gebhart/patrepeval huggingface dataset:
An overlapping-feature-based phonological model incorporating linguistic constraints: Applications to speech recognition (2002)

Modeling phonological units of speech is a critical issue in speech recognition. In this paper, our recent development of an overlapping-feature-based phonological model that represents long-span contextual dependency in speech acoustics is reported. In this model, high-level linguistic constraints are incorporated in automatic construction of the patterns of feature-overlapping and of the hidden Markov model (HMM) states induced by such patterns. The main linguistic information explored includes word and phrase boundaries, morpheme, syllable, syllable constituent categories, and word stress. A consistent computational framework developed for the construction of the feature-based model and the major components of the model are described. Experimental results on the use of the overlapping-feature model in an HMM-based system for speech recognition show improvements over the conventional triphone-based phonological model.
Persistent Persister Misperceptions (2016)

Persister cells survive antibiotic treatment due to their lack of metabolism, rather than through genetic change, as shown via four seminal experiments conducted by the discoverers of the phenotype (Hobby et al., 1942; Bigger, 1944). Unfortunately, over seven decades of persister cell research, the literature has been populated by misperceptions that do not withstand scrutiny. This opinion piece examines some of those misunderstandings in the literature with the hope that by shining some light on these inaccuracies, the field may be advanced and subsequent manuscripts may be reviewed more critically.
Universal polarization (2014)

A method to polarize channels universally is introduced. The method is based on combining two distinct channels in each polarization step as opposed to Arikan's original method of combining identical channels. This creates an equal number of only two types of channels, one of which becomes progressively better as the other becomes worse. The locations of the good channels are independent of the underlying channel, guaranteeing universality at rate 1/2. The method is generalized to construct codes of arbitrary rates.
Adaptive charging network for electric vehicles (2016)

We describe a snapshot of an adaptive charging network (ACN) for electric vehicles at Caltech. We overview the system design, from the power distribution system to advanced charger design to control and communication system and the software system that integrates the overall network. We present a simple mathematical formulation of the charging problem. We have collected three months' of baseline charging data from the Caltech ACN. We demonstrate, by simulating a charging algorithm on the baseline data, the large potential benefit of ACN in saving infrastructure costs.
Chimaeric anti‐interleukin 6 monoclonal antibodies in the treatment of advanced multiple myeloma: a phase I dose‐escalating study (1998)

Interleukin 6 plays a key role in the pathogenesis of multiple myeloma (MM). Therefore we conducted a phase I dose-escalating study with chimaeric monoclonal anti-IL6 antibodies (cMab) in MM patients resistant to second-line chemotherapy. The cMab (CLB IL6/8; Kd 6.25 x 10(-12)M) was given in two cycles of 14 daily infusions, starting on day 1 and day 28, repectively, with a daily dose of 5 mg in patients 1-3, 10 mg in patients 4-6, 20 mg in patients 7-9 and 40mg in patients 10-12 (total dose 140 mg, 280mg, 560 mg and 1120 mg of anti-IL6, respectively). 11/12 patients had elevated pretreatment IL6 levels. Except for transient thrombocytopenia in two patients there was no toxicity. There were no changes in haemoglobin levels, granulocyte count, liver enzymes or renal function. No human anti-chimaeric antibodies were induced. This was also reflected in a long half-life time of the cMab (median 17.8 d), resulting in accumulation of the anti-IL6 cMab and high levels of circulating IL6. However, this was in the form of biologically inactive IL6/cMab complexes and did not result in acceleration of the disease. Although C-reactive protein (CRP) levels were decreased to below detection level in 11/12 patients, indicating effective IL6 blocking, none of the patients achieved a response according to the standard criteria. We conclude that this chimaeric anti-IL6 Mab has a low toxicity, low immunogenicity and a long T1/2. A dose of 40 mg/d for 14 d can safely be used in future phase II studies.
Dental Plaque (1995)

Dental plaque was probably the first biofilm to have been studied in terms of either its microbial composition or its sensitivity to antimicrobial agents. In the seventeenth century, Anton van Leeuwenhoek pioneered the approach of studying biofilms by direct microscopic observation when he reported on the diversity and high numbers of ‘animalcules’ present in scrapings taken from around human teeth. He also conducted early studies on biocides when he established the resistance of these ‘sticky animalcules’ to salt and vinegar.
Peptide immunization can elicit malaria protein-specific memory helper but not proliferative T cells. (1992)

We have studied the proliferative and helper T cell responses in mice to a malaria sporozoite vaccine candidate currently undergoing human trials. Following immunization of B10 (I-Ab) mice with the purified recombinant baculovirus-expressed Plasmodium falciparum circumsporozoite protein, draining lymph node cells were challenged in vitro with a series of overlapping synthetic peptides which span the construct. Surprisingly, only a single peptide from the protein was immunodominant in that it could reproducibly elicit a significant proliferative response from the immunized lymph node cells. This epitope, (NANP)n, is also the repetitive immunodominant B cell epitope of the protein. However, immunization of mice with synthetic peptides revealed at least 3 cryptic proliferative epitopes--epitopes not revealed by protein immunization--two of which represent conserved regions of the protein. While cryptic peptide-immunization did not elicit protein-specific proliferative T cells, it did reveal protein-specific helper T cells, as shown by an in vivo assay. Identification of "cryptic" epitopes not only for malaria but for other infectious diseases may aid vaccine design, especially in situations where subunit vaccines are sought.
Capillary gas chromatography/mass spectrometry with a microwave discharge interface for determination of radioactive carbon-containing compounds (1982)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCapillary gas chromatography/mass spectrometry with a microwave discharge interface for determination of radioactive carbon-containing compoundsSanford P. Markey and Fred P. AbramsonCite this: Anal. Chem. 1982, 54, 13, 2375–2376Publication Date (Print):November 1, 1982Publication History Published online1 May 2002Published inissue 1 November 1982https://pubs.acs.org/doi/10.1021/ac00250a053https://doi.org/10.1021/ac00250a053research-articleACS PublicationsRequest reuse permissionsArticle Views81Altmetric-Citations32LEARN 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
Isolation of the gene encoding the Hin recombinational enhancer binding protein. (1988)

In vitro DNA inversion mediated by the protein Hin requires the presence of a recombinational enhancer sequence located in cis relative to the recombination sites and a protein, Fis, which binds to the enhancer. We have cloned and determined the primary sequence of the gene encoding Fis. The deduced amino acid sequence of Fis indicates that the protein is 98 amino acids long and contains a potential helix-turn-helix DNA binding motif at its carboxyl terminus. The gene encoding Fis maps at 72 min on the Escherichia coli chromosome. The construction of mutant strains of E. coli that lack a functional fis gene demonstrates that Fis is not essential for cell growth under laboratory conditions but is required for high rates of Hin-mediated site-specific inversion in vivo.
Machine learning for neuroscience (2011)

What is machine learning? Machine learning is a type of statistics that places particular emphasis on the use of advanced computational algorithms. As computers become more powerful, and modern experimental methods in areas such as imaging generate vast bodies of data, machine learning is becoming ever more important for extracting reliable and meaningful relationships and for making accurate predictions. Key strands of modern machine learning grew out of attempts to understand how large numbers of interconnected, more or less neuron-like elements could learn to achieve behaviourally meaningful computations and to extract useful features from images or sound waves. By the 1990s, key approaches had converged on an elegant framework called ‘graphical models’, explained in Koller and Friedman, in which the nodes of a graph represent variables such as edges and corners in an image, or phonemes and words in speech. The probabilistic relationships between nodes are represented by conditional probability tables or simple functions whose parameters are learned from the data. There are three main problems in fitting graphical models to data: inference, parameter learning and structure learning. The inference problem is how to infer the probable values of unobserved variables when the values of a subset of the variables have been observed, and is a problem that perceptual systems need to solve if they are to infer the hidden causes of their sensory input. The parameter-learning problem is how to adjust the parameters governing the way in which one variable influences another, so that the graphical model is a better fit to some observed data. In the brain, this is presumably done by changing synapse strengths. The structure-learning problem is how to decide which unobserved variables are needed and how they must be connected to model the correlations between observed variables. In the brain, evolution and early pruning of connections presumably have a large role to play in determining the structure. Could you provide a brief description of the methods of machine learning? Machine learning can be divided into three parts: 1) in supervised learning, the aim is to predict a class label or a real value from an input (classifying objects in images or predicting the future value of a stock are examples of this type of learning); 2) in unsupervised learning, the aim is to discover good features for representing the input data; and 3) in reinforcement learning, the aim is to discover what action should be performed next in order to maximize the eventual payoff.
Elevated RABEX-5 expression predicts poor prognosis in non-small-cell lung cancer. (2015)

RABEX-5 has been studied in various solid tumors, but its role in non-small-cell lung cancer (NSCLC) remains unknown. This study is aimed to investigate the expression, the potential relevance to clinicopathological characters and prognostic significance of RABEX-5 in patients with NSCLC. A total of 120 NSCLC patients who underwent radical surgery between 2005 and 2010 were enrolled in the study. The clinicopathological data and survival time were reviewed. The mRNA and protein expression of RABEX-5 from the paired tumor specimens and adjacent normal tissues were determined, and its relationship with clinicopathological variables and prognosis was analyzed. Univariate and multivariate analyses were performed to investigate the prognostic significance of RABEX-5 for NSCLC. We found the mRNA and protein expression levels of RABEX-5 were significantly elevated in NSCLC tissues. The increased RABEX-5 expression was correlated strongly with tumor recurrence (P=0.005). The 5-year median OS and DFS were significantly shorter in the higher RABEX-5 expression group compared to that in the lower RABEX-5 expression group. Multivariate Cox analysis indicated that high RABEX-5 expression was an independent prognostic factor for OS and DFS (P<0.001). This data suggests that RABEX-5 is a potentially useful indicator for a poor prognosis for NSCLC.
Pain as a disease: an overview (2017)

The acknowledgment of pain as a pathologic entity in its own right remains debated. Notwithstanding the data showing the burden of pain as a disease, an ultimate recognition of the pathologic nature of this condition is lacking. In this study, we analyze the notion of pain as a disease through an historical overview of its several conceptualizations and report the main evidence supporting this notion. We believe that a clear definition of pain as a disease is necessary, especially considering the enormous global burden of this condition. Indeed, the recognition of pain as a definite pathologic state is crucial to raise awareness about this neglected global health problem and to promote the exploration of new specific therapeutic approaches.
Optical control of molecular dynamics in a liquid (2002)

We report the results of a study of the influence of solvent fluctuations on the efficiency of selective population transfer from an initial state to a designated target state of a solute molecule. Our model of the influence of liquid fluctuations on the states of the solute assumes that dephasing is the dominant relaxation process, and utilizes an analog of the Kubo stochastic theory of line shape. The solvent fluctuations are represented as a Gaussian random process that independently modulates each of the energy levels of the solute molecule. For typical liquid densities the maximum amplitude of these fluctuations is taken to be of the order of 150 cm−1, and the correlation time of the fluctuations is taken to be of the order of a few hundred femtoseconds, but we have also explored the effects of varying the fluctuation frequency and correlation time. It is shown that STIRAP (stimulated Raman adiabatic passage) generated population transfer to a designated target state of the solute remains efficient when the frequency of the solvent fluctuations is large or small relative to the inverse of the widths of the pump and Stokes pulses. It is further shown that extended STIRAP generated selective transfer to one of a pair of degenerate states of the solute remains efficient under the same conditions. These results suggest, subject to the accuracy of the representation of the influence of the solvent on the solute, that it should be possible, using coherent superpositions of states generated with picosecond excitation, to control population transfer, hence reactivity, for a class of reactions carried out in the liquid phase.
New photosensitive polymer composites based on oriented porous polyethylene filled with azobenzene‐containing LC mixture: reversible photomodulation of dichroism and birefringence (2008)

A new type of polymer–liquid crystal (LC) composite with photovariable dichroism and birefringence is described. Porous stretched polyethylene (PE) films with pores size in the range 50–500 nm were used as polymer matrices. A photochromic cholesteric mixture based on a commercial nematic mixture doped with azobenzene and merocyanine dopants was prepared. Highly birefringent deeply coloured flexible films possessing strong dichroism were obtained by introduction of the photochromic LC mixture into the stretched PE films by capillary forces. UV irradiation leads to E–Z isomerisation of azobenzene‐containing molecules inside the composite films and results in a significant decrease of the dichroism almost down to zero due to isothermal transition from the mesophase to isotropic melt stimulated by the isomerisation process. This process is reversible and the visible light irradiation or annealing lead to a back transition to the uniaxial birefringent and dichroic state. The composite films show a high fatigue resistance during the alternating cycles of the UV–visible irradiation. These novel composites can be considered as promising materials for photonics and optical information processing.
Angiotensin-Converting Enzyme Inhibitors in Heart Failure (1991)

The prognosis for clinical congestive heart failure remains poor even with modern treatment as severe ventricular dysfunction is often present at the time of clinical presentation. A substantial improvement in prognosis might be achieved through earlier intervention and a preventive approach to treatment following myocardial infarction to delay progressive ventricular dilation and the occurrence of clinical heart failure. The rationale for treatment of left ventricular dysfunction following myocardial infarction is further supported by the prognostic importance of ventricular dilation and by experimental animal studies that demonstrate that converting enzyme inhibition can improve ventricular function and survival following myocardial infarction. Similarly, clinical studies have demonstrated that converting enzyme inhibition can improve ventricular function during the year following transmural myocardial infarction. Possible mechanisms of action that require further understanding include ventricular afterload reduction and direct coronary and tissue effects of angiotensin II blockade. The further benefit to be obtained from very early intervention following myocardial infarction is currently being addressed in several studies. Large-scale studies also in progress should determine the mortality benefit of such treatment. Further questions that remain include the optimal timing of intervention, comparison with other treatments such as nitrates and beta-blockade, and also the use of appropriate combination treatments.
Opioid-induced tolerance and dependence in mice is modulated by the distance between pharmacophores in a bivalent ligand series (2005)

Given the mounting evidence for involvement of delta opioid receptors in the tolerance and physical dependence of mu opioid receptor agonists, we have investigated the possible physical interaction between mu and delta opioid receptors by using bivalent ligands. Based on reports of suppression of antinociceptive tolerance by the delta antagonist naltrindole (NTI), bivalent ligands [mu-delta agonist-antagonist (MDAN) series] that contain different length spacers, and pharmacophores derived from NTI and the mu agonist oxymorphone, have been synthesized and evaluated by intracerebroventricular (i.c.v.) administration in the tail-flick test in mice. In acute i.c.v. studies, the bivalent ligands functioned as agonists with potencies ranging from 1.6- to 45-fold greater than morphine. In contrast, the monovalent mu agonist analogues were substantially more potent than the MDAN congeners and were essentially equipotent with one another and oxymorphone. Pretreatment with NTI decreased the ED(50) values for MDAN-19 to a greater degree than for MDAN-16 but had no effect on MDAN-21. Chronic i.c.v. studies revealed that MDAN ligands whose spacer was 16 atoms or longer produced less dependence than either morphine or mu monovalent control MA-19. On the other hand, both physical dependence and tolerance were suppressed at MDAN spacer lengths of 19 atoms or greater. These data suggest that physical interaction between the mu and delta opioid receptors modulates mu-mediated tolerance and dependence. Because MDAN-21 was found to be 50-fold more potent than morphine by the i.v. route (i.v.), it offers a previously uncharacterized approach for the development of analgesics devoid of tolerance and dependence.
Systematic Study of New Rare Earth Element−Iron−Antimony Skutterudites Synthesized Using Multilayer Precursors (1997)

We have synthesized a series of stable and metastable rare earth element−iron antimonides, controlling both composition and structure using multilayer reactants. The stable rare earth iron element antimonides have the filled skutterudite structure (LaFe4P12) with a stoichiometry of 1 for the rare earth element. The metastable rare earth element−iron antimonides could be prepared with the entire sequence of rare earth elements. The lattice parameters of these metastable compounds were always larger than those of the corresponding more stable analog, and the occupancy of the rare earth element cation was found to be less than 1. Reitveld analysis of Lu1-xFe4Sb12 suggests that the late rare earth element compounds have a new distorted filled skutterudite structure. Structural trends are discussed in terms of their potential use as thermoelectric materials.
Role of glutamic acid 177 of the ricin toxin A chain in enzymatic inactivation of ribosomes. (1989)

The gene for the A chain of ricin toxin was fused to a beta-galactosidase marker cistron via a DNA sequence encoding a short collagen linker, and the tripartite fusion protein was expressed in Escherichia coli. Site-specific mutagenesis was used to change glutamic acid residue 177 to aspartic acid or alanine. When the mutant proteins were expressed, purified, and tested quantitatively for enzymatic activity, the carboxylate function at position 177 was found not to be absolutely essential for ricin toxin A-chain catalysis.
Electroactive Polymer Gels (2010)

This chapter covers the main features and material examples of the electric field activated electroactive polymers. This class of electroactive polymers (EAPs) is very attractive in performing the energy conversion between the electric and mechanical form and hence can be utilized as both solid-state electromechanical actuators and motion sensors. As will be discussed in the chapter, the electromechanical response in this class of polymers can be linear such as in typical piezoelectric polymers or electrets, or nonlinear such as the electrostrictive polymers and Maxwell stress effect induced response. Most of the piezoelectric polymers under investigation and in commercial use are based on poled ferroelectric polymers including PVDF-based and nylon-based ferroelectric polymers. This chapter will discuss in detail the properties of these ferroelectric polymers. In comparison with the electromechanical responses in inorganic materials, the electromechanical activity in these polymers is relatively low. In order to significantly improve the electromechanical properties in electric field activated EAPs, new avenues or approaches have to be explored. From the basic material consideration, these approaches include the strain change accompanied with the molecular conformation change, due to the polar vector reorientation, and from the Maxwell stress effect in soft polymer elastomers. This chapter will discuss the recent results based on those approaches, which have produced remarkable improvements in terms of the electric-field-induced strain level, elastic energy density, and electromechanical conversion efficiency in the electric field activated EAPs.