gebhart/patrepeval huggingface dataset:
Mass spectrometry of nucleic acids (1996)

The present article is a survey of ESI and MALDI mass spectrometric analysis of nucleic acid oligomers and polymers. In order to limit the extent of the review, mass spectrometry of mononucleotides is generally not considered, except where such data are important for an understanding of the analysis of larger nucleic acids. The first part of the review is a condensed description of the structure and the acid-base properties of nucleic acids. The remaining part is divided into three main sections, dealing with the practical aspects of the two ionization techniques, fragmentation, and applications, respectively. The first section includes an extensive discussion of experimental parameters and problems, which are important for the analysis of different types of nucleic acid samples, including noncovalent complexes and mixtures. At the end of this section, as well as the following one, a comparison between MALDI and ESI as ionization techniques for nucleic acid is given. In addition to a detailed discussion of ion fragmentation, the fragmentation section includes an overview of the direct mass spectrometric sequencing of nucleic acids performed with either technique. The fragmentation reactions occurring upon MALDI and ESI are compared. The last section describes the life science applications of ESI-MS and MALDI-MS of nucleic acids; an account of experiments demonstrating the potential of a method, and of the bona fide solving of problems by ESI and MALDI is given. © 1997 John Wiley & Sons, Inc.
Modulation of Redox Balance Leaves Murine Diabetogenic TH1 T Cells “LAG-3-ing” Behind (2012)

Preventing activation of diabetogenic T cells is critical for delaying type 1 diabetes onset. The inhibitory molecule lymphocyte activation gene 3 (LAG-3) and metalloprotease tumor necrosis factor-α converting enzyme (TACE) work together to regulate TH1 responses. The aim of this study was to determine if regulating redox using a catalytic antioxidant (CA) could modulate TACE-mediated LAG-3 shedding to impede diabetogenic T-cell activation and progression to disease. A combination of in vitro experiments and in vivo analyses using NOD mouse strains was conducted to test the effect of redox modulation on LAG-3 shedding, TACE enzymatic function, and disease onset. Systemic treatment of NOD mice significantly delayed type 1 diabetes onset. Disease prevention correlated with decreased activation, proliferation, and effector function of diabetogenic T cells; reduced insulin-specific T-cell frequency; and enhanced LAG-3(+) cells. Redox modulation also affected TACE activation, diminishing LAG-3 cleavage. Furthermore, disease progression was monitored by measuring serum soluble LAG-3, which decreased in CA-treated mice. Therefore, affecting redox balance by CA treatment reduces the activation of diabetogenic T cells and impedes type 1 diabetes onset via decreasing T-cell effector function and LAG-3 cleavage. Moreover, soluble LAG-3 can serve as an early T-cell-specific biomarker for type 1 diabetes onset and immunomodulation.
Multiscale Representations for Manifold-Valued Data (2005)

We describe multiscale representations for data observed on equispaced grids and taking values in manifolds such as the sphere $S^2$, the special orthogonal group $SO(3)$, the positive definite matrices $SPD(n)$, and the Grassmann manifolds $G(n,k)$. The representations are based on the deployment of Deslauriers--Dubuc and average-interpolating pyramids "in the tangent plane" of such manifolds, using the $Exp$ and $Log$ maps of those manifolds. The representations provide "wavelet coefficients" which can be thresholded, quantized, and scaled in much the same way as traditional wavelet coefficients. Tasks such as compression, noise removal, contrast enhancement, and stochastic simulation are facilitated by this representation. The approach applies to general manifolds but is particularly suited to the manifolds we consider, i.e., Riemannian symmetric spaces, such as $S^{n-1}$, $SO(n)$, $G(n,k)$, where the $Exp$ and $Log$ maps are effectively computable. Applications to manifold-valued data sources of a geometric nature (motion, orientation, diffusion) seem particularly immediate. A software toolbox, SymmLab, can reproduce the results discussed in this paper.
Isolation and Properties of 7<i>β</i>-(4-Carboxybutanamido)cephalosporanic Acid Acylase-producing Bacteria (1981)

A search was undertaken for microorganisms that produce an enzyme capable of deacylating 7β-(4-carboxybutanamido)cephalosporanic acid (glutaryl 7-ACA, GL-7-ACA) to 7-aminocephalo-sporanic acid. Pseudomonas putida ATCC 950 was selected from our stock cultures, and Pseudomonas SY-77-1 was isolated from soil. Adding glutaric acid to the growth media enhanced the production of GL-7-ACA acylase by Pseudomonas SY-77-1. A β-lactamase-deficient mutant, Pseudomonas NS-2, was derived from Pseudomonas SY-77-1 treated with a mutagen. The cell suspension of Pseudomonas NS-2 specifically hydrolyzed cephalosporin compounds having aliphatic dicarboxylic acid in the acyl side chain.
Deterministic channel modeling and long range prediction of fast fading mobile radio channels (1998)

In wireless communication systems, the direct signal and the reflected signals form an interference pattern resulting in a received signal given by the sum of these components. They are distinguished by their Doppler shifts at the mobile. Since the parameters associated with these components are slowly varying, the fading coefficients can be accurately predicted far ahead. This novel approach to fading channel prediction is combined with transmitter signal optimization to mitigate the effects of "deep fades", which severely limit the performance of mobile radio systems. This capability will potentially help to reduce power requirements for wireless channels and improve the system performance.
Single Cell Tracking of Gadolinium Labeled CD4<sup>+</sup> T Cells by Laser Ablation Inductively Coupled Plasma Mass Spectrometry (2013)

Cellular therapy is emerging as a promising alternative to conventional immunosuppression in the fields of hematopoietic stem cell (HSC) transplantation, autoimmune disease, and solid organ transplantation. Determining the persistence of cell-based therapies in vivo is crucial to understanding their regulatory function and requires the combination of an extremely sensitive detection technique and a stable, long-lifetime cell labeling agent. This paper reports the first application of laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS) to perform single cell detection of T cell populations relevant to cellular immunotherapy. Purified human CD4(+) T cells were labeled with commercially available Gd-based magnetic resonance imaging (MRI) contrast agents, Omniscan and Dotarem, which enabled passive loading of up to 10(8) Gd atoms per cell. In mixed preparations of labeled and unlabeled cells, LA-ICP-MS was capable of enumerating labeled cells at close to the predicted ratio. More importantly, LA-ICP-MS single cell analysis demonstrated that the cells retained a sufficient label to remain detectable for up to 10 days post-labeling both in vitro and in vivo in an immunodeficient mouse model.
Determination of Type I Receptor Specificity by the Type II Receptors for TGF-β or Activin (1993)

Transforming growth factor-beta (TGF-beta) and activin signal primarily through interaction with type I and type II receptors, which are transmembrane serine-threonine kinases. Tsk 7L is a type I receptor for TGF-beta and requires coexpression of the type II TGF-beta receptor for ligand binding. Tsk 7L also specifically bound activin, when coexpressed with the type IIA activin receptor. Tsk 7L could associate with either type II receptor and the ligand binding specificity of Tsk 7L was conferred by the type II receptor. Tsk 7L can therefore act as type I receptor for both activin and TGF-beta, and possibly other ligands.
Inhibition of fatty acid and cholesterol synthesis by stimulation of AMP‐activated protein kinase (1995)

AMP-activated protein kinase is a multisubstrate protein kinase that, in liver, inactivates both acetyl-CoA carboxylase, the rate-limiting enzyme of fatty acid synthesis, and 3-hydroxy-3-methyl-glutaryl-CoA reductase, the rate-limiting enzyme of cholesterol synthesis. AICAR (5-amino 4-imidazolecarboxamide ribotide, ZMP) was found to stimulate up to 10-fold rat liver AMP-activated protein kinase, with a half-maximal effect at approximately 5 mM. In accordance with previous observations, addition to suspensions of isolated rat hepatocytes of 50-500 microM AICAriboside, the nucleoside corresponding to ZMP, resulted in the accumulation of millimolar concentrations of the latter. This was accompanied by a dose-dependent inactivation of both acetyl-CoA carboxylase and 3-hydroxy-3-methylglutaryl-CoA reductase. Addition of 50-500 microM AICAriboside to hepatocyte suspensions incubated in the presence of various substrates, including glucose and lactate/pyruvate, caused a parallel inhibition of both fatty acid and cholesterol synthesis. With lactate/pyruvate (10/1 mM), half-maximal inhibition was obtained at approximately 100 microM, and near-complete inhibition at 500 microM AICAriboside. These findings open new perspectives for the simultaneous control of triglyceride and cholesterol synthesis by pharmacological stimulators of AMP-activated protein kinase.
Microinjection of bivalve eggs: application in genetics. (1997)

New strategies for embryonic manipulation have been developed in recent years through plant and animal research. However, research on marine invertebrate embryos has suffered from a lack of basic tools, such as microinjection. Here we present a technique developed for microinjecting eggs and embryos of the oyster Crassostrea gigas and the mussel Mytilus edulis. In experimental trials, approximately 40% of microinjected embryos survived. This technique was used to microinject beta-galactosidase, for which specific detection techniques were developed. A reporter construct (CMV-beta) based on a promoter of cytomegalovirus linked to the beta-galactosidase-encoding gene was then microinjected, and the expression level of this construct was monitored. The suitability of this technique is discussed in terms of its application to the manipulation of bivalve mollusks in pathology and genetics.
Filament conductivity enhancement through nonlinear beam interaction (2020)

Laser filament applications relying on filament plasma conductivity are limited by their low electron densities and corresponding short lifetimes. Filament plasma formation, an intensity-dependent process, is limited by the clamping of the filament core intensity. Consequently, increasing initial beam energy results in the breakup of the beam into multiple filaments rather than the enhancement of the electron density and conductivity of an individual filament. However, we demonstrate here the augmentation of the filament plasma density up to three times the typical value through the energy exchange between two co-propagating femtosecond beams with total powers between 1.7 and 2.2 P<sub>fil</sub>.
Comparison of loads on internal spinal fixation devices measured <i>in vitro</i> and <i>in vivo</i> (1997)

The loads on internal spinal fixation devices were measured using modified, telemeterized AO-Dick internal fixators. The implants allow measurement of the three force components and the three moments acting on the implant. The modified fixators were mounted on cadaver spines, and the implant loads were measured in the intact and postcorpectomy spines for different loading modes, including axial compression force, flexion, extension, lateral bending, and torsion. The in vitro experiment did not consider muscle forces. Modified fixators were also implanted in three patients, and the implant loads were determined before and after anterior interbody fusion with autologous iliac-crest bone grafts. The results for different in vitro loading modes were compared with those in vivo in order to demonstrate the extent to which the in vitro loads represent the real situation in patients. In several cases, the implant loads in the in vitro experiment differed strongly from those measured in patients. For flexion and lateral bending, a tensile axial force occasionally was measured in the in vitro experiment, while in the patients the axial force was always compressive. Extension was predominantly associated with extension bending moments in the in vitro study but with flexion bending moments in the patients. When muscle forces are not considered in the in vitro experiment, the loads on the fixators may differ significantly from the situation found in patients.
Horizontal Drilling and Completion: Denmark (1988)

ABSTRACT The application of horizontal drilling technique to improve production performance from selected tight chalk reservoirs in the Danish sector of the North Sea has shown to be technically feasible and economically viable. Maersk Oil and Gas has drilled and completed three horizontal wells with horizontal drainhole sections ranging from 1000 feet to 3000 feet and with displacement of some 9000 feet from the wellhead platform slot. The essential early planning aspects leading to evaluation and solution of preferred options are discussed. Modifications to the approach adopted as experience is gained and a generalised overview of problems, solutions and costs is included.
Wide-bandgap high-mobility ZnO thin-film transistors produced at room temperature (2004)

We report high-performance ZnO thin-film transistor (ZnO-TFT) fabricated by rf magnetron sputtering at room temperature with a bottom gate configuration. The ZnO-TFT operates in the enhancement mode with a threshold voltage of 19V, a saturation mobility of 27cm2∕Vs, a gate voltage swing of 1.39V∕decade and an on/off ratio of 3×105. The ZnO-TFT presents an average optical transmission (including the glass substrate) of 80% in the visible part of the spectrum. The combination of transparency, high mobility, and room-temperature processing makes the ZnO-TFT a very promising low-cost optoelectronic device for the next generation of invisible and flexible electronics.
Paper Partition Chromatography of Simple Phenols<sup>1</sup> (1951)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPaper Partition Chromatography of Simple Phenols1Ralph L. HossfeldCite this: J. Am. Chem. Soc. 1951, 73, 2, 852–854Publication Date (Print):February 1, 1951Publication History Published online1 May 2002Published inissue 1 February 1951https://pubs.acs.org/doi/10.1021/ja01146a510https://doi.org/10.1021/ja01146a510research-articleACS PublicationsRequest reuse permissionsArticle Views35Altmetric-Citations27LEARN 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
El mar en la poesía de Tomás Morales y Pedro García Cabrera (1986)

The autor looks at the significance of the sea in the poetry of Tomas Morales and Pedro Garcia Cabrera, and analyzes the common and the differentiating features in the work of these two poets. The sea makes them look inward in self examination, it is motherly; the sea is the universal link that transports them to other shores, and which permits them to share their lives with mankind. The sea is the discovery of light and rhythm for Tomas Morales. For Garcia Cabrera it embodies the doubts and expectations of the islander, his different way of seeing himself refiected from the shores.
CandidaDB: a multi-genome database for Candida species and related Saccharomycotina (2007)

CandidaDB (http://genodb.pasteur.fr/CandidaDB) was established in 2002 to provide the first genomic database for the human fungal pathogen Candida albicans. The availability of an increasing number of fully or partially completed genome sequences of related fungal species has opened the path for comparative genomics and prompted us to migrate CandidaDB into a multi-genome database. The new version of CandidaDB houses the latest versions of the genomes of C. albicans strains SC5314 and WO-1 along with six genome sequences from species closely related to C. albicans that all belong to the CTG clade of Saccharomycotina-Candida tropicalis, Candida (Clavispora) lusitaniae, Candida (Pichia) guillermondii, Lodderomyces elongisporus, Debaryomyces hansenii, Pichia stipitis-and the reference Saccharomyces cerevisiae genome. CandidaDB includes sequences coding for 54 170 proteins with annotations collected from other databases, enriched with illustrations of structural features and functional domains and data of comparative analyses. In order to take advantage of the integration of multiple genomes in a unique database, new tools using pre-calculated or user-defined comparisons have been implemented that allow rapid access to comparative analysis at the genomic scale.
Long‐term preservation of renal function in patients with lupus nephritis receiving treatment that includes cyclophosphamide versus those treated with prednisone only (1991)

The purpose of this study was to assess long-term preservation of renal function in 111 patients with systemic lupus erythematosus and active glomerulonephritis who participated in a randomized treatment trial. Four different drug treatment programs, each of which allowed the use of low-dose oral prednisone in addition to the study drug(s), were compared with a regimen consisting solely of high-dose oral prednisone. Patients randomized to receive intravenous cyclophosphamide, oral cyclophosphamide, or oral azathioprine plus cyclophosphamide had significantly better preservation of renal function than did patients who were randomized to receive prednisone only. Results in the azathioprine group did not differ from those in the prednisone-only group. Cyclophosphamide appears to have long-term benefit in the delay or prevention of end-stage renal disease in patients with lupus nephritis.
Application of DNA Topoisomerase-Activated Adapters to Riboprobe Synthesis (2000)

Topoisomerase-activated adapters for rapid incorporation of the T7 promoter into PCR products were made by hybridizing synthetic oligonucleotides and activating vaccinia DNA topoisomerase I. The adapters were used to incorporate the T7 promoter sequence into PCR products amplified from cDNA and genomic DNA. Modified PCR products were used as templates to synthesize digoxigenin-labeled sense and cRNA probes by in vitro transcription with phage T7 RNA polymerase. The red/green cones were labeled by the antisense probe, but no specific signal was produced by the sense probe. These results demonstrate that topoisomerase-activated adapters provide a powerful and convenient tool for the rapid modification of PCR products.
4,4-Difluoro-4-bora-3a,4a-diaza-<i>s</i>-indacene (BODIPY) Dyes Modified for Extended Conjugation and Restricted Bond Rotations (2000)

Five new, constrained, aryl-substituted 4,4-difluoro-4-bora-3a, 4a-diaza-s-indacene (BODIPY) dyes (3f,g and 4h-j) were prepared and investigated to see if they have more favorable fluorescence characteristics than the unconstrained systems 2 that were prepared in previous studies. Dye types 3 and 4 have relatively rigid conformations caused by the heteroatom (3f and 3g) or ethylene bridge (4h-j) linkers that preclude free rotation of the substituted-benzene molecular fragments. In the event, the new dye types 3 and 4 have longer lambda(max abs) (620-660 nm) and lambda(max)(fluor) (630-680 nm) values than compounds 2. They also exhibit higher extinction coefficients (>100 000 M(-1) cm(-1), except for 3g). Their fluorescent quantum yields are high (up to 0.72 for 4j), with the exception of compound 3g, which has a quantum yield of only 0.05. The redox properties of dyes 3 and 4 have also been examined.
Optimal multi-scale patterns in time series streams (2006)

We introduce a method to discover optimal local patterns, which concisely describe the main trends in a time series. Our approach examines the time series at multiple time scales (i.e., window sizes) and efficiently discovers the key patterns in each. We also introduce a criterion to select the best window sizes, which most concisely capture the key oscillatory as well as aperiodic trends. Our key insight lies in learning an optimal orthonormal transform from the data itself, as opposed to using a predetermined basis or approximating function (such as piecewise constant, short-window Fourier or wavelets), which essentially restricts us to a particular family of trends. We go one step further, lifting even that limitation. Furthermore, our method lends itself to fast, incremental estimation in a streaming setting. Experimental evaluation shows that our method can capture meaningful patterns in a variety of settings. Our streaming approach requires order of magnitude less time and space, while still producing concise and informative patterns.
The efficacy of larotrectinib (LOXO-101), a selective tropomyosin receptor kinase (TRK) inhibitor, in adult and pediatric TRK fusion cancers. (2017)

LBA2501 Background: Larotrectinib is the first selective small-molecule pan-TRK inhibitor. TRK fusions appear oncogenic independent of tumor lineage, are widely distributed across cancers, and affect all ages. We present an integrated dataset from 3 studies intended to support regulatory approval. Methods: All NTRK fusion pts with RECIST measurable disease enrolled to the adult (NCT02122913, n=8) and pediatric (NCT02637687, n=12) phase I trials and adult/adolescent phase 2 trial (NCT02576431, n=35) were analyzed. TRK fusion status was determined by local testing prior to enrollment. Pts were dosed predominantly at 100mg BID on a continuous 28-day schedule. Primary objective was investigator-assessed overall response rate (ORR) per RECIST v1.1. Secondary endpoints included duration of response (DOR) and safety. Data were cut on 31-JAN-2017. Results: 55 TRK fusion pts (12 peds, 43 adult, range: 4 mo.-76 yrs) were enrolled (median priors=2). Fusions involved NTRK1 (n=25), NTRK2 (n=1), and NTRK3 (n=29), and 14 unique partners. 13 discrete tumor types were treated: salivary (12), sarcoma (10), infantile fibrosarcoma (7), lung (5), thyroid (5), colon (4), melanoma (4), cholangio (2), GIST (2), and other (4). For the 46 pts evaluated to date, the ORR was 78% (95% CI: 64%–89%) with responses in 12 unique tumor types. Responses are ongoing in 29/33 (88%) pts, excluding 3 peds pts whose DOR was censored at attempted curative resection. A median DOR has not been reached as the majority of responders remain on treatment without progression. The longest responder remains on treatment at 23 mos., 8 pts remain in response at &gt;12 mos., and 16 pts at &gt;6 mos. NTRK solvent front mutations were detected in all 4 pts to develop acquired resistance. The most common TEAEs were fatigue (30%), dizziness (28%), and nausea (28%). 5 (11%) pts required dose reductions. Conclusions: Larotrectinib has demonstrated consistent and durable antitumor activity in TRK fusion cancers, across a wide range of ages and tumor types, and was well-tolerated. Larotrectinib could be the first targeted therapy developed in a tissue type-agnostic manner, and the first developed simultaneously in adults and pediatrics. Clinical trial information: NCT02576431, NCT02122913, NCT02637687.