gebhart/patrepeval huggingface dataset:
Structure and expression of the Chinese hamster thymidine kinase gene. (1986)

My colleagues and I have cloned a nearly full-length Chinese hamster thymidine kinase (TK) cDNA in a lambda gt10 vector and characterized this cDNA by nucleotide sequencing. The hamster TK protein is encoded in this cDNA by a 702-base-pair open reading frame which specifies a 25,625-dalton protein closely homologous to the previously described human and chicken TK proteins. Using cDNA nucleotide sequence data in conjunction with sequence data derived from selected subclones of the hamster TK gene recombinant phage lambda HaTK.5, we have resolved the structure of the TK gene, finding the 1,219 base pairs of the cDNA sequence to be distributed through 11.2 kilobases of genomic DNA in at least seven exon segments. In addition, we have constructed a variety of Chinese hamster TK minigenes and exonuclease III-S1 derivatives of these genes which have permitted us to define the limits of the Chinese hamster TK gene promoter and demonstrate that efficient TK transformation of Ltk- cells by TK minigenes depends on the presence of both TK intervening sequences and sequences 3' to the site of mRNA polyadenylation.
Stereoselective synthesis of (.+-.)-11-hydroxy-trans-8-dodecenoic acid from 10-undecenoic acid (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStereoselective synthesis of (.+-.)-11-hydroxy-trans-8-dodecenoic acid from 10-undecenoic acidToshikazu Hirao, Kenichiro Hayashi, Yoshimi Fujihara, Yoshiki Ohshiro, and Toshio AgawaCite this: J. Org. Chem. 1985, 50, 2, 279–281Publication Date (Print):January 1, 1985Publication History Published online1 May 2002Published inissue 1 January 1985https://pubs.acs.org/doi/10.1021/jo00202a027https://doi.org/10.1021/jo00202a027research-articleACS PublicationsRequest reuse permissionsArticle Views185Altmetric-Citations13LEARN 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
Temperature‐induced reversible conformational change in the first 100 residues of α‐synuclein (2006)

Natively disordered proteins are a growing class of anomalies to the structure-function paradigm. The natively disordered protein alpha-synuclein is the primary component of Lewy bodies, the cellular hallmark of Parkinson's disease. We noticed a dramatic difference in dilute solution 1H-15N Heteronuclear Single Quantum Coherence (HSQC) spectra of wild-type alpha-synuclein and two disease-related mutants (A30P and A53T), with spectra collected at 35 degrees C showing fewer cross-peaks than spectra acquired at 10 degrees C. Here, we show the change to be the result of a reversible conformational exchange linked to an increase in hydrodynamic radius and secondary structure as the temperature is raised. Combined with analytical ultracentrifugation data showing alpha-synuclein to be monomeric at both temperatures, we conclude that the poor quality of the 1H-15N HSQC spectra obtained at 35 degrees C is due to conformational fluctuations that occur on the proton chemical shift time scale. Using a truncated variant of alpha-synuclein, we show the conformational exchange occurs in the first 100 amino acids of the protein. Our data illustrate a key difference between globular and natively disordered proteins. The properties of globular proteins change little with solution conditions until they denature cooperatively, but the properties of natively disordered proteins can vary dramatically with solution conditions.
Structure-guided design of β-secretase (BACE-1) inhibitors (2007)

β-secretase (BACE-1) is a membrane-tethered aspartyl protease that serves as the rate-limiting enzyme in processing the amyloid precursor protein (APP) and, thus, is believed to play a central role in the neurodegenerative disorder, Alzheimer's disease. Due to the availability of X-ray crystal structures for the soluble domain of BACE-1, structure-based methods have been widely employed in the design of BACE-1 inhibitors. A variety of computational methods have been used, ranging from quantum mechanical studies to molecular dynamics calculations and scoring methods, all aimed at understanding the unique chemical features of the BACE-1 active site. However, BACE-1 has proven to be a difficult target due to its extended active site, its intrinsic flexibility and the requirement for brain penetration.
Multi-media Applications and Imprecise Computation (2005)

As feature sizes continue to decrease and clock rates and device count on a VLSI chip increase, it becomes increasingly more difficult to maintain yields at their present levels. Process variation, noise and spot defects create very costly problems for our industry. Luckily, in the domain of multi-media, there exists a large body of functions where computational results need not always be correct. We show that for many VLSI implementations of signal processing algorithms, such as MPEG and JPEG encoders, a significant proportion of chips having low levels of defects provide erroneous but acceptable results. We introduce the concept of error-tolerance, and mention related issues needed to support this concept, including ways for specifying performance, design techniques that consider yield, test techniques for quantifying erroneous behavior, and finally the issue of marketing. The motivation for this work is to significantly increase the effective yield of a process, encourage the implementation of complex data processing chips, and drastically reduce chip costs.
Creación y aplicación de un programa informatizado basado en el DAT-AR para optimizar el rendimiento intelectual (1997)

El objetivo principal de este articulo consiste en poner a prueba la efectividad de un Programa Informatizado, basado en el test de inteligencia DAT-AR, para su aplicacion a ninos de 13-14 anos, de la zona de Barcelona, con la finalidad de optimizar su rendimiento intelectual. La valoracion de su eficacia se ha realizado mediante el contraste intragrupo entre el pretest y el postest basados en el Raven General y mediante otros contrastes intergrupos consistentes en comparar la ejecucion del grupo que sigue el programa con el que solo sigue las clases normales. Como resultado se constata la superioridad del grupo que sigue el programa informatizado.
The Ktr1p, Ktr3p, and Kre2p/Mnt1p Mannosyltransferases Participate in the Elaboration of Yeast O- andN-linked Carbohydrate Chains (1997)

We have determined a role for Ktr1p and Ktr3p as mannosyltransferases in the synthesis of the carbohydrate chains attached to Saccharomyces cerevisiae O- and N-modified proteins. KTR1 and KTR3 encode related proteins that are highly similar to the Kre2p/Mnt1p Golgi alpha1,2-mannosyltransferase (Lussier, M., Camirand, A., Sdicu, A.-M., and Bussey, H. (1993) Yeast 9, 1057-1063; Mallet, L., Bussereau, F., and Jacquet, M. (1994) Yeast 10, 819-831). Examination of the electrophoretic mobility of a specifically O-linked protein from mutants and an analysis of their total O-linked mannosyl chains demonstrates that Ktr1p, Ktr3p, and Kre2p/Mnt1p have overlapping roles and collectively add most of the second and the third alpha1,2-linked mannose residues on O-linked oligosaccharides. Determination of the mobility of the specifically N-linked glycoprotein invertase in different null strains indicates that Ktr1p, Ktr3p, and Kre2p are also jointly involved in N-linked glycosylation, possibly in establishing some of the outer chain alpha1,2-linkages.
Sirohydrochlorin, a precursor of factor F<sub>430</sub> biosynthesis in <i>Methanobacterium thermoautotrophicum</i> (1985)

Factor F 430 is a nickel‐containing coenzyme of methanogenic bacteria with porphinoid structure which is derived from uroporphyrinogen III. It is shown that sirohydrochlorin is metabolized by cell free extracts of Methanobacterium thermoautotrophicum to factor F 430 demonstrating that this compound, or a reduced form of it, is an intermediate in the biosynthesis of F 430 , and not only of vitamin B 12 and siroheme.
Light-chain framework region residue Tyr71 of chimeric B72.3 antibody plays an important role in influencing the TAG72 antigen binding (1999)

The crystallographic study of chimeric B72.3 antibody illustrated that there are three FR side-chain interactions with either CDR residue's side chain or main chain. For example, hydrogen bonds are formed between the hydroxyl group of threonine at L5 in FR1 and the guanidinal nitrogen group of arginine at L24 in CDR1, between the hydroxyl group of tyrosine at L36 in FR2 and the amide nitrogen group of glutamine at L89 in CDR3 and between the hydroxyl group of tyrosine at L71 in FR3 and the carbonyl group of isoleucine at L29 as well as the amide nitrogen group of serine at L31 in CDR1. Elimination of these hydrogen bonds at these FR positions may affect CDR loop conformations. To confirm these assumptions, we altered these FR residues by site-directed mutagenesis and determined binding affinities of these mutant chimeric antibodies for the TAG72 antigen. We found that the substitution of tyrosine by phenylalanine at L71, altering main-chain hydrogen bonds, significantly reduced the binding affinity for the TAG72 antigen by 23-fold, whereas the substitution of threonine and tyrosine by alanine and phenylalanine at L5 and L36, eliminating hydrogen bonds to side-chain atoms, did not affect the binding affinity for the TAG72 antigen. Our results indicate that the light-chain FR residue tyrosine at L71 of chimeric B72.3 antibody plays an important role in influencing the TAG72 antigen binding. Our results will thus be of importance when the humanized B72.3 antibody is constructed, since this important mouse FR residue tyrosine at L71 must be maintained.
Development of a Solar Array Drive Assembly for CubeSat (2010)

Small satellites and in particular CubeSats, have increasingly become more viable as platforms for payloads typically requiring much larger bus structures. As advances in technology make payloads and instruments for space missions smaller, lighter and more power efficient, a niche market is emerging from the university community to perform rapidly developed, low-cost missions on very small spacecraft - micro, nano, and picosatellites. In just the last few years, imaging, biological and new technology demonstration missions have been either proposed or have flown using variations of the CubeSat structure as a basis. As these missions have become more complex, and the CubeSat standard has increased in both size (number of cubes) and mass, available power has become an issue. Body-mounted solar cells provide a minimal amount of power; deployable arrays improve on that baseline but are still limited. To truly achieve maximum power, deployed tracked arrays are necessary. To this end, Honeybee Robotics Spacecraft Mechanisms Corporation, along with MMA of Nederland Colorado, has developed a solar array drive assembly (SADA) and deployable solar arrays specifically for CubeSat missions. In this paper, we discuss the development of the SADA.
Water Framework Directive implementation in the Black sea Basin: lessons learnt in public participation (2010)

In many European Union (EU) countries consultancy companies have taken a leading role in developing the framework and institutions needed for implementing the Water Framework Directive (WFD) and related\nlegislation through ‘Technical Assistance’ Projects. The focus of this paper is an ex-post evaluation of the public participation activities in three such technical assistance projects all located within the Black Sea Basin. Two projects focused on the implementation of the WFD in an EU pre-accession country, namely Romania.\nThe other project was located in non-EU accession countries of the former Soviet Union where the approximation of EU directives or the drafting of new water laws along WFD principles was used as an instrument to help protect the Black Sea from pollution. The paper concludes that from project experience the use of local level pilot projects is very valuable at engaging stakeholders and that the use of highly prescribed public consultation schemes were not practical in the Black Sea basin but more flexible and ad hoc approaches had a very positive effect on the social learning process.
C-reactive protein in aortic valve disease (2006)

Aortic Valve Disease, includes a range of disorder severity from mild leaflet thickening without valve obstruction, "aortic sclerosis", to severe calcified aortic stenosis. It is a slowly progressive active process of valve modification similar atherosclerosis for cardiovascular risk factors, lipoprotein deposition, chronic inflammation, and calcification. Systemic signs of inflammation, as wall and serum CRP, similar to those found in atherosclerosis, are present in patients with degenerative aortic valve stenosis and may be expression of a common disease, useful in monitoring of stenosis progression.
Joint Alignment and Clustering via Low-Rank Representation (2013)

Both image alignment and image clustering are widely researched with numerous applications in recent years. These two problems are traditionally studied separately. However in many real world applications, both alignment and clustering results are needed. Recent study has shown that alignment and clustering are two highly coupled problems. Thus we try to solve the two problems in a unified framework. In this paper, we propose a novel joint alignment and clustering algorithm by integrating spatial transformation parameters and clustering parameters into a unified objective function. The proposed function seeks the lowest rank representation among all the candidates that can represent misaligned images. It is indeed a transformed Low-Rank Representation. As far as we know, this is the first time to cluster the misaligned images using the transformed Low-Rank Representation. We can solve the proposed function by linear zing the objective function, and then iteratively solving a sequence of linear problems via the Augmented Lagrange Multipliers method. Experimental results on various data sets validate the effectiveness of our method.
128-channel polarization-insensitive frequency-selection-switch using high-silica waveguides on Si (1990)

A 128-channel polarization-insensitive frequency-selection-switch (FS-SW) with 10-GHz frequency spacing is discussed. The FS-SW was fabricated on Si using low-loss GeO/sub 2/-doped high-silica waveguides, and its frequency-insensitive operation was attained by the laser trimming adjustment of a-Si film which controls waveguide birefringence. The fiber-to-fiber loss of the transmitted channel was 6.7 dB in the pigtailed FS-SW and the total crosstalk level was less than -13 dB. By using this FS-SW, a 100-channel optical frequency division multiplexing (FDM) transmission-distribution experiment at 622 M b/s over a 50-km fiber length was achieved.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Novel microbial alkaline protease inhibitor, MAPI, produced by Streptomyces sp. No. WT-27. (1977)

Recently, proteinaceous protease inhibitors such as S-SI,1) Plasminostreptin" and API,21 which inhibited proteolytic activity of sub tilisin BPN'(EC. 3.4.21.14) and other micro bial alkaline proteases, were isolated from the cultures of various species of actinomy cetes. However, no subtilisin inhibitor of oligopeptide nature from microbial origin has been reported so far.
Affective Embodied Conversational Agents for Natural Interaction (2008)

Human computer intelligent interaction is an emerging field aimed at providing natural ways for humans to use computers as aids. It is argued that for a computer to be able to interact with humans it needs to have the communication skills of humans. One of these skills is the affective aspect of communication, which is recognized to be a crucial part of human intelligence and has been argued to be more fundamental in human behaviour and success in social life than intellect Embodied conversational agents, ECAs (Casell et al., 2000), are graphical interfaces capable of using verbal and non-verbal modes of communication to interact with users in computerbased environments. These agents are sometimes just as an animated talking face, may be displaying simple facial expressions and, when using speech synthesis, with some kind of lip synchronization, and sometimes they have sophisticated 3D graphical representation, with complex body movements and facial expressions. An important strand of emotion-related research in human-computer interaction is the simulation of emotional expressions made by embodied computer agents The basic requirement for a computer to express emotions is to have channels of communication such as voice, image and an ability to communicate affection over those channels. Therefore, interface designers often emulate multimodal human-human communication by including emotional expressions and statements in their interfaces through the use of textual content, speech (synthetic and recorded) and synthetic facial expressions, making the agents truly "social actors" Several studies have illustrated that our ability to recognise the emotional facial expressions of embodied computer agents is very similar to that of identifying human facial expressions Related to agent's voice, experiments have demonstrated that subjects can recognize the emotional expressions of an agent But, what about the impact of these social actors? Recent research focuses on the psychological impact of affective agents endowed with the ability to behave empathically with the user (Brave et al.,
Studies of Mammalian Implantation In Vitro. (II): Effects of Cytokines from Mixed Lymphocyte Reaction on Proliferation of Murine Trophoblast Cell and Establishment of Its Cell Line. (1992)

We report here that the supernates of mixed lymphocyte reaction (MLR) enhanced the proliferation of trophoblast cells. The analysis of the factors in MLR supernates revealed that a series of CSF family cytokines such as IL-3/GM-CSF and M-CSF, which seemed to be responsible for stimulation of the proliferation of trophoblast cells, were significantly raised in MLR supernates. At the same time, the effects of recombinant human (rh) IL-3/GM-CSF and M-CSF on the proliferation of the trophoblast cells were investigated. The rhlL-3/GM-CSF gave slight proliferation-promoting effects while the rhM-CSF showed stronger stimulating effect which was comparable to the MLR supernates. Continuous addition of the MLR supernates into the primary culture of trophoblast cells resulted in the establishment of trphoblast cell line. The cells showed the polygonal epithelium like appearances and reacted positively with anti-cytokeratin antibodies but not with anti-vimentin antibodies by means of indirect immunofluorescence (IIF) test.
Distinct Renin Isoforms Generated by Tissue-Specific Transcription Initiation and Alternative Splicing (1999)

The aspartyl protease renin catalyzes the initial and rate-limiting step in the formation of the biologically active peptide angiotensin II. It is mainly synthesized in the kidney as a preprohormone and secreted via constitutive and regulated pathways. We identified a novel transcript of the rat renin gene, renin b, characterized by the presence of an alternative first exon (exon 1b) that is spliced to exon 2 of the known transcript, termed renin a. We demonstrated that renin b is exclusively expressed in the brain. In contrast, renin a was not expressed in the brain. Using primer extension assays, we mapped the transcriptional start site of this novel mRNA within intron 1 of the rat genomic sequence, suggesting the presence of a brain-specific promoter within intron 1. The presence of a brain-specific renin isoform is evolutionally conserved, as demonstrated by the finding of renin b isoforms in mice and humans. The predicted protein renin b lacks the prefragment as well as a significant portion of the profragment and is therefore predicted not to be a secreted protein, unlike the classically described isoform renin a. As shown by in vitro translation of full-length renin b mRNA in the presence of microsomal membranes, renin b was not targeted into the endoplasmatic reticulum and remained intracellularly in transiently transfected AtT-20 cells. These findings provide evidence for a novel pathway of intracellular angiotensin generation that occurs exclusively in the brain.
Development of highly accurate real-time large scale speech recognition system (2015)

This paper describes the development of the framework and the algorithm for large scale automatic speech recognition systems. Technical advances include the acceleration of decoding speed by leveraging the computational power of many-core graphic processing units (GPU), in order to solve the issue of training data sparseness, improvement in the accuracy by Subspace Gaussian Mixture Models (SGMM), and employing novel methods of language models such as the Instant Language Model Adaptation (ILMA) method. We present the effectiveness of each technique by evaluating it with actual usage data collected from television sets. It is shown that the proposed engine can recognize speech at real time with high accuracy.
The Italian Trial of Endovascular AAA Exclusion Using the Parodi Endograft (1997)

The tube graft was applicable in only about 5% of cases, and accurate endograft sizing and distal fixation were problematic. The aortomonoiliac design was not appealing to surgeons but fared better in the long term. Given the advent of newer endograft models, the Italian Parodi Trial has been terminated.
Laboratory methods for the genetic diagnosis of bleeding disorders (1998)

Accurate carrier detection and pre-natal diagnosis in haemophilia A and B and in von Willebrand's disease (VWD) can be achieved by genetic analysis. The spectrum of mutations responsible for these three disorders is described. Methods for linkage analysis using intragenic diallelic and multiallelic factor VIII and IX gene polymorphisms are mentioned, and situations where their use in carrier detection is inappropriate or fails are discussed. Linkage analysis for examination of von Willebrand factor gene inheritance in families with VWD is also described. Screening for the factor VIII gene inversion in patients with severe haemophilia A and the use of the factor VIII binding assay as a discriminant test in patients with possible mild haemophilia A or VWD are described. Point mutation screening methods AMD, CSGE, DGGE, SSCP and UHG analysis are also detailed. The variety of possible analyses available to genetically diagnose haemophilia A, B and VWD is explored.