, enabled identification of the water-accessible surface of this domain and suggested its potential participation in the formation of a portion of the substrate translocation pathway. To evaluate this idea, we conducted a detailed characterization of the functional properties of 20 TMDIII single-Cys substitution mutants. Kinetic studies indicate that the A118C, S123C, and K134C mutants displayed a 3- to 7-fold increase in K(m). Moreover, the A118C mutation caused a doubling of the V(max) value, whereas the S123C, E131C, and K134C mutations caused V(max) to dramatically decrease, resulting in a reduction of the catalytic efficiencies of these three mutants by >97%. Examination of the ability of citrate to protect against the inhibition mediated by sodium (2-sulfonatoethyl)methanethiosulfonate (MTSES) indicated that citrate conferred significant protection of cysteines substituted at eight water-accessible locations (i.e. Gly-115, Leu-116, Gly-117, Leu-121, Ser-123, Val-127, Glu-131, and Thr-135), but not at other sites. Importantly, similar levels of protection were observed at both 4 degrees C and 20 degrees C. The temperature independence of the protection indicates that substrate binding and/or occupancy of the transport pathway sterically blocks the access of MTSES to these sites, thereby providing direct protection, without involvement of a major protein conformational change. The significance of these extensive functional investigations is discussed in terms of the three-dimensional CTP homology model that we previously developed and a new model of the dimer interface.
Characterization of hMTr1, a Human Cap1 2′-O-Ribose Methyltransferase* (2010)

Cellular eukaryotic mRNAs are capped at their 5' ends with a 7-methylguanosine nucleotide, a structural feature that has been shown to be important for conferring mRNA stability, stimulating mRNA biogenesis (splicing, poly(A) addition, nucleocytoplasmic transport), and increasing translational efficiency. Whereas yeast mRNAs have no additional modifications to the cap, called cap0, higher eukaryotes are methylated at the 2'-O-ribose of the first or the first and second transcribed nucleotides, called cap1 and cap2, respectively. In the present study, we identify the methyltransferase responsible for cap1 formation in human cells, which we call hMTr1 (also known as FTSJD2 and ISG95). We show in vitro that hMTr1 catalyzes specific methylation of the 2'-O-ribose of the first nucleotide of a capped RNA transcript. Using siRNA-mediated knockdown of hMTr1 in HeLa cells, we demonstrate that hMTr1 is responsible for cap1 formation in vivo.
Stabilizing atomic Pt with trapped interstitial F in alloyed PtCo nanosheets for high-performance zinc-air batteries (2019)

A novel strategy is designed to stabilize atomic Pt catalysts in alloyed platinum cobalt nanosheets with trapped interstitial fluorine (SA-PtCoF) for zinc-air batteries.