gebhart/patrepeval huggingface dataset:
Wind-Turbine Fault Ride-Through Enhancement (2005)

Fault ride-through specifications listed in modern transmission and distribution grid codes specify that wind-turbine generators (WTGs) must remain connected to electricity networks at voltage levels well below nominal. Achieving reliable operation at greatly reduced voltage levels is proving problematic. A particular problem regarding power converter-based WTGs is that standard controllers designed for reliable operation around nominal voltage levels will not work as designed during low network voltages that can occur during a fault. A consequence of this is greatly increased converter currents, which may lead to converter failure. This paper presents a nonlinear controller design for a power converter-based WTG that ensures that current levels remain within design limits, even at greatly reduced voltage levels, thus enhancing the WTG's fault ride-through capability.
On the Structure and Stability of Self-Assembled Zwitterionic Peptide Amphiphiles:  A Theoretical Study (2004)

The structures of self-assembled peptide amphiphiles are studied using empirical force fields and atomistic molecular dynamics calculations. The hydrophilic headgroups of these amphiphiles possess a lower, rigid part and an upper, flexible part. At an appropriate pH large dipoles are found in the flexible part of the headgroups, leading to attractive interactions between them, while the rigid parts participate in the formation of an effective parallel beta sheet due to hydrogen bonding oriented in the same direction as the large dipoles, and stabilizing the self-assembly in that direction. Molecular dynamics simulations on the self-assembled amphiphiles are performed with periodic boundary conditions in two dimensions. The tendency of the nanostructure to curve around an axis parallel to the dipoles and the beta sheet is revealed by removing the periodic boundary conditions, one direction at a time, leading to the conclusion that a cylindrical micelle would be the most stable one.
Ubiquitous Computing Fundamentals (2010)

must-read text that provides a historical lens to see how ubicomp has matured into a multidisciplinary endeavor. It will be an essential reference to researchers and those who want to learn more about this evolving field. -From the Foreword, Professor Gregory D. Abowd, Georgia Institute of Technology First introduced two decades ago, the term ubiquitous computing is now part of the common vernacular. Ubicomp, as it is commonly called, has grown not just quickly but broadly so as to encompass a wealth of concepts and technology that serves any number of purposes across all of human endeavor. While such growth is positive, the newest generation of ubicomp practitioners and researchers, isolated to specific tasks, are in danger of losing their sense of history and the broader perspective that has been so essential to the fields creativity and brilliance. Under the guidance of John Krumm, an original ubicomp pioneer, Ubiquitous Computing Fundamentals brings together eleven ubiquitous computing trailblazers who each report on his or her area of expertise. Starting with a historical introduction, the book moves on to summarize a number of self-contained topics. Taking a decidedly human perspective, the book includes discussion on how to observe people in their natural environments and evaluate the critical points where ubiquitous computing technologies canimprove their lives. Among a range of topics this book examines: How to build an infrastructure that supports ubiquitous computing applications Privacy protection in systems that connect personal devices and personal information Moving from the graphical to the ubiquitous computing user interface Techniques that are revolutionizing the way we determine a persons location and understand other sensor measurements While we neednt become expert in every sub-discipline of ubicomp, it is necessary that we appreciate all the perspectives that make up the field and understand how our work can influence and be influenced by those perspectives. This is important, if we are to encourage future generations to be as successfully innovative as the fields originators.
Organization of restriction-modification systems (1991)

The genes for over 100 restriction-modification systems have now been cloned, and approximately one-half have been sequenced. Despite their similar function, they are exceedingly heterogeneous. The heterogeneity is evident at three levels: in the gene arrangements; in the enzyme compositions; and in the protein sequences. This paper summarizes the main features of the R-M systems that have been cloned.
Maintenance of Quiescent Hematopoietic Stem Cells in the Osteoblastic Niche (2007)

Hematopoietic stem cells (HSCs) are responsible for blood cell production throughout an individual's lifetime. Interaction of HSCs with their specific microenvironments, known as stem cell niches, is critical for maintaining stem cell properties, including self-renewal capacity and the ability to differentiate into multiple lineages. During postnatal life, the bone marrow (BM) supports both self-renewal and differentiation of HSCs in specialized microenvironmental niches. In the adult BM, HSCs are located in the trabecular endosteum (osteoblastic niche) or sinusoidal perivascular (vascular niche) areas. Here we show that osteoblastic cells (OBs) are a critical component for sustaining slow-cycling or quiescent HSCs. Interaction of HSCs with OBs through signaling and cell adhesion molecules maintains the balance in HSCs between cell division/proliferation and quiescence. In particular, the quiescent state is thought to be an essential mechanism to protect HSCs from stress and to sustain long-term hematopoiesis.
Retroviral proteases: structure, function and inhibition from a non-anticipated viral enzyme to the target of a most promising HIV therapy. (1996)

Retrovirally encoded proteases are responsible for the maturation of immature viral particles yielding mature, infectious virus. This is done by apparent (auto)-processing and self-activation of the protease (PR) from a larger viral gag-PR-(pol) protein (zymogen) precursor and subsequent processing of the viral reverse transcriptase (RT) and integrase (IN), and the gag protein precursor into mature gag proteins. Only the matured components are capable of forming capsids for intact, infectious viruses. Blocking this proteolytic process results in production of immature, non-infective virions. All retroviral proteases are aspartic-type proteases. Determination of the three-dimensional structure revealed retroviral proteases as small, nearly symmetric homodimers. This prompted de novo design of inhibitors for the HIV protease taking advantage of the unique symmetric structure of the active center, unparalleled by cellular proteases. The novel substances inhibit in vitro the HIV protease at nanomolar/subnanomolar concentrations and exhibit very low toxicity. They are inactive against human proteases such as renin or pepsin. The HIV protease inhibitors (PI) represent a promising alternative to the reverse transcriptase (RT) inhibitors (AZT, ddC, ddI) hitherto used with limited success for HIV chemotherapy. Clinical studies confirmed the low toxicity but revealed a pharmacological pattern typical for these hydrophobic compounds, such as low water solubility, poor oral bioavailibility, and short plasma half-life. Typical for antimicrobial agents, also a resistance phenomenon became evident. Latest clinical results show, however, promisingly that both problems might be overcome by application of the PI in combination with RT inhibitors (such as AZT, ddI or ddC) exerting a remarkable synergistic antiviral effect with lasting restoration of the CD4-T-cell level.
Multiple adenovirus serotypes use alpha v integrins for infection (1994)

The nucleotide sequence encoding the penton base integrin-binding domains of several human adenoviruses was obtained by homology PCR. Each of the penton base proteins contains a conserved Arg-Gly-Asp (RGD) sequence that is predicted to lie at the apex of two extended alpha helices. The penton base RGD domain promotes efficient infection of host cells by multiple adenovirus serotypes via interaction with alpha v integrins, thus indicating that alpha v integrins play a central role in the entry of adenoviruses into host cells.
Crystallographic structure of human gamma-thrombin. (1994)

In an effort to prepare crystals and determine the structure of alpha-thrombin complexed to a synthetic peptide inhibitor (MDL-28050) of the hirudin 54-65 COOH-terminal region, it was discovered that the crystals were not those of the complex but of gamma-thrombin. Gel electrophoresis studies revealed that autolytic degradation had occurred prior to crystallization. NH2-terminal sequence analysis of these autolytic fragments confirmed the gamma-thrombin product (cleavages at Arg75-Tyr76 and/or Arg77A-Asn78, and Lys149E-Gly150; chymotrypsinogen numbering) with a minor amount of another autolysis product, beta-thrombin (first two cleavages only). The final structure has an R-factor of 0.156 for 7.0-2.5-A data, and includes 186 water molecules. A comparison of gamma-thrombin with the thrombin structure in the alpha-thrombin-hirugen complex revealed that the two structures agreed well (r.m.s. delta = 0.39 A for main chain atoms). These structures possess uninhibited active sites where the disposition of the catalytic triad residues is nearly identical. The electron density in the vicinity of the gamma-thrombin cleavage regions is poor, and only becomes well-defined several residues prior to and after the actual cleavage sites. The extensive disorder evoked by beta-cleavage(s) in the Lys70-Glu80 loop region indicates that this part of the molecule is severely disrupted by autolysis and is the reason exosite functions are dramatically impaired in beta-and gamma-thrombin. Since autolysis did not lead to a major reorganization of the folded structure of alpha-thrombin, the likely structural features of the interaction of thrombin substrate with thrombin enzyme during beta-cleavage have been modeled by docking the exosite region of one molecule at the active site of another.
Handbook of Ring‐Opening Polymerization (2009)

THERMODYNAMICS AND KINETICS OF RING-OPENING POLYMERIZATION Introduction Thermodynamics of the Ring-Opening Polymerization Kinetics of Ring-Opening Polymerization GENERAL MECHANISMS IN RING-OPENING POLYMERIZATION Introduction Anionic Ring-Opening Polymerization Cationic Ring-Opening Polymerization Radical Ring-Opening Polymerization SILOXANE-CONTAINING POLYMERS Introduction Polydimethylsiloxanes Functional Silicones Polycarbosiloxanes SULFUR-NITROGEN-PHOSPHOROUS-CONTAINING POLYMERS Introduction Mechanism and Methods in Ring-Opening Polymerization (ROP) of Halogenated Cyclotriphosphazanes Ring-Opening Polymerization and Chemistry of Nonhalogenated Phosphazane Rings Incorporation of Sulfur into Phosphazane Ring Systems and Their Polymerization Chemistry POLYMERIZATION OF CYCLIC DEPSIPEPTIDES, UREAS AND URETHANES Introduction Polydepsipeptides Monomers Ring-Opening Polymerization Enzymatic Polymerization Ring Expansion Polyureas Polyurethanes POLYETHERS AND POLYOXAZOLINES Introduction Polyethers Polyoxazolines POLYAMIDES Introduction Mechanism of the Anionic Polymerization of Lactams Initiators for the Anionic Polymerization of Lactams Activators for Anionic Polymerization of Lactams Nonactivated Polymerization Cyclic Oligomers of Epsilon-Caprolactam Block Copolymers of Lactams Anionic Copolymerization of Epsilon-Caprolactam with Omega-Laurolactam Copolymerization of Lactams with Lactones (Epsilon-Caprolactone) Powdered Polyamide Nanocomposites Anionic Polymerization of 2-Pyrrolidone RING-OPENING METATHESIS POLYMERIZATION General Introduction Introduction to Ring-Opening Metathesis Polymerization (ROMP) Well-Defined Catalysts for ROMP 'Living? ROMP Selected Recent Applications and Developments POLYESTERS FROM BETA-LACTONES Introduction Beta-Lactones Preparation Ionic Polymerization Coordination Process Carbene-Based Polymerization Enzymatic Polymerization Illustrative Experimental Section POLYESTERS FROM DILACTONES Introduction General Concepts and ROP Promoted by Metallic Recent Advances in ROP Macromolecular Engineering Applications POLYESTERS FROM LARGE LACTONES Introduction Controlled Synthesis of Linear Polyesters Physical Properties of Polymers POLYCARBONATES Introduction Polymerization of Cyclic Carbonates: Homopolymers and Block Copolymers POLYMERIZATION OF CYCLOALKANES Introduction General Overview and Thermodynamic Requirements Structure-Reactivity Relationships Based on a Comprehensive Survey of the Current Literature METAL-FREE CATALYSIS IN RING-OPENING POLYMERIZATION Introduction Nucleophilic ROP Metal-Free Ionic ROP ENZYME-MEDIATED RING-OPENING POLYMERIZATION Introduction Characteristics of Enzymatic ROP Classes of Monomer Polymer Architectures Employing Enzymatic ROP
Direct (Hetero)arylation Polymerization: Simplicity for Conjugated Polymer Synthesis (2016)

Direct (hetero)arylation polymerization (DHAP) has recently been established as an environmentally benign method for the preparation of conjugated polymers. This synthetic tool features the formation of C-C bonds between halogenated (hetero)arenes and simple (hetero)arenes with active C-H bonds, thereby circumventing the preparation of organometallic derivatives and decreasing the overall production cost of conjugated polymers. Since its inception, selectivity and reactivity of DHAP procedures have been improved tremendously through the careful scrutinity of polymerization outcomes and the fine-tuning of reaction conditions. A broad range of monomers, from simple arenes to complex functionalized heteroarenes, can now be readily polymerized. The successful application of DHAP now leads to nearly defect-free conjugated polymers possessing comparable, if not slightly better, characteristics than their counterparts prepared using classical cross-coupling methods. This comprehensive review describes the mechanisms involved in this process from experimental and theoretical standpoints, presents an up-to-date compendium of materials obtained by this means, and exposes its current limitations and challenges.
Circadian rhythms of frequency domain measures of heart rate variability in healthy subjects and patients with coronary artery disease. Effects of arousal and upright posture. (1994)

The circadian rhythm of cardiac neural regulation is altered in patients with uncomplicated CAD. Reduced autonomic responses to sleep-wake rhythm suggest that the modulation of cardiac autonomic function by stimuli from the central nervous system is impaired in CAD.
Dynamic control over cell adhesive properties using molecular-based surface engineering strategies (2009)

In complex organisms, cells are often dependent on their extracellular matrix (ECM) for structural integrity, the mechanical properties of tissues, and for signaled regulation of cellular processes including adhesion, migration, growth, secretion, gene expression and apoptosis. Achieving dynamic control, i.e. by using an external stimulus, over the interactions between cells and artificial interfaces holds considerable promise in tissue engineering, medicine, cell biology and immunology. For example, improved spatial control over cell-surface interaction is potentially useful in the design of cell-based screening devices. Dynamic control over SAMs for cell adhesion provides an additional handle to direct and study the attachment of cells to surfaces, e.g., in studying cell spreading from a predetermined pattern in order to screen the cytotoxicity of drug candidates. However, 'reversible' control of cell adhesion onto substrates is an area that is still in its infancy. In this critical review recent developments in cell adhesion of mammalian cells to SAM-modified surfaces, the physical properties of which can be controlled by an external stimulus, e.g. by light, electrochemistry, etc., are discussed (118 references).
Muscle Injury after Repeated Bouts of Voluntary and Electrically Stimulated Exercise (2008)

A repeated-bout effect was observed after electrically stimulated exercise, and the magnitude of the effect was similar to that observed with voluntary exercise. This suggests that the primary mechanism for the reduction in muscle injury after repeated exercise bouts is not related to changes in muscle recruitment and is potentially related to structural changes within the muscles.
High Circulating IL-6 Level in Graves' Ophthalmopathy (1997)

IL-6 is a paracrine and autocrine cytokine, which acts in the regulation of immunological and inflammatory processes. Its production can be observed in different cell types, as well as thyrocytes. The purpose of the study was to examine the serum IL-6 levels between the patients with Graves' disease (N = 47) and without (N = 29) ophthalmopathy in respect of the presence of inflammatory eye signs and thyroiditis, thyroid function and radioiodine or medical treatments. The serum IL-6 levels were greater (P < 0.025) in the patients with ophthalmopathy (440 +/- 32.4 pg/ml) than in those without eye disease (81.6 +/- 25.2 pg/ml). An elevated serum IL-6 levels could be detected in 22 out of 47 patients with ophthalmopathy with longer manifestation of thyroid disease than one year in comparison with those who had shorter (694 +/- 35.3 pg/ml vs 215.8 +/- 27.9 pg/ml, P < 0.05). The increase showed a strong association with the inflammatory signs of eye disease in the patients with Graves' hyperthyroidism compared with those without ophthalmopathy (513.3 +/- 33.7 pg/ml vs 96.9 +/- 12.1 pg/ml, P < 0.025). Euthyroid function and the presence of thyroiditis did not influence the serum IL-6 levels. Radioiodine and medical treatments did not lead to a remarkable decrease in the serum IL-6 levels. The results supported that IL-6 cytokine may be an important factor in the inflammatory events of Graves' ophthalmopathy.
Eubacterium contortum (Prevot) comb. nov.: Emendation of Description and Designation of the Type Strain (1971)

A type strain for Catenabacterium contortum Prévot has heretofore not been established. Prévot&apos;s strain 113 VI [ATCC (American Type Culture Collection) 25540; VPI (Virginia Polytechnic Institute) 0119], one of the two strains upon which the original description of this organism was based, possesses characteristics which closely agree not only with those given in the original description of C. contortum by Prévot, but also with those in the description of this organism as emended by the present authors. This strain is here designated as the type strain. The characteristics of C. contortum indicate that this organism properly belongs in the genus Eubacterium Prévot, to which genus it is transferred as Eubacterium contortum (Prévot) comb. nov.
Building a Linux Certification Program (1999)

A report on a community-based initiative to develop a professional certification program for Linux
A generic architecture for on-chip packet-switched interconnections (2000)

This paper presents an architectural study of a scalable system-level interconnection template. We explain why the shared bus, which is today's dominant template, will not meet the performance requirements of tomorrow's systems. We present an alternative interconnection in the form of switching networks. This technology originates in parallel computing, but is also well suited for heterogeneous communication between embedded processors and addresses many of the deep submicron integration issues. We discuss the necessity and the ways to provide high-level services on top of the bare network packet protocol, such as dataflow and address-space communication services. Eventually we present our first results on the cost/performance assessment of an integrated switching network.
Furanose-specific Sugar Transport (2009)

The widespread utilization of sugars by microbes is reflected in the diversity and multiplicity of cellular transporters used to acquire these compounds from the environment. The model bacterium Escherichia coli has numerous transporters that allow it to take up hexoses and pentoses, which recognize the more abundant pyranose forms of these sugars. Here we report the biochemical and structural characterization of a transporter protein YtfQ from E. coli that forms part of an uncharacterized ABC transporter system. Remarkably the crystal structure of this protein, solved to 1.2 A using x-ray crystallography, revealed that YtfQ binds a single molecule of galactofuranose in its ligand binding pocket. Selective binding of galactofuranose over galactopyranose was also observed using NMR methods that determined the form of the sugar released from the protein. The pattern of expression of the ytfQRTyjfF operon encoding this transporter mirrors that of the high affinity galactopyranose transporter of E. coli, suggesting that this bacterium has evolved complementary transporters that enable it to use all the available galactose present during carbon limiting conditions.
A versatile toolbox for PCR‐based tagging of yeast genes: new fluorescent proteins, more markers and promoter substitution cassettes (2004)

Tagging of genes by chromosomal integration of PCR amplified cassettes is a widely used and fast method to label proteins in vivo in the yeast Saccharomyces cerevisiae. This strategy directs the amplified tags to the desired chromosomal loci due to flanking homologous sequences provided by the PCR-primers, thus enabling the selective introduction of any sequence at any place of a gene, e.g. for the generation of C-terminal tagged genes or for the exchange of the promoter and N-terminal tagging of a gene. To make this method most powerful we constructed a series of 76 novel cassettes, containing a broad variety of C-terminal epitope tags as well as nine different promoter substitutions in combination with N-terminal tags. Furthermore, new selection markers have been introduced. The tags include the so far brightest and most yeast-optimized version of the red fluorescent protein, called RedStar2, as well as all other commonly used fluorescent proteins and tags used for the detection and purification of proteins and protein complexes. Using the provided cassettes for N- and C-terminal gene tagging or for deletion of any given gene, a set of only four primers is required, which makes this method very cost-effective and reproducible. This new toolbox should help to speed up the analysis of gene function in yeast, on the level of single genes, as well as in systematic approaches.
siRNA silencing of calumenin enhances functional factor IX production (2006)

To improve production of functional fully gamma-carboxylated recombinant human clotting factor IX (r-hFIX), cell lines stably overexpressing r-hFIX have been engineered to also overexpress proteins of the gamma-carboxylation system. Here we demonstrate that siRNA silencing of calumenin, an inhibitor of the gamma-carboxylation system, enhances production of functional r-hFIX produced by engineered BHK21 cells. The production yield of functional r-hFIX was 80% in engineered cells where calumenin had been silenced 78%. We propose that this high-yield expression system can easily be adapted to overproduce functional forms of all members of the vitamin K-dependent protein family.