gebhart/patrepeval huggingface dataset:
Controlled Clinical Trial With Pirfenidone in the Treatment of Breast Capsular Contracture (2011)

PFD is useful to improve BCC (Baker Score III/IV) postmammoplasty with no relapse after drug administration. There is also an association between capsular contracture and the presence of homozygous G/G TGF-β1 genotype.
Primary structures of bovine liver low molecular weight kininogen precursors and their two mRNAs. (1983)

By using a mixture of synthetic oligodeoxyribonucleotides as a probe, cloned cDNA sequences specific for low molecular weight (LMW) kininogen have been isolated from a cDNA library of bovine liver mRNA sequences. Nucleotide sequence analyses of cloned cDNA inserts have revealed that bovine liver LMW kininogens are encoded by at least two very similar but distinct mRNAs. The corresponding amino acid sequences show that the LMW kininogen precursors of the two types, composed of 436 and 434 amino acid residues, both contain two internally homologous sequences in the amino-terminal portion between a signal peptide and a bradykinin moiety. The two mRNAs exhibit 15 nucleotide substitutions and 6 nucleotide deletions/additions in their protein-coding regions. The replacement of 13 amino acid residues and the deletions/additions of 2 amino acid residues in the two LMW kininogen precursors are all localized within the internally homologous regions, implying that these regions may be biologically significant in relation to the existence of two LMW kininogens. The nucleotide changes in the two mRNAs also occur in the limited portions that principally encode the internally homologous amino acid sequences. This suggests that the mRNAs are transcribed from the same gene to generate two LMW kininogen precursors differing only in the internally homologous sequences.
Two-photon excitation selective plane illumination microscopy (2PE-SPIM) of highly scattering samples: characterization and application (2013)

In this work we report the advantages provided by two photon excitation (2PE) implemented in a selective plane illumination microscopy (SPIM) when imaging thick scattering samples. In particular, a detailed analysis of the effects induced on the real light sheet excitation intensity distribution is performed. The comparison between single-photon and two-photon excitation profiles shows the reduction of the scattering effects and sample-induced aberrations provided by 2PE-SPIM. Furthermore, uniformity of the excitation distribution and the consequent improved image contrast is shown when imaging scattering phantom samples in depth by 2PE-SPIM. These results show the advantages of 2PE-SPIM and suggest how this combination can further enhance the SPIM performance. Phantom samples have been designed with optical properties compatible with biological applications of interest.
Prediction Capability of Optical Coherence Tomography for Blood Glucose Concentration Monitoring (2007)

These results suggest that the accuracy of OCT-based glucose monitoring is approaching that of standard invasive and minimally invasive techniques.
Lexical Normalization of Spanish Tweets with Rule-Based Components and Language Models (2014)

This paper presents a system to normalize Spanish tweets, which uses preprocessing rules, a domain-appropriate edit-distance model, and language models to select correction candidates based on context. The system is an improvement on the tool we submitted to the Tweet-Norm 2013 shared task, and results on the task's test-corpus are above-average. Additionally, we provide a study of the impact for tweet normalization of the different components of the system: rule-based, edit-distance based and statistical.
Obstructive Sleep Apnea Syndrome and Postoperative Complications (2010)

The STOP-BANG questionnaire is useful for preoperative identification of patients at higher than normal risk for surgical complications, probably because it identifies patients with occult OSAS.
Semantic video search using natural language queries (2009)

Recent advances in computer vision and artificial intelligence algorithms have allowed automatic extraction of metadata from video. This metadata can be represented by using the RDF/OWL ontology which can encode scene objects and their relationships in an unambiguous and well-formed manner. The encoded data can be queried using SPARQL. However, SPARQL has a steep learning curve and cannot be directly utilized by a general user for video content search. In this paper, we propose a method to bridge this gap by automatically translating user provided natural language query into an ontology-based SPARQL query for semantic video search. The proposed method consists of three major steps. First, semantically labeled training corpus of natural language query sentences is used for learning the Semantic Stochastic Context Free Grammar (SSCFG). Second, given a user provided natural language query sentence, we use the Earley-Stolcke parsing algorithm to determine the maximum likelihood semantic parsing of the query sentence. This parsing infers the semantic meaning for each word in the query sentence from which the SPARQL query is constructed. Third, the SPARQL query is executed to retrieve relevant video segments from the RDF-OWL video content database. The method is evaluated by running natural language queries on surveillance videos from maritime and land-based domains, though the framework itself is general and extensible to search videos from other domains.
A Geometric Approach to Compare Variables in a Regression Model (1996)

Abstract Geometry is a very useful tool for illustrating regression analysis. Despite its merits the geometric approach is seldom used. One reason for this might be that there are very few applications at an elementary level. This article gives a brief introduction to the geometric approach in regression analysis, and then geometry is used to shed some light on the problem of comparing the “importance” of the independent variables in a multiple regression model. Even though no final answer of how to assess variable importance is given, it is still useful to illustrate the different measures geometrically to gain a better understanding of their properties.
Functional role of inward rectifier current in heart probed by Kir2.1 overexpression and dominant-negative suppression (2003)

The inward rectifier current IK1 is tightly regulated regionally within the heart, downregulated in heart failure, and genetically suppressed in Andersen syndrome. We used in vivo viral gene transfer to dissect the role of IK1 in cardiac repolarization and maintenance of the resting membrane potential (RMP) in guinea pig ventricular myocytes. Kir2.1 overexpression boosted Ba2+-sensitive IK1 by more than 100% (at –50mV), significantly shortened action potential durations (APDs), accelerated phase 3 repolarization, and hyperpolarized RMP compared with control cells (nongreen cells from the same hearts and green cells from GFP-transduced hearts). The dominant-negative Kir2.1AAA reduced IK1 by 50–90%; those cells with less than 80% reduction of IK1 exhibited prolonged APDs, decelerated phase 3 repolarization, and depolarization of the RMP. Further reduction of IK1 resulted in a pacemaker phenotype, as previously described. ECGs revealed a 7.7% ± 0.9% shortening of the heart rate–corrected QT interval (QTc interval) in Kir2.1-transduced animals (n = 4) and a 16.7% ± 1.8% prolongation of the QTc interval (n = 3) in Kir2.1AAA-transduced animals 72 hours after gene delivery compared with immediate postoperative recordings. Thus, IK1 is essential for establishing the distinctive electrical phenotype of the ventricular myocyte: rapid terminal repolarization to a stable and polarized resting potential. Additionally, the long-QT phenotype seen in Andersen syndrome is a direct consequence of dominant-negative suppression of Kir2 channel function.
On-line control performance monitoring of MIMO processes (2005)

The main purpose of this paper is to introduce a new method of control loop performance analysis of the closed-loop MIMO process. This new approach is based on filtering and subsequent correlation (FCOR) analysis of the output and the filtered data. The steps required in the implementation of the FCOR algorithm are: (i) estimation of the time delay or the interactor matrix of the MIMO system and (ii) evaluation of control performance with MIMO minimum variance control as a benchmark standard. The proposed algorithm is evaluated by application to a simulated and an industrial process.
A Peptidomimetic Tight Junction Modulator To Improve Regional Analgesia (2012)

The paracellular flux of solutes through tissue barriers is limited by transmembrane tight junction proteins. Within the family of tight junction proteins, claudin-1 seems to be a key protein for tightness formation and integrity. In the peripheral nervous system, the nerve fibers are surrounded with a barrier formed by the perineurium which expresses claudin-1. To enhance the access of hydrophilic pharmaceutical agents via the paracellular route, a claudin-1 specific modulator was developed. For this purpose, we designed and investigated the claudin-1 derived peptide C1C2. It transiently increased the paracellular permeability for ions and high and low molecular weight compounds through a cellular barrier model. Structural studies revealed a β-sheet potential for the functionality of the peptide. Perineurial injection of C1C2 in rats facilitated the effect of hydrophilic antinociceptive agents and raised mechanical nociceptive thresholds. The mechanism is related to the internalization of C1C2 and to a vesicle-like distribution within the cells. The peptide mainly colocalized with intracellular claudin-1. C1C2 decreased membrane-localized claudin-1 of cells in culture and in vivo in the perineurium of rats after perineurial injection. In conclusion, a novel tool was developed to improve the delivery of pharmaceutical agents through the perineurial barrier by transient modulation of claudin-1.
A class-S RF amplifier architecture with envelope delta-sigma modulation (2003)

This paper proposes a new architecture to realize a class-S RF amplifier working at high carrier frequency. The existing class-S RF amplifier has the potential to achieve high efficiency while the highest RF frequency it can handle is determined by the switching speed of delta-sigma modulators. Due to the current technology limit of digital circuits, the approach is difficult to implement for amplifiers above the gigahertz frequency range. The proposed approach can overcome this difficulty by sampling the signal envelope with the delta-sigma modulator rather than the original carrier, which is more promising in practical implementation.
Multiple class I motifs revealed by sequencing naturally processed peptides eluted from rat T cell MHC molecules (1997)

Class I major histocompatibility complex (MHC) molecules interact with a diverse array of self and foreign peptides. Displayed on the cell surface, the class I/peptide complex provides an extracellular indication of the intracellular milieu. We have characterized the Lewis rat Vβ8.2+ T cell hybridoma C14/BW12-12A1 by FACS analysis and have used immuno-affinity chromatography to purify class I molecules from these cells. Peptides eluted from the class I molecules have been fractionated by HPLC and sequenced. Self-peptide mixtures indicate two distinct peptide motifs, suggesting the possibility of multiple class I loci. The majority of the naturally processed peptide ligands were nonamers. Naturally processed peptide ligands fitting the first motif contained a hydrophobic leucine anchor residue at position three and a carboxyl-terminal serine anchor residue. A second motif was characterized by a tyrosine or phenylalanine residue at position three and a phenylalanine or isoleucine carboxyl-terminal residue. Four peptides derived from the Vβ8.2 T cell receptor have sequences that fit these motifs, providing a mechanistic explanation for their immunoregulatory role. Identification of these class I peptide binding motifs will be useful for predicting potential CTL epitopes in studies on autoimmunity, immunoregulation and transplantation in the Lewis rat. J. Neurosci. Res. 49:107–116, 1997. © 1997 Wiley-Liss Inc.
Nobody ever got fired for using Hadoop on a cluster (2012)

The norm for data analytics is now to run them on commodity clusters with MapReduce-like abstractions. One only needs to read the popular blogs to see the evidence of this. We believe that we could now say that "nobody ever got fired for using Hadoop on a cluster"!
Representing IP Information in the X.500 Directory (1994)

This memo defines an Experimental Protocol for the Internet community.This memo does not specify an Internet standard of any kind.Discussion and suggestions
Microscopic uniformity in plasma etching (1992)

As we enter the era of ultra-large-scale integrated circuit manufacture, plasma etching grows more important for fabricating structures with unprecedented dimensions. For feature sizes below 1 μm and aspect ratios (depth/width) much larger than one, etching rates have been observed to depend on aspect ratio and pattern density. Such dependencies tend to increase the cost of manufacturing because even small changes in device design rules, cell design, or wafer layout can result in time-consuming, new plasma process development. In addition, microscopically nonuniform etching affects the trade-off between chips lost from failure to clear and chips lost by damage from overetching. Although aspect ratio and pattern dependent etching have been observed for a large variety of material systems and processing conditions, the fundamental causes underlying these effects are poorly understood. Partly, this results from use of confusing and conflicting nomenclature and a lack of careful, quantitative comparisons between experiment and theory. In this article we review recent literature on microscopic uniformity in plasma etching and carefully define terminology to distinguish between aspect ratio dependent etching (ARDE) and the pattern dependent effect known as microloading. For ARDE, we use dimensional analysis to narrow the range of proposed mechanisms to four which involve ion transport, neutral transport, and surface charging. For microloading, we show that it is formally equivalent to the usual loading effect, where the reactant concentration is depeleted as a result of an excessive substrate load.
Malignant mesothelioma 2008 (2008)

Malignant mesothelioma is a very difficult malignancy to treat. Patients with the disease usually have an occupational asbestos exposure, and in some, viral exposure with SV40. There have been many historical treatments including combinations of local control with surgery and radiation as well as attempts to prevent systemic failure with chemotherapy. Novel therapies including intrapleural chemotherapy, photodynamic therapy and hyperthermic perfusion have also been used with some success. Finally there are several attempts at immunomodulating and targeted treatments, which are in phase I/II trials.
Picotesla field sensor design using spin-dependent tunneling devices (1998)

Pinned spin-dependent tunneling devices were fabricated and tested in a mode suited for low-field sensing. The basic structure of the devices was NiFeCo125/Al2O325/CoFe70/Ru9/CoFe70/ FeMn125 (in Å). This structure had a tunneling resistivity of 110 MΩ μm2 and exhibited a 20% magnetoresistance when a field was swept along the easy direction of the soft electrode. High sensitivity, low hysteresis operation was achieved by applying a bias field orthogonal to the easy axis. A sensitivity of 3%/Oe with negligible hysteresis was observed using this mode of operation. A sensor using this type of material was designed to achieve a minimum resolvable field in the picotesla range. The sensor consists of a bridge with four elements, each having 16 tunnel junctions in series. A signal-to-noise ratio of 1:1 at 1 pT (10−8 Oe) is possible assuming achievable values for the tunneling resistivity, device size, bias level, and sensitivity.
To Weave the Web (1997)

The paper discusses the issue of views in the Web context. We introduce a set of languages for managing and restructuring data coming from the World Wide Web. We present a specific data model, called the ARANEUS Data Model, inspired to the structures typically present in Web sites. The model allows us to describe the scheme of a Web hypertext, in the spirit of databases. Based on the data model, we develop two languages to support a sophisticate view definition process: the first, called ULIXES, is used to build database views of the Web, which can then be analyzed and integrated using database techniques; the second, called PENELOPE, allows the definition of derived Web hypertexts from relational views. This can be used to generate hypertextual views over the Web.
&lt;title&gt;Flexure-beam micromirror spatial light modulator devices for acquisition, tracking, and pointing&lt;/title&gt; (1994)

The new flexure-beam micromirror (FBM) spatial light modulator devices developed by Texas Instruments Inc. have characteristics that enable superior acquisition, tracking, and pointing in communications and other applications. FBM devices can have tens of thousands of square micromirror elements, each as small as 20 microns on a side, each spaced relative to neighbors so that optical efficiency exceeds 90 percent, and each individually controlled with response times as small as 10 microseconds for piston-like motions that cover more than one-half optical wavelength. These devices may enable order-of-magnitude improvements in space-bandwidth product, efficiency, and speed relative to other spatial light modulator devices that could be used to generate arbitrary coherent light patterns in real time. However, the amplitude and phase of each mirror element cannot be specified separately because there is only one control voltage for each element. This issue can be addressed by adjusting the control voltages so that constructive and destructive interference in the coherent light reflected from many elements produces the desired far field coherent light pattern. Appropriate control voltages are best determined using a robust software optimization procedure such as simulated annealing. Simulated annealing yields excellent results, but it is not real time (it may require hours of execution time on workstation-class computers). An approach that permits real-time applications stores control voltages determined off-line by simulated annealing that produce key desired far field coherent light beam shapes. These stored results are then used as training data for radial basis function neural networks that interpolate in real time between the training cases.
Massive vascular endothelium growth factor (VEGF) expression in Eales' disease (2002)

The present study indicates a close relationship between the prominent neovascular proliferation in Eales' disease and the intense expression of VEGF. The increased expression of VEGF, when compared to other conditions inducing neovascularisation, might explain the severity of neovascular growth and the propensity of repeated vitrous hemorrhages in Eales' disease.
Feature Extraction Method for Real Time Human Activity Recognition on Cell Phones (2011)

In this paper we contribute a novel linear-time method for extracting features from acceleration sensor signals in order to identify human activities. We benchmark this method using a standard acceleration-based activity recognition dataset called SCUT-NAA. The results show that the described method performs best when the training and testing data are from the same person. In this context, a linear kernel based support vector machine (SVM) classifier and a radial basis function (RBF) based one produced similar levels of accuracy. Finally we demonstrate an application of the proposed method for realtime activity recognition on a cell phone with a single triaxial accelerometer. This feature extraction method can be used for realtime activity recognition on resource constrained devices.
First-Principles Determination of the Absolute Hydration Free Energy of the Hydroxide Ion (2002)

The absolute hydration free energy of the hydroxide ion, Δ (HO-), a fundamental quantity in solution chemistry, has “experimental” values ranging from −90.6 to −110.0 kcal/mol. We report a first-principles determination of Δ (HO-) by using a reliable computational protocol of high-level first-principles supermolecule-continuum calculations, the same approach recently used to determine the absolute hydration free energy of the proton. In the supermolecule-continuum approach, part of the solvent surrounding the solute is treated quantum mechanically, and the remaining bulk solvent is approximated by a dielectric continuum medium accounted for by a recently developed self-consistent reaction field model known as surface and volume polarization for electrostatic interaction (SVPE) or the fully polarizable continuum model (FPCM). With this approach, the calculated results can systematically be improved by increasing the number of quantum mechanically treated solvent molecules, and Δ (HO-) is accurately predicted to be −104.5 kcal/mol. The Δ (HO-) value of −104.5 kcal/mol, combined with our previously determined Δ (H+) value of −262.4 kcal/mol, allows the prediction of the sum of absolute hydration free energies of the proton and hydroxide to be −366.9 kcal/mol, in excellent agreement with the well-established experimental thermodynamic value of −366.6 ± 0.1 kcal/mol.
Regulation of Osteogenesis by Fetuin (1999)

Osteoporosis is a common problem of aging and results from a failure of homeostatic mechanisms to regulate osteogenesis and mineralization. Bovine and human forms of fetuin glycoprotein bind to the transforming growth factor (TGF)-beta/BMP (bone morphogenic protein) cytokines and block their osteogenic activity in cell culture assays (Demetriou, M., Binkert, C., Sukhu, B., Tenenbaum, H. C., and Dennis, J. W. (1996) J. Biol. Chem. 271, 12755-12761). Fetuin is a prominent serum glycoprotein and a major noncollagenous component of mineralized bone in mammals. In this study, we show that recombinant fetuin and native serum protein have similar potency as inhibitors of osteogenesis in dexamethasone-treated rat bone marrow cell cultures (dex-RBMC). Recombinant bovine fetuin also bound to TGF-beta1 and BMP-2 in vitro with kinetics similar to native fetuin. Although TGF-beta1 is required for osteogenesis in dex-RBMC, the cytokine also inhibited osteogenesis at concentrations >/=10 pM. Titration of fetuin or anti-TGF-beta1 antibodies into the bone marrow cultures in the presence of 10 pM TGF-beta1 restored osteogenesis, whereas titrations of the same reagents into cultures with 0.3 pM added TGF-beta1 were inhibitory, confirming the biphasic nature of the TGF-beta1 response. Suppression of osteogenesis by both TGF-beta1 and the antagonist proteins required their presence within the first 6 days of culture, well before mineralization at 10-12 days. Northern analysis showed that both fetuin and high dose TGF-beta1 suppressed expression of the bone-associated transcripts alkaline phosphatase, osteopontin, collagen type I, and bone sialoprotein. The suppression of osteogenesis by fetuin and by high dose TGF-beta1 was accompanied by the differentiation of an alternate cell lineage with adipocyte characteristics. In summary, the biphasic osteogenic response to TGF-beta1 suggests that overlapping gradients of TGF-beta/BMP cytokines and fetuin regulate osteogenesis in remodeling bone.