gebhart/patrepeval huggingface dataset:
Efficient Subwindow Search: A Branch and Bound Framework for Object Localization (2009)

Most successful object recognition systems rely on binary classification, deciding only if an object is present or not, but not providing information on the actual object location. To estimate the object's location, one can take a sliding window approach, but this strongly increases the computational cost because the classifier or similarity function has to be evaluated over a large set of candidate subwindows. In this paper, we propose a simple yet powerful branch and bound scheme that allows efficient maximization of a large class of quality functions over all possible subimages. It converges to a globally optimal solution typically in linear or even sublinear time, in contrast to the quadratic scaling of exhaustive or sliding window search. We show how our method is applicable to different object detection and image retrieval scenarios. The achieved speedup allows the use of classifiers for localization that formerly were considered too slow for this task, such as SVMs with a spatial pyramid kernel or nearest-neighbor classifiers based on the lambda <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> distance. We demonstrate state-of-the-art localization performance of the resulting systems on the UIUC Cars data set, the PASCAL VOC 2006 data set, and in the PASCAL VOC 2007 competition.
Initial Clinical Evaluation of Two Murine IgG2a Monoclonal Antibodies for Immunotherapy of Gastrointestinal Carcinoma (1991)

Eleven patients with advanced gastrointestinal (GI) carcinoma were entered in Phase I initial clinical trials with IgG2a antiGI carcinoma monoclonal antibodies (MAbs) GA733 (five patients) or CO19-9 (six patients). Infusion of MAb GA733 in doses greater than 30 mg was accompanied by mild and short-lasting GI toxicity. Infused MAb GA733 was bound to each patient's tumor tissue in vivo. MAb circulated in the blood for 10-25 days. All patients developed anti-mouse antibodies between 15 and 60 days post infusion. Furthermore, all but one patient raised anti-idiotypic antibodies against MAb GA733. Following administration of 10-600 mg of MAb CO19-9, no immediate or delayed toxicity symptoms were noted. Binding of infused MAb CO19-9 to tumor cells in vivo could not be detected in any of the six patients studied. The MAb circulated in the bloodstream between 5 and 12 days. Human anti-mouse antibody was detected in sera of three patients. None of the eleven patients treated with either MAb had anti-tumor responses in this Phase I clinical trial. The strong binding reactivity of MAb GA733 to tumors in vivo suggests the use of this MAb in cancer patients with less tumor burden to determine the tumoricidal efficacy of this antibody.
Toll-Like Receptor 4 Decoy, TOY, Attenuates Gram-Negative Bacterial Sepsis (2009)

Lipopolysaccharide (LPS), the Gram-negative bacterial outer membrane glycolipid, induces sepsis through its interaction with myeloid differentiation protein-2 (MD-2) and Toll-like receptor 4 (TLR4). To block interaction between LPS/MD-2 complex and TLR4, we designed and generated soluble fusion proteins capable of binding MD-2, dubbed TLR4 decoy receptor (TOY) using 'the Hybrid leucine-rich repeats (LRR) technique'. TOY contains the MD-2 binding ectodomain of TLR4, the LRR motif of hagfish variable lymphocyte receptor (VLR), and the Fc domain of IgG1 to make it soluble, productive, and functional. TOY exhibited strong binding to MD-2, but not to the extracellular matrix (ECM), resulting in a favorable pharmacokinetic profile in vivo. TOY significantly extended the lifespan, when administered in either preventive or therapeutic manners, in both the LPS- and cecal ligation/puncture-induced sepsis models in mice. TOY markedly attenuated LPS-triggered NF-kappaB activation, secretion of proinflammatory cytokines, and thrombus formation in multiple organs. Taken together, the targeting strategy for sequestration of LPS/MD-2 complex using the decoy receptor TOY is effective in treating LPS- and bacteria-induced sepsis; furthermore, the strategy used in TOY development can be applied to the generation of other novel decoy receptor proteins.
Throughput and delay limits of IEEE 802.11 (2002)

The IEEE 802.11 protocol family provides up to 54-Mbps data rate, whereas the industry is seeking higher data rates. This paper shows that a theoretical throughput upper limit and a theoretical delay lower limit exist for the IEEE 802.11 protocols. The existence of such limits indicates that by simply increasing the data rate without reducing overhead, the enhanced performance, in terms of throughput and delay, is bounded even when the data rate goes into infinitely high. Reducing overhead is vital for good performance.
Sympathetic innervation alters activation of pacemaker current (If) in rat ventricle (2000)

Pacemaker current (If) exists in both neonatal and adult ventricles, but activates at more negative voltages in the adult. This study uses whole-cell patch clamp to investigate the factors that may contribute to the maturational shift of If, comparing neonatal rat ventricular myocytes that were cultured for 4-6 days either alone, in co-culture with sympathetic nerves, or with neurotransmitters chronically present in culture. If recorded from nerve-muscle co-cultures had a significantly more negative and shallower activation-voltage relation than that from control muscle cultures, which was reflected in the midpoint potential (V50) and slope factor (K) of activation. This effect of innervation was prevented by the sustained presence in the culture of the alpha1-adrenergic antagonist prazosin (Pz) at 10(-7) M. In parallel experiments, myocytes treated with noradrenaline (NA) at 10(-7) M or neuropeptide Y (NPY) at 10(-7) M during culture had the same If activation as control cells, but cells treated with NA and NPY together had a significantly more negative and shallower activation curve. Maximum conductance and reversal potential were unchanged. The effect of chronic exposure to NA + NPY was prevented by the sustained presence of either Pz or the NPY Y2 selective antagonist T4-[NPY(33-36)]4 (3.5 x 10(-7) M) in the culture, indicating a requirement for both alpha1-adrenergic and NPY Y2 activation. Substituting NA with the alpha1A-adrenergic selective agonist A61603 (5(-10) x 10(-9) M), in the presence of NPY, did not alter If, suggesting the involvement of alpha1B- rather than alpha1A-adrenoceptors. Further, sequential exposure to NPY followed by NA was effective in reproducing the action of chronic simultaneous exposure to these agonists, but sequential exposure to NA followed by NPY was ineffective. The results are consistent with past studies indicating that NPY affects the functional expression of the alpha1B-adrenergic cascade and suggest that sympathetic innervation induces a negative shift of If in ventricle via a combined action at alpha1B-adrenergic and NPY Y2 receptors. This effect of innervation probably contributes to the developmental maturation of If activation.
BIOLOGIC SIGNIFICANCE OF THE SECRETORY γA IMMUNOGLOBULINS (1971)

The secretory γA globulins have been shown to be the active antiviral neutralizing principle in the respiratory tract. These antibodies are part of the system found in other fluids in contiguity with the exterior, the external secretory system. The presence of these γA associated antibodies has been shown to be correlated with protection particularly in the case of certain infections which are localized in their pathogenesis. The production of these antibodies are favored by either natural infection, attenuated vaccine, or by local application of viral antigens directly to the respiratory tract. When this system is inappropriately stimulated, hypersensitivity phenomena may occur. Finally, these observations suggest that the secretory γA globulins serve as a basis for an understanding of resistance mechanisms in the normal, and for the development of new approaches to the use of vaccines.
Up-regulation of Toll-like receptors 2, 3 and 4 in allergic rhinitis (2005)

The up-regulation of Toll-like receptors 2, 3 and 4 in the nasal mucosa of patients with symptomatic allergic rhinitis supports the idea of a role for Toll-like receptors in allergic airway inflammation.
Hidden biodiversity of the extremophilic Cyanidiales red algae (2004)

The Cyanidiales is a group of asexual, unicellular red algae, which thrive in acidic and high temperature conditions around hot springs. These unicellular taxa have a relatively simple morphology and are currently classified into three genera, Cyanidium, Cyanidioschyzon and Galdieria. Little is known, however, about the biodiversity of Cyanidiales, their population structure and their phylogenetic relationships. Here we used a taxonomically broadly sampled three-gene data set of plastid sequences to infer a robust phylogenetic framework for the Cyanidiales. The phylogenetic analyses support the existence of at least four distinct Cyanidiales lineages: the Galdieria spp. lineage (excluding Galdieria maxima), the Cyanidium caldarium lineage, a novel monophyletic lineage of mesophilic Cyanidium spp. and the Cyanidioschyzon merolae plus Galdieria maxima lineage. Our analyses do not support the notion of a mesophilic ancestry of the Cyanidiales and suggest that these algae were ancestrally thermo-acidotolerant. We also used environmental polymerase chain reaction (PCR) for the rbcL gene to sample Cyanidiales biodiversity at five ecologically distinct sites at Pisciarelli in the Phlegrean Fields in Italy. This analysis showed a high level of sequence divergence among Cyanidiales species and the partitioning of taxa based on environmental conditions. Our research revealed an unexpected level of genetic diversity among Cyanidiales that revises current thinking about the phylogeny and biodiversity of this group. We predict that future environmental PCR studies will significantly augment known biodiversity that we have discovered and demonstrate the Cyanidiales to be a species-rich branch of red algal evolution.
Systematic review and meta-analysis of the use of fibrin sealant to prevent seroma formation after breast cancer surgery (2006)

The current evidence does not support the use of fibrin sealant in breast cancer surgery to reduce postoperative drainage or seroma formation.
A Biomimetic Potassium Responsive Nanochannel: G-Quadruplex DNA Conformational Switching in a Synthetic Nanopore (2009)

Potassium is especially crucial in modulating the activity of muscles and nerves whose cells have specialized ion channels for transporting potassium. Normal body function extremely depends on the regulation of potassium concentrations inside the ion channels within a certain range. For life science, undoubtedly, it is significant and challenging to study and imitate these processes happening in living organisms with a convenient artificial system. Here we report a novel biomimetic nanochannel system which has an ion concentration effect that provides a nonlinear response to potassium ion at the concentration ranging from 0 to 1500 microM. This new phenomenon is caused by the G-quadruplex DNA conformational change with a positive correlation with ion concentration. In this work, G-quadruplex DNA was immobilized onto a synthetic nanopore, which undergoes a potassium-responsive conformational change and then induces the change in the effective pore size. The responsive ability of this system can be regulated by the stability of G-quadruplex structure through adjusting potassium concentration. The situation of the grafting G-quadruplex DNA on a single nanopore can closely imitate the in vivo condition because the G-rich telomere overhang is attached to the chromosome. Therefore, this artificial system could promote a potential to conveniently study biomolecule conformational change in confined space by the current measurement, which is significantly different from the nanopore sequencing. Moreover, such a system may also potentially spark further experimental and theoretical efforts to simulate the process of ion transport in living organisms and can be further generalized to other more complicated functional molecules for the exploitation of novel bioinspired intelligent nanopore machines.
Vein patterning screens and the defectively organized tributaries mutants in Arabidopsis thaliana (2008)

Leaf veins form a closed network that transports essential photosynthates, water and signaling molecules to the developing plant. The formation of the patterns of these networks during leaf ontogeny is an active subject of modeling and computer simulation. To investigate the vein patterning process, we performed screens for defects in juvenile leaf vein patterning in Arabidopsis thaliana lines subjected to mutagenesis via diepoxybutane, activation tagging or the Dissociation/Activator transposon. We identified over 40 vein pattern defective lines, providing a phenotypic resource for the testing of vein patterning models. In addition, we report the chromosomal linkage for 13 of these, eight of which were successfully cloned. We further describe the phenotypes of five of these mutants, which we call the defectively organized tributaries (dot) mutants, and their corresponding molecular identities. The diversity of the individual genes affected in this collection of pattern mutants suggests that vein pattern is highly sensitive to perturbations in many cellular processes. Despite this diversity of causes, the resulting pattern defects fall into a limited number of classes, including parallel, spurred, misaligned, open, midvein gap and irregularly spaced. These classes may represent sensitivities to cellular processes associated with the DOT genes. The ontogeny of common defective patterns should be accommodated into any robust model for the ontogeny and evolution of pattern.
Deciphering Complement Receptor Type 1 Interactions with Recognition Proteins of the Lectin Complement Pathway (2013)

Complement receptor type 1 (CR1) is a membrane receptor expressed on a wide range of cells. It is involved in immune complex clearance, phagocytosis, and complement regulation. Its ectodomain is composed of 30 complement control protein (CCP) modules, organized into four long homologous repeats (A-D). In addition to its main ligands C3b and C4b, CR1 was reported to interact with C1q and mannan-binding lectin (MBL) likely through its C-terminal region (CCP22-30). To decipher the interaction of human CR1 with the recognition proteins of the lectin complement pathway, a recombinant fragment encompassing CCP22-30 was expressed in eukaryotic cells, and its interaction with human MBL and ficolins was investigated using surface plasmon resonance spectroscopy. MBL and L-ficolin were shown to interact with immobilized soluble CR1 and CR1 CCP22-30 with apparent dissociation constants in the nanomolar range, indicative of high affinity. The binding site for CR1 was located at or near the MBL-associated serine protease (MASP) binding site in the collagen stalks of MBL and L-ficolin, as shown by competition experiments with MASP-3. Accordingly, the mutation of an MBL conserved lysine residue essential for MASP binding (K55) abolished binding to soluble CR1 and CCP22-30. The CR1 binding site for MBL/ficolins was mapped to CCP24-25 of long homologous repeat D using deletion mutants. In conclusion, we show that ficolins are new CR1 ligands and propose that MBL/L-ficolin binding involves major ionic interactions between conserved lysine residues of their collagen stalks and surface exposed acidic residues located in CR1 CCP24 and/or CCP25.
Predistortion of electroabsorption modulators for analog CATV systems at 1.55 μm (1997)

A predistortion circuit with adjustable amounts of third- and fifth-order predistortion is studied both theoretically and experimentally. The circuit is used to cancel the third- and fifth-order intermodulation distortion of a 1.55-/spl mu/m integrated electroabsorption modulator/DFB laser. The CSO obtained is -61 dBc and the CTB is reduced 22.6 dB to -65 dBc. This performance is maintained after fiber amplification and propagation through 13 km of nondispersion shifted fiber due to the modulator's low chirp. Dithering of the DFB laser's injection current is employed to increase the stimulated Brillouin scattering (SBS) threshold to +13.4 dBm.
Market Response to Liquidity Improvements: Evidence from Exchange Listings (2000)

Abstract The study examines a sample of 895 stocks that moved from Nasdaq to the New York Stock Exchange or to the American Stock Exchange (Amex) between 1971 and 1994. We show how various measures of liquidity such as the bid‐ask spread, trading volume, and stock price precision improve in somewhat different ways upon transfer to NYSE (Amex). We also find that reductions in trading costs (percentage spread) and in pricing error volatility (Hasbrouck's σ 5 ) can explain most of stock market's positive response to exchange listing. Thus, liquidity has many facets and cannot be represented by the bid‐ask spread alone.
Growth phase variation of integration host factor level in Escherichia coli (1994)

We have measured the intracellular abundance of integration host factor (IHF), a site-specific, heterodimeric DNA-binding protein, in exponential- and stationary-phase cultures of Escherichia coli K-12. Western immunoblot analysis showed that cultures that had been growing exponentially for several generations contained 0.5 to 1.0 ng of IHF subunits per microgram of total protein and that this increased to 5 to 6 ng/microgram in late-stationary-phase cultures. IHF is about one-third to one-half as abundant in exponentially growing cells as HU, a structurally related protein that binds DNA with little or no site specificity. Wild-type IHF is metabolically stable, but deletion mutations that eliminated one subunit reduced the abundance of the other when cells enter stationary phase. We attribute this reduction to the loss of stabilizing interactions between subunits. A mutation that inactivates IHF function but not subunit interaction increased IHF abundance, consistent with results of previous work showing that IHF synthesis is negatively autoregulated. We estimate that steady-state exponential-phase cultures contain about 8,500 to 17,000 IHF dimers per cell, a surprisingly large number for a site-specific DNA-binding protein with a limited number of specific sites. Nevertheless, small reductions in IHF abundance had significant effects on several IHF-dependent functions, suggesting that the wild-type exponential phase level is not in large excess of the minimum required for occupancy of physiologically important IHF-binding sites.
A Cat-State Benchmark on a Seven Bit Quantum Computer (1999)

We propose and experimentally realize an algorithmic benchmark that demonstrates coherent control with a sequence of quantum operations that first generates and then decodes the cat state (|000...&gt;+|111...&gt;)/sqrt(2) to the standard initial state |000...&gt;. This is the first high fidelity experimental quantum algorithm on the currently largest physical quantum register, which has seven quantum bits (qubits) provided by the nuclei of crotonic acid. The experiment has the additional benefit of verifying a seven coherence in a generic system of coupled spins. Our implementation combines numerous nuclear magnetic resonance (NMR) techniques in one experiment and introduces practical methods for translating quantum networks to control operations. The experimental procedure can be used as a reliable and efficient method for creating a standard pseudo-pure state, the first step for implementing traditional quantum algorithms in liquid state NMR. The benchmark and the techniques can be adapted for use on other proposed quantum devices.
Single lens stereo with a plenoptic camera (1992)

Ordinary cameras gather light across the area of their lens aperture, and the light striking a given subregion of the aperture is structured somewhat differently than the light striking an adjacent subregion. By analyzing this optical structure, one can infer the depths of the objects in the scene, i.e. one can achieve single lens stereo. The authors describe a camera for performing this analysis. It incorporates a single main lens along with a lenticular array placed at the sensor plane. The resulting plenoptic camera provides information about how the scene would look when viewed from a continuum of possible viewpoints bounded by the main lens aperture. Deriving depth information is simpler than in a binocular stereo system because the correspondence problem is minimized. The camera extracts information about both horizontal and vertical parallax, which improves the reliability of the depth estimates.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Solid oxide fuel cells (2002)

Despite being first demonstrated over 160 years ago, and offering significant environmental benefits and high electrical efficiency, it is only in the last two decades that fuel cells have offered a realistic prospect of being commercially viable. The solid oxide fuel cell (SOFC) offers great promise and is presently the subject of intense research activity. Unlike other fuel cells the SOFC is a solid-state device which operates at elevated temperatures. This review discusses the particular issues facing the development of a high temperature solid-state fuel cell and the inorganic materials currently used and under investigation for such cells, together with the problems associated with operating SOFCs on practical hydrocarbon fuels.
Using Remote Substituents to Control Solution Structure and Anion Binding in Lanthanide Complexes (2013)

A study of the anion-binding properties of three structurally related lanthanide complexes, which all contain chemically identical anion-binding motifs, has revealed dramatic differences in their anion affinity. These arise as a consequence of changes in the substitution pattern on the periphery of the molecule, at a substantial distance from the binding pocket. Herein, we explore these remote substituent effects and explain the observed behaviour through discussion of the way in which remote substituents can influence and control the global structure of a molecule through their demands upon conformational space. Peripheral modifications to a binuclear lanthanide motif derived from α,α'-bis(DO3 Ayl)-m-xylene are shown to result in dramatic changes to the binding constant for isophthalate. In this system, the parent compound displays considerable conformational flexibility, yet can be assumed to bind to isophthalate through a well-defined conformer. Addition of steric bulk remote from the binding site restricts conformational mobility, giving rise to an increase in binding constant on entropic grounds as long as the ideal binding conformation is not excluded from the available range of conformers.
A novel screening method for combinatorial chemistry for low affinity interactions (1999)

A novel screening method for combinatorial chemistry was developed by utilizing the high binding affinity of the avidin–biotin complex (Ka = 1015 M–1), making possible the efficient detection of low affinity interactions between tryptophan and pentapeptides.