gebhart/patrepeval huggingface dataset:
PROTEIN SECONDARY STRUCTURE PREDICTION USING SUPPORT VECTOR MACHINES AND A NEW FEATURE REPRESENTATION (2006)

Knowledge of the secondary structure and solvent accessibility of a protein plays a vital role in the prediction of fold, and eventually the tertiary structure of the protein. A challenging issue of predicting protein secondary structure from sequence alone is addressed. Support vector machines (SVM) are employed for the classification and the SVM outputs are converted to posterior probabilities for multi-class classification. The effect of using Chou–Fasman parameters and physico-chemical parameters along with evolutionary information in the form of position specific scoring matrix (PSSM) is analyzed. These proposed methods are tested on the RS126 and CB513 datasets. A new dataset is curated (PSS504) using recent release of CATH. On the CB513 dataset, sevenfold cross-validation accuracy of 77.9% was obtained using the proposed encoding method. A new method of calculating the reliability index based on the number of votes and the Support Vector Machine decision value is also proposed. A blind test on the EVA dataset gives an average Q 3 accuracy of 74.5% and ranks in top five protein structure prediction methods. Supplementary material including datasets are available on .
Treatment of Rabbit Bullous Keratopathy with Precursors Derived from Cultured Human Corneal Endothelium (2005)

The findings demonstrate that culture of HCE can promote mass production of HCE precursors, determined by sphere-forming assay. Injection of precursors derived from cultured HCE into the anterior chamber is an effective treatment strategy for CE deficiency in a rabbit model.
Pressure-flow relationships and vascular impedance in man (1970)

Journal Article Pressure-flow relationships and vascular impedance in man Get access C. J. Mills, C. J. Mills 1 From the Cardiology Branch, National Heart Institute, National Institutes of Health, Bethesda, Maryland, U.S.A. and M.R.C. Cardiovascular Unit, Hammersmith Hospital, London 1M.R.C. Cardiovascular Unit, Royal Postgraduate Medical School, Ducane Road, London, W.12. Search for other works by this author on: Oxford Academic PubMed Google Scholar I. T. Gabe, I. T. Gabe 1 From the Cardiology Branch, National Heart Institute, National Institutes of Health, Bethesda, Maryland, U.S.A. and M.R.C. Cardiovascular Unit, Hammersmith Hospital, London 1M.R.C. Cardiovascular Unit, Royal Postgraduate Medical School, Ducane Road, London, W.12. Search for other works by this author on: Oxford Academic PubMed Google Scholar J. H. Gault, J. H. Gault From the Cardiology Branch, National Heart Institute, National Institutes of Health, Bethesda, Maryland, U.S.A. and M.R.C. Cardiovascular Unit, Hammersmith Hospital, London Search for other works by this author on: Oxford Academic PubMed Google Scholar D. T. Mason, D. T. Mason From the Cardiology Branch, National Heart Institute, National Institutes of Health, Bethesda, Maryland, U.S.A. and M.R.C. Cardiovascular Unit, Hammersmith Hospital, London Search for other works by this author on: Oxford Academic PubMed Google Scholar J. Ross, Jr., J. Ross, Jr. From the Cardiology Branch, National Heart Institute, National Institutes of Health, Bethesda, Maryland, U.S.A. and M.R.C. Cardiovascular Unit, Hammersmith Hospital, London Search for other works by this author on: Oxford Academic PubMed Google Scholar E. Braunwald, E. Braunwald From the Cardiology Branch, National Heart Institute, National Institutes of Health, Bethesda, Maryland, U.S.A. and M.R.C. Cardiovascular Unit, Hammersmith Hospital, London Search for other works by this author on: Oxford Academic PubMed Google Scholar J. P. Shillingford J. P. Shillingford 1 From the Cardiology Branch, National Heart Institute, National Institutes of Health, Bethesda, Maryland, U.S.A. and M.R.C. Cardiovascular Unit, Hammersmith Hospital, London 1M.R.C. Cardiovascular Unit, Royal Postgraduate Medical School, Ducane Road, London, W.12. Search for other works by this author on: Oxford Academic PubMed Google Scholar Cardiovascular Research, Volume 4, Issue 4, October 1970, Pages 405–417, https://doi.org/10.1093/cvr/4.4.405 Published: 01 October 1970 Article history Accepted: 21 January 1970 Published: 01 October 1970
Low Latency Stream Processing (2017)

Worldwide data production is increasing both in volume and velocity, and with this acceleration, data needs to be processed in streaming settings as opposed to the traditional store and process model. Distributed streaming frameworks are designed to process such data in real time with reasonable time constraints. Apache Heron is a production-ready large-scale distributed stream processing framework. The network is of utmost importance to scale streaming applications to large numbers of nodes with a reasonable latency. High performance computing (HPC) clusters feature interconnects that can perform at higher levels than traditional Ethernet. In this paper the authors present their findings on integrating Apache Heron distributed stream processing system with two high performance interconnects; Infiniband and Intel Omni-Path and show that they can be utilized to improve performance of distributed streaming applications.
5.7 A 132dB Single-Exposure-Dynamic-Range CMOS Image Sensor with High Temperature Tolerance (2020)

Dynamic range is becoming a key performance parameter for CMOS image sensors (CISs), especially for the surveillance and automotive fields. Several well-known multi-exposure methods are widely used to expand dynamic range (DR). However, those methods cause issues such as motion artifacts and light emitting diode (LED) flickering with the composite images. Therefore, the single-exposure method is critical to the quality of high-DR images. The most obvious way to expand single-exposure DR is by employing in-pixel capacitors. One of the most well-known technologies with in-pixel capacitors is the lateral overflow integration capacitor (LOFIC), which is characterized by a unique signal read-out method for in-pixel capacitors [1], [2]. Also, a CIS that uses an organic-photoconductive-film and an in-pixel capacitor is reported in [3]. Spatial sampling with sensitivity ratio is another common method to expand single-exposure DR [4]. However, assuming practical resolution, the LOFIC technology or spatial sampling with sensitivity ratio can achieve less than 100dB single-exposure DR. A method combining spatial sampling with sensitivity ratio and an in-pixel capacitor is also presented in [5] to expand its single-exposure DR. This sub-pixel architecture can achieve over 120dB single-exposure DR. But another challenge arises: at high temperature, the degradation in signal-to-noise ratio (SNR) at the composite boundary become significant. In this work, we present a prototype of 5.4Mpixel stacked back-illuminated CIS using the sub-pixel architecture with high-temperature tolerance.
Minimal Engraftment of Human CD34 <sup>+</sup> Cells Mobilized From Healthy Donors in the Infarcted Heart of Athymic Nude Rats (2008)

Cell-based regenerative therapy may be useful for treatment of acute myocardial infarction (AMI). Animal xenograft models are ideally suited for preclinical studies evaluating prospective treatment regimes, identifying candidate human cell populations, and gaining mechanistic insight. Here we address whether the athymic nude rat is suitable as a xenograft model for the study of human CD34+ mobilized peripheral blood stem cells (M-PBSCs) in the repair of AMI. We injected human donor cells into the infarct border of athymic nude rats with surgically induced AMI and evaluated engraftment and functional improvement. We found no human engraftment by immunofluorescence staining at 14 days after transplantation or functional improvement at days 2 and 14 compared to controls. The lack of long-term human engraftment was furthermore confirmed in a time series study analyzing animals at 0, 24, 48, 72, and 96 h after transplantation. Although we found fluorescent microbeads coinjected with human CD34+ M-PBSCs at all time points, the number of donor cells rapidly declined and became undetectable at 96 h. CD34+ M-PBSCs from the same donor used to treat athymic nude rat hearts engrafted the bone marrow of nonobese diabetic/severe combined immunodeficient mice 8-10 weeks after transplantation. In conclusion, human CD34+ M-PBSCs with confirmed hematopoietic engraftment potential rapidly disappeared from the site of injury following intramyocardial transplantation in the athymic nude rat AMI model.
THE “TIMES” AS A PROPHET (2012)

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Joint Estimation of Model Parameters and Outlier Effects in Time Series (1993)

Time series data are often subject to uncontrolled or unexpected interventions, from which various types of outlying observations are produced. Outliers in time series, depending on their nature, may have a moderate to significant impact on the effectiveness of the Standard methodology for time series analysis with respect to model identification, estimation, and forecasting. In this article we use an iterative outlier detection and adjustment procedure to obtain joint estimates of model parameters and outlier effects. Four types of outliers are considered, and the issues of spurious and masking effects are discussed. The major differences between this procedure and those proposed in earlier literature include (a) the types and effects of outliers are obtained based on less contaminated estimates of model parameters, (b) the outlier effects are estimated simultaneously using multiple regression, and (c) the model parameters and the outlier effects are estimated jointly. The sampling behavior of the test statistics for cases of small to large sample sizes is investigated through a Simulation study. The performance of the procedure is examined over a representative set of outlier cases. We find that the proposed procedure performs well in terms of detecting outliers and obtaining unbiased Parameter estimates. An example is used to illustrate the application of the proposed procedure. It is demonstrated that this procedure performs effectively in avoiding spurious outliers and masking effects. The model parameter estimates obtained from the proposed procedure are typically very close to those estimated by the exact maximum likelihood method using an intervention model to incorporate the outliers.
Flycasting: On the Fly Broadcasting. (2001)

In recent years, the popularity of online radio has exploded. This new entertainment medium affords an opportunity not available to conventional broadcast radio: the instantaneous listening audience can be known, or what is more important, the musical tastes of the current listening audience can be known. Thus, it is possible in the new medium to tailor the playlist in real-time to the musical tastes of the listening audience. We summarize our method, termed flycasting, for using collaborative filtering techniques to generate a playlist in real-time based on the request histories of the current listening audience.
Application of protein engineering to enhance crystallizability and improve crystal properties (2010)

Until recently, protein crystallization has mostly been regarded as a stochastic event over which the investigator has little or no control. With the dramatic technological advances in synchrotron-radiation sources and detectors and the equally impressive progress in crystallographic software, including automated model building and validation, crystallization has increasingly become the rate-limiting step in X-ray diffraction studies of macromolecules. However, with the advent of recombinant methods it has also become possible to engineer target proteins and their complexes for higher propensity to form crystals with desirable X-ray diffraction qualities. As most proteins that are under investigation today are obtained by heterologous overexpression, these techniques hold the promise of becoming routine tools with the potential to transform classical crystallization screening into a more rational high-success-rate approach. This article presents an overview of protein-engineering methods designed to enhance crystallizability and discusses a number of examples of their successful application.
Epilepsy surgery, vision, and driving: What has surgery taught us and could modern imaging reduce the risk of visual deficits? (2013)

Up to 40% of patients with temporal lobe epilepsy (TLE) are refractory to medication. Surgery is an effective treatment but may cause new neurologic deficits including visual field deficits (VFDs). The ability to drive after surgery is a key goal, but a postoperative VFD precludes driving in 4-50% of patients even if seizure-free. VFDs are a consequence of damage to the most anterior portion of the optic radiation, Meyer's loop. Anatomic dissection reveals that the anterior extent of Meyer's loop is highly variable and may clothe the temporal horn, a key landmark entered during temporal lobe epilepsy surgery. Experience from surgery since the 1940s has shown that VFDs are common (48-100%) and that the degree of resection affects the frequency or severity of the deficit. The pseudowedge shape of the deficit has led to a revised retinotopic model of the organization of the optic radiation. Evidence suggests that the left optic radiation is more anterior and thus at greater risk. Alternative surgical approaches, such as selective amygdalo-hippocampectomy, may reduce this risk, but evidence is conflicting or lacking. The optic radiation can be delineated in vivo using diffusion tensor imaging tractography, which has been shown to be useful in predicting the postoperative VFDs and in surgical planning. These data are now being used for surgical guidance with the aim of reducing the severity of VFDs. Compensation for brain shift occurring during surgery can be performed using intraoperative magnetic resonance imaging (MRI), but the additional utility of this expensive technique remains unproven.
Acceleration of myeloid recovery from cyclophosphamide-induced leukopenia by pretreatment with Bacillus Calmette-Guérin. (1978)

Treatment of C57BL/6 mice with Bacillus Calmette-Guérin i.p. 8 days prior to the induction of leukopenia by cyclophosphamide (300 mg/kg i.p.) significantly (p less than 0.002) increased peripheral granulocyte counts on each day during the recovery from leukopenia. The recovery of lymphocyte counts was unaffected by Bacillus Calmette-Guérin treatment. Further experiments indicated that the accelerated granulocyte recovery was the result of an earlier initiation of the recovery process rather than of the release of stored granulocytes. Bacillus Calmette-Guérin may have clinical value as a stimulator of myelopoiesis in patients rendered leukopenic by antineoplastic chemotherapy.
Quantum cascade unipolar intersubband light emitting diodes in the 8–13 μm wavelength region (1995)

An intersubband electroluminescent light source in the 8–13 μm spectral region is reported. The structure was grown by molecular beam epitaxy in the lattice matched AlInAs/GaInAs material system and consists of coupled-quantum-well active regions alternated with compositionally graded electron injecting regions. The device operates in the temperature range from 10 to 200 K with measured integrated optical powers up to 6 nW. The peak of the electroluminescent spectrum blue shifts linearly with current due to the Stark effect. From these data and straightforward electrostatic considerations we obtain the intersubband nonradiative electron lifetime, in good agreement with the calculations.
Behavioral Therapies for Drug Abuse (2005)

The past three decades have been marked by tremendous progress in behavioral therapies for drug abuse and dependence, as well as advances in the conceptualization of approaches to development of behavioral therapies. Cognitive behavior therapy, contingency management, couples and family therapy, and a variety of other types of behavioral treatment have been shown to be potent interventions for several forms of drug addiction, and scientific progress has also been greatly facilitated by the articulation of a systematic approach to the development, evaluation, and dissemination of behavioral therapies. The authors review recent progress in strategies for the development of behavioral therapies for drug and alcohol abuse and dependence and discuss the range of effective behavioral therapies that are currently available.
STEREOCHEMICAL CHARACTERIZATION OF HYDRATED AND DEHYDRATED CRYSTALS OF N-ACETYLNEURAMINIC ACID AS REVEALED BY THE IR,CD, AND 13C CROSS POLARIZATION-MAGIC ANGLE SPINNING NMR SPECTROSCOPY (1984)

Abstract Fine needle (dehydrated) and prism (hydrated) crystals were obtained by changing condition of recrystallization of N-acetylneuraminic acid. The anomeric configuration of both was confirmed as the β-form. We found that local conformation of N-acetyl and glycerol moieties of the fine needles is significantly altered as compared with that of the prisms.
The Claisen Rearrangement. I. A Kinetic Study of the Rearrangement of Allyl <i>p</i>-Tolyl Ether in Diphenyl Ether Solution (1939)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTThe Claisen Rearrangement. I. A Kinetic Study of the Rearrangement of Allyl p-Tolyl Ether in Diphenyl Ether SolutionJohn F. Kincaid and D. S. TarbellCite this: J. Am. Chem. Soc. 1939, 61, 11, 3085–3089Publication Date (Print):November 1, 1939Publication History Published online1 May 2002Published inissue 1 November 1939https://pubs.acs.org/doi/10.1021/ja01266a032https://doi.org/10.1021/ja01266a032research-articleACS PublicationsRequest reuse permissionsArticle Views242Altmetric-Citations37LEARN 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
Collective context-aware topic models for entity disambiguation (2012)

A crucial step in adding structure to unstructured data is to identify references to entities and disambiguate them. Such disambiguated references can help enhance readability and draw similarities across different pieces of running text in an automated fashion. Previous research has tackled this problem by first forming a catalog of entities from a knowledge base, such as Wikipedia, and then using this catalog to disambiguate references in unseen text. However, most of the previously proposed models either do not use all text in the knowledge base, potentially missing out on discriminative features, or do not exploit word-entity proximity to learn high-quality catalogs. In this work, we propose topic models that keep track of the context of every word in the knowledge base; so that words appearing within the same context as an entity are more likely to be associated with that entity. Thus, our topic models utilize all text present in the knowledge base and help learn high-quality catalogs. Our models also learn groups of co-occurring entities thus enabling collective disambiguation. Unlike most previous topic models, our models are non-parametric and do not require the user to specify the exact number of groups present in the knowledge base. In experiments performed on an extract of Wikipedia containing almost 60,000 references, our models outperform SVM-based baselines by as much as 18% in terms of disambiguation accuracy translating to an increment of almost 11,000 correctly disambiguated references.
<i>Arbiter-Recall</i> (2009)

In this paper, we propose Arbiter-Recall, which is a new kind of function code update management. When a function requires updating, Arbiter-Recall adaptively selects an energy-efficient method, deciding between a remote-call and a local-call after updating a function. The run-time decision is made by analyzing the cost of a remote-call, and a local-call with dynamic function update in terms of the energy consumption. Simulation results show that Arbiter-Recall significantly reduces energy consumption compared to existing schemes.
Detection of drugs of abuse by Raman spectroscopy (2010)

Raman spectroscopy can provide rapid, sensitive, non-destructive analysis of a variety of drug types (e.g. amphetamines, alkaloids, designer drugs, and date rape drugs). This review concentrates on developments in the past 15 years. It considers identification and quantification of drugs of abuse in different types of forensic evidence, including bulk street drugs as well as traces found in drinks, on fibres/clothing, in fingerprints, on fingernails, on bank notes, and in body fluids.
Parsing, Linear Asymmetry, and Wh -Movement (1992)

This paper will be concerned with the interaction of syntactic theory with models of sentence processing, particularly in relation to the abstract syntactic level of Logical Form (LF). Since LF representations cannot be read directly off the surface structure of a sentence, but must somehow be &quot;constructed&quot; during a parse, they pose potential problems for on-line processing; these are particularly acute for long-range dependencies, which at LF are not flagged by overt fillers, as in the case of syntactic movement. It will be argued that an appropriate division of labour between the grammar and the parser can provide a solution to these processing problems. Moreover this solution, which relies crucially on the left-right linear nature of the processing mechanism, can also shed light on some otherwise unexplained linear asymmetries in the theory of movement rules. To be more precise, it will be argued that long-range movement at LF is always rightward,
Smoking and COPD: what really are the risks? (2006)

Health care technology is continuously moving forward with great advances in all fields of medicine. The way in which health care is delivered has been stuck in a primary care/secondary care model, which is failing to meet patients9 needs. Existing structures are inefficient because they do not maximise use of skills. A new way of delivering services is proposed using an intermediate level specialist--a general practitioner with a special clinical interest (GPSCI), to increase access at a location close to the patient while giving support to the wider primary health community. We explore how the role of GPSCI might work using the field of respiratory medicine as an exemplar. The concept is transferable to other therapeutic areas.
A Procedure for Quantitative Determination of the Diaphorase Activity of Connective Tissue (1963)

Abstract A quantitative procedure is described in which the diaphorase activity of samples with a high connective-tissue content is measured visually through determination of the decolorization time of 2,6-dichlorophenolindophenol in the presence of DPNH and NaCN. The decolorization time values are directly converted to standard Mahler diaphorase units.