gebhart/patrepeval huggingface dataset:
The Mechanism of Action of β- d -2′-Deoxy-2′-Fluoro-2′- C -Methylcytidine Involves a Second Metabolic Pathway Leading to β- d -2′-Deoxy-2′-Fluoro-2′- C -Methyluridine 5′-Triphosphate, a Potent Inhibitor of the Hepatitis C Virus RNA-Dependent RNA Polymerase (2007)

beta-D-2'-Deoxy-2'-fluoro-2'-C-methylcytidine (PSI-6130) is a potent inhibitor of hepatitis C virus (HCV) RNA replication in an HCV replicon assay. The 5'-triphosphate of PSI-6130 is a competitive inhibitor of the HCV RNA-dependent RNA polymerase (RdRp) and acts as a nonobligate chain terminator. Recently, it has been shown that the metabolism of PSI-6130 also results in the formation of the 5'-triphosphate of the uridine congener, beta-D-2'-deoxy-2'-fluoro-2'-C-methyluridine (PSI-6206; RO2433). Here we show that the formation of the 5'-triphosphate of RO2433 (RO2433-TP) requires the deamination of PSI-6130 monophosphate and that RO2433 monophosphate is subsequently phosphorylated to the corresponding di- and triphosphates by cellular UMP-CMP kinase and nucleoside diphosphate kinase, respectively. RO2433-TP is a potent inhibitor of the HCV RdRp; however, both enzymatic and cell-based assays show that PSI-6130 triphosphate is a more potent inhibitor of the HCV RdRp than RO2433-TP.
Efficient strategies for the conjugation of oligonucleotides to antibodies enabling highly sensitive protein detection (2004)

Three methods for the conjugation of oligonucleotides to antibodies and the subsequent application of these conjugates to protein detection at attomole levels in immunoassays are described. The methods are based on chemical modification of both antibody and oligonucleotide. Aldehydes were introduced onto antibodies by modification of primary amines or oxidation of carbohydrate residues. Aldehyde- or hydrazine-modified oligonucleotides were prepared either during phosphoramidite synthesis or by post-synthesis derivatization. Conjugation between the modified oligonucleotide and antibody resulted in the formation of a hydrazone bond that proved to be stable over long periods of time under physiological conditions. The binding activity of each antibody-oligonucleotide conjugate was determined to be comparable to the corresponding unmodified antibody using a standard sandwich ELISA. Each oligonucleotide contained a unique DNA sequence flanked by universal primers at both ends and was assigned to a specific antibody. Highly sensitive immunoassays were performed by immobilizing analyte for each conjugate onto a solid support with cognate capture antibodies. Binding of the antibody-oligonucleotide conjugate to the immobilized analyte allowed for amplification of the attached DNA. Products of amplification were visualized using gel electrophoresis, thus denoting the presence of bound analyte. The preferred conjugation method was used to generate a set of antibody-oligonucleotide conjugates suitable for high-sensitivity protein detection.
In vivo model for pseudo-templated transcription in Sendai virus (1992)

A synthetic Sendai virus-like recombinant RNA was used to develop a model system for pseudo-templated transcription of the P/C gene. The synthetic RNA molecule contains a 42-base stretch of nucleotide sequence derived from the RNA editing site of the P/C gene embedded into the chloramphenicol acetyltransferase gene. When this construct was rescued into Sendai virus, it was found that this 42-base sequence was sufficient to allow the Sendai virus polymerase to transcribe mRNAs with G-nucleotide insertions. Edited mRNA species containing a single nontemplated G insertion were found at a frequency of 6.5%, while rare messages had two G residues inserted. Edited viral RNA was not apparent, suggesting that this event is appropriately excluded during replication of the model genome. By progressively deleting from the 3' end, we found that a 24-nucleotide sequence spanning the G-insertion site was sufficient for pseudo-templated transcription in our system.
Sub-10 nm Carbon Nanotube Transistor (2012)

Although carbon nanotube (CNT) transistors have been promoted for years as a replacement for silicon technology, there is limited theoretical work and no experimental reports on how nanotubes will perform at sub-10 nm channel lengths. In this manuscript, we demonstrate the first sub-10 nm CNT transistor, which is shown to outperform the best competing silicon devices with more than four times the diameter-normalized current density (2.41 mA/μm) at a low operating voltage of 0.5 V. The nanotube transistor exhibits an impressively small inverse subthreshold slope of 94 mV/decade-nearly half of the value expected from a previous theoretical study. Numerical simulations show the critical role of the metal-CNT contacts in determining the performance of sub-10 nm channel length transistors, signifying the need for more accurate theoretical modeling of transport between the metal and nanotube. The superior low-voltage performance of the sub-10 nm CNT transistor proves the viability of nanotubes for consideration in future aggressively scaled transistor technologies.
BOA: the Bayesian optimization algorithm (1999)

In this paper, an algorithm based on the concepts of genetic algorithms that uses an estimation of a probability distribution of promising solutions in order to generate new candidate solutions is proposed. To estimate the distribution, techniques for modeling multivariate data by Bayesian networks are used. The proposed algorithm identifies, reproduces and mixes building blocks up to a specified order. It is independent of the ordering of the variables in the strings representing the solutions. Moreover, prior information about the problem can be incorporated into the algorithm. However, prior information is not essential. Preliminary experiments show that the BOA outperforms the simple genetic algorithm even on decomposable functions with tight building blocks as a problem size grows. 1 INTRODUCTION Recently, there has been a growing interest in optimization methods that explicitly model the good solutions found so far and use the constructed model to guide the fu...
Literature, Mythmaking and National Identity: the Case for Seven Little Australians (1997)

See article
Fast evaluation of elementary functions with combined shift-and-add and polynomial methods (2000)

This paper deals with the computation of elementary functions. We propose an efficient approach which combines shift-and-add and polynomial methods. It takes advantages of both, since some very simple computations (additions and shifts) reduce the complexity of the polynomial evaluation (i.e, reduce the number of multiplications). The proposed algorithm is more efficient in comparison with polynomial and shift-and-add methods, considered separately.
Duplex Reverse Transcription-PCR Followed by Nested PCR Assays for Detection and Identification of Brazilian Alphaviruses and Flaviviruses (2005)

A new approach was developed for the rapid detection and identification of Brazilian alphaviruses and flaviviruses. The methodology involves the genus-specific detection of Alphavirus and Flavivirus by a duplex reverse transcription-PCR (D-RT-PCR), followed by multiplex nested PCR (M-N-PCR) or nested PCR (N-PCR) assays for species-specific identification. By this protocol, 25 arboviruses were specifically detected and identified. Detection levels between 10(1.3) and 10(3.5) 50% tissue culture infective doses (TCID(50))/ml of Flavivirus and Alphavirus strains were achieved by D-RT-PCR, and levels of <1 TCID(50)/ml were achieved by M-N-PCR assays. To assess the suitability and clinical application of this methodology, a total of 101 human or animal stored samples were analyzed. Results obtained suggest that this technique could be applied as a rapid diagnostic tool in clinical samples in which arbovirus infection is suspected and differential diagnosis is required, avoiding the need to test specimens by separate PCR methods.
Comparative cognitive effects of levetiracetam and topiramate in intractable epilepsy (2008)

For patients with IE, LEV might preserve cognition, TPM's effects for patients with baseline cognitive abnormalities are worth observation.
Androgens in Postmenopausal Women: Production, Possible Role, and Replacement Options (2001)

The physiology of normal androgen production in women has not been well understood. Aging, per se, accounts for much of the reduction in both ovarian and adrenal androgen production; and natural menopause does not result in an abrupt decline in testosterone production. Therefore, the definition of an androgen deficiency state in women, in the absence of adrenal suppression and/or bilateral oophorectomy, has been difficult. Nevertheless there are well-documented beneficial effects of androgen on many organ systems, including bone and the brain. This review focuses on the physiology of androgens in postmenopausal women and includes a discussion of the definition of an androgen deficiency state, the anticipated effects of androgen on several parameters of health, and possible ways in which androgens may be administered to women.
Septum Transversum-Derived Mesothelium Gives Rise to Hepatic Stellate Cells and Perivascular Mesenchymal Cells in Developing Mouse Liver §Δ (2010)

our results demonstrate that HSCs and PMCs are derived from MC/SubMCs, which are traced back to mesodermal STM during liver development.
Support Vector Machine Learning For Gesture Signal Estimation With A Piezo-Resistive Fabric Touch Surface (2010)

The design of an unusually simple fabric-based touchlocation and pressure sensor is introduced. An analysisof the raw sensor data is shown to have significant nonlinearities and non-uniform noise. Using support vectormachine learning and a state-dependent adaptive filter itis demonstrated that these problems can be overcome.The method is evaluated quantitatively using a statisticalestimate of the instantaneous rate of information transfer.The SVM regression alone is shown to improve the gesturesignal information rate by up to 20% with zero addedlatency, and in combination with filtering by 40% subjectto a constant latency bound of 10 milliseconds.
Gene Therapy for Neurological Disorders and Brain Tumors (1998)

Leading gene therapy researchers and clinicians illuminate the field-from basic vector technology to current and future clinical applications in neurology. The authoritative contributors provide cutti
In silico environments augment clinical trials (1996)

One of the most promising new approaches to interpreting complex systems data is to generate self-organizing simulations. We have previously applied Markov random field methods to create virtual worlds for the prototyping of wetlab experimentation. We have termed the virtual worlds "in silico environments" to express a synergism between computer simulation and wetlab experimentation. We show that in silico environments allow the planning of clinical trial procedures. A strong aspect of the method is the use of a dedicated object oriented language called Slang (simulation language).
Immunoglobulin VH Domains and Beyond Design and Selection of Single-Domain Binding and Targeting Reagents (2000)

Identification of the smallest antibody fragment still capable of binding to antigen has progressed from full antibody molecules to Fab and recombinant single chain Fv fragments. Now, a further reduction to single domain binding proteins based upon immunoglobulin VH and VH-like domains offers exciting prospects in the development of novel immunotherapeutics and immunodiagnostics. Minimisation of the antigen-binding fragment to such small single-domain proteins offers the advantages of enhanced stability, and possibly access to a class of antigenic epitopes not generally recognised by conventional antibodies.
Safe Streets, Livable Streets: A Positive Approach to Urban Roadside Design (2005)

Transportation safety is a highly contentious issue in the design of cities and communities. To enhance community livability, urban designers, architects and city planners often encourage the placement of street trees, aesthetic street lights, and other roadside features in a buffer zone between the pedestrian realm and the vehicle travelway. While such designs clearly enhance the aesthetic quality of a roadway, conventional geometric design practice regards roadside features located in the clear zone as fixed-object hazards, and strongly discourages their use. This study examines roadside safety in urban environments to better understand the nature of urban fixed-object crashes, as well as the safety impacts of livable streetscape treatments. \n\nWhile the prevailing assumption is that livable street treatments have a negative impact on a roadways safety performance, the existing empirical evidence indicates that such designs are much safer than more conventional roadside designs. Current safety objections to the use of livable street treatments are not based on empirical evidence, but are instead the result of a design philosophy that systematically overlooks the real-world operating behavior of road users.\n\nThis study details the origin and evolution of this philosophy, termed passive safety, and subjects it to an empirical test to evaluate its applicability to urban arterial roadways. It finds that passive safety assumptions do not meaningfully explain empirical observations of crash frequency and severity. To enhance contemporary geometric design practice, this study then proceeds to more thoroughly examine the nature and characteristics of urban roadside crashes, and proposes a new design approach, termed positive design that better addresses the twin goals of safety and livability.
Static analysis of deformable object grasping based on bounded force closure (2002)

A static analysis of deformable object grasping based on bounded force closure is presented. There are many manipulative operations that deal with deformable objects in manufacturing processes. Manipulative operations for these objects are often performed by utilizing their deformation actively while the operations may result in failure because of unexpected deformation of the objects during the manipulation process. In order to perform the manipulative operations for deformable objects successfully, it is necessary to evaluate their deformation by building object models and to derive task strategies by analyzing manipulation processes using the object models. In this paper, we will analyze stable grasping of deformable objects based on the concept of bounded force closure. Firstly, we will introduce the concept of bounded force closure, which is an extension of force closure condition. Secondly, we will investigate the necessary condition for bounded force closure in order to derive the properties of bounded force closure grasping. Thirdly, we will formulate the deformation of linear objects as an example of deformable objects and we will propose a procedure to evaluate stability of deformable object grasping. Finally, some numerical examples will be shown in order to demonstrate the effectiveness of our proposed method.
Coblockade of the LFA1:ICAM and CD28/CTLA4:B7 pathways is a highly effective means of preventing acute lethal graft-versus-host disease induced by fully major histocompatibility complex-disparate donor grafts (1995)

We have developed an in vitro system in which C57BL/6 donor splenocytes are exposed to B10.BR host alloantigens in the context of deficient CD28:B7 signaling as a means of preventing graft-versus-host disease (GVHD). Although 54% to 82% of MLR alloresponse was inhibited by cytotoxic T-lymphocyte antigen 4 (CTLA4)-Ig treatment of host stimulator cells, treated splenocytes were still capable of causing GVHD when infused in vivo. By adding anti-leukocyte function antigen 1 (anti-LFA1) antibody to hCTLA4-Ig in vitro to coblock the LFA1:intercellular adhesion molecule (ICAM) signaling, splenic alloresponse was inhibited by > or = 89%, yet GVHD induction capabilities were retained. Because antigen-primed cells might be more susceptible to CD28:B7 blockade, we investigated whether hCTLA4-Ig alone, anti-LFA1 antibody alone, or the combination of both added to donor-antihost in vitro primed cells could reduce GVHD. To facilitate hyporesponsiveness induction and to block B7 and ICAM ligands that are upregulated during GVHD, these reagents were also administered to recipients post-BMT. We have shown that hCTLA4-Ig plus anti-LFA1 antibody is highly effective in preventing GVHD-induced lethality (88% to 100% of treated mice surviving versus 0% to 28% of controls surviving). For optimal prevention, both hCTLA4-Ig and anti-LFA1 must be used in vitro in the context of donor-antihost primed splenocytes and continued in vivo. This in vitro-in vivo combined approach was associated with donor engraftment, and recipients were not globally immunosuppressed. We conclude that blocking both the CD28/B7 and the LFA1:ICAM pathways are critical to effective GVHD prevention and may offer advantages to in vitro donor T-cell removal.
Brain Tumors (2001)

The term “brain tumor” refers to a collection of neoplasms, each with its own biology, prognosis, and treatment; these tumors are better identified as “intracranial neoplasms,” since some do not arise from brain tissue (e.g., meningiomas and lymphomas) (Table 1). However, for most intracranial tumors, the clinical presentation, diagnostic approach, and initial treatment are similar. This article will focus on general presentation, diagnosis, and specific treatment.EpidemiologyThe American Cancer Society estimates that 16,800 new intracranial tumors were diagnosed in 1999, more than double the number of diagnosed cases of Hodgkin's disease and over half the number of cases of . . .
The electrically evoked response of the visual system (EER). (1968)

(1) A technique is described for recording with scalp electrodes the occipital response to electrical stimulation of the globe. This electrically evoked response of the visual system has been labeled EER. (2) The amplitude of EER is a function of the amount of stimulus current. (3) There is an apparent difference in EER caused by electrode polarity. (4) There is little difference in EER to square pulses of varying durations. However, sawtooth stimuli cause increase of latency of response equivalent to duration of the sawtooth. (5) Although there is considerable variation of EER from individual to individual the response for any one subject appears to be quite constant. (6) The EER differs from the VER to stimuli of the same subjective brightness in several ways. The amplitude of the EER is greater but only when measured at the occipital pole; the latency of the VER is greater. These findings suggest that the EER represents activation of many collateral circuits not directly connected with brightness perception. They also suggest that the electrical stimulus acts on structures between the receptor inner segments and the ganglion cell body.
The Comparison and Analysis of Technology of Electric Power Information (2015)

The structure of electric power information
Correlation of Water Exchange Rate with Isomeric Composition in Diastereoisomeric Gadolinium Complexes of Tetra(carboxyethyl)dota and Related Macrocyclic Ligands (2000)

The solution structure and dynamics of metal-bound water exchange have been studied in a series of diastereoisomeric gadolinium complexes of tetra(carboxyethyl) derivatives of 1,4,7,10-tetraazacyclodecane. The structures of the (RRRS), (RSRS), and (RRSS) ligands and the Eu, Gd, and Tb complexes of the (RRRR) isomer have been determined by X-ray crystallography. Luminescence measurements on the Eu and Tb complexes revealed an integral hydration state (q = 1) in each case for the Eu isomers, whereas nonintegral values were measured for the (RRRR) and (RRRS) Tb isomers (e.g., [(RRRR)-Tb·1]-, q = 0.60). The ratio of the twisted and regular monocapped square antiprismatic isomers has been measured in solution by 1H NMR for the Eu and Tb complexes and followed the order, (RRRR) > (RRRS) > (RSRS) > (RRSS). Water exchange rates in the gadolinium complexe have been determined by 17O NMR and were fastest for the (RRRR) isomer [τm = 68 ns (298 K)] and correlated very well with the proportion of the twisted square anti-prismatic isomer. The rate of water exchange in the (RRRR) Gd complexes is likely to be sufficiently fast so as not to limit the overall relaxivity in higher MW conjugates.
Evaluation of the rat micronucleus test with bone marrow and peripheral blood: Summary of the 9th collaborative study by CSGMT/JEMS·MMS (1998)

The mouse has traditionally been used for the micronucleus test, with bone marrow the usual target organ. The aim of the 9th collaborative study by CSGMT was to evaluate the suitability of the rat for the micronucleus test, with bone marrow and peripheral blood as the target organ. Since the rat spleen eliminates circulating micronucleated erythrocytes, a rat peripheral blood micronucleus assay might not be feasible. Thirty-four Japanese laboratories and six overseas laboratories participated in this collaboration, and 40 chemicals were studied. As a rule, rat bone marrow and peripheral blood were analyzed using acridine orange staining. Among 36 mouse micronucleus-positive rat carcinogens, 34 of which had been evaluated by CSGMT, we observed 33 positive and three negative results with rat bone marrow and 30 positive, three equivocal, and three negative responses with rat peripheral blood. Of the two mouse micronucleus-negative rat carcinogens, acrylonitrile was positive in rat bone marrow and 4,4′-methylene bis(2-chloroaniline) was negative in both rat bone marrow and peripheral blood. Two chemicals reported to be mouse micronucleus-negative and rat-positive, azobenzene and Solvent Yellow 14, and one chemical reported to be mouse-positive and rat-negative, 1,2-dimethylhydrazine, gave positive responses in rat bone marrow and peripheral blood. The concordance between bone marrow and peripheral blood with rats was 92%. The concordance between rat and mouse erythrocytes was 88%. We concluded that the rat micronucleus assay, using either bone marrow or peripheral blood, can be used as an alternative to the mouse micronucleus assay. Environ. Mol. Mutagen. 32:84–100, 1998. © 1998 Wiley-Liss, Inc.
A Simple Yet Effective Baseline for 3d Human Pose Estimation (2017)

Following the success of deep convolutional networks, state-of-the-art methods for 3d human pose estimation have focused on deep end-to-end systems that predict 3d joint locations given raw image pixels. Despite their excellent performance, it is often not easy to understand whether their remaining error stems from a limited 2dpose (visual) understanding, or from a failure to map 2d poses into 3dimensional positions. With the goal of understanding these sources of error, we set out to build a system that given 2d joint locations predicts 3d positions. Much to our surprise, we have found that, with current technology, “lifting” ground truth 2djoint locations to 3d space is a task that can be solved with a remarkably low error rate: a relatively simple deep feedforward network outperforms the best reported result by about 30% on Human3.6M, the largest publicly available 3d pose estimation benchmark. Furthermore, training our system on the output of an off-the-shelf state-of-the-art 2d detector (i.e., using images as input) yields state of the art results - this includes an array of systems that have been trained end-to-end specifically for this task. Our results indicate that a large portion of the error of modern deep 3d pose estimation systems stems from their visual analysis, and suggests directions to further advance the state of the art in 3d human pose estimation.