gebhart/patrepeval huggingface dataset:
Quantitative conductivity and permittivity estimation using full-waveform inversion of on-ground GPR data (2012)

ABSTRACT Conventional ray-based techniques for analyzing common-midpoint (CMP) ground-penetrating radar (GPR) data use part of the measured data and simplified approximations of the reality to return qualitative results with limited spatial resolution. Whereas these methods can give reliable values for the permittivity of the subsurface by employing only the phase information, the far-field approximations used to estimate the conductivity of the ground are not valid for near-surface on-ground GPR, such that the estimated conductivity values are not representative for the area of investigation. Full-waveform inversion overcomes these limitations by using an accurate forward modeling and inverts significant parts of the measured data to return reliable quantitative estimates of permittivity and conductivity. Here, we developed a full-waveform inversion scheme that uses a 3D frequency-domain solution of Maxwell’s equations for a horizontally layered subsurface. Although a straightforward full-waveform inversion is relatively independent of the permittivity starting model, inaccuracies in the conductivity starting model result in erroneous effective wavelet amplitudes and therefore in erroneous inversion results, because the conductivity and wavelet amplitudes are coupled. Therefore, the permittivity and conductivity are updated together with the phase and the amplitude of the source wavelet with a gradient-free optimization approach. This novel full-waveform inversion is applied to synthetic and measured CMP data. In the case of synthetic single layered and waveguide data, where the starting model differs significantly from the true model parameter, we were able to reconstruct the obtained model properties and the effective source wavelet. For measured waveguide data, different starting values returned the same wavelet and quantitative permittivities and conductivities. This novel approach enables the quantitative estimation of permittivity and conductivity for the same sensing volume and enables an improved characterization for a wide range of applications.
Combination of adoptive cell transfer, anti-PD-L1 and anti-LAG-3 antibodies for the treatment of recurrent tumors (2013)

Tumor recurrence may result from the exhaustion of tumor-associated antigen (TAA)-specific T cells, which often occurs upon chronic antigen stimulation. We have recently shown that the blockade of the T-cell inhibitory receptors PD-L1 and LAG-3 restores TAA-specific CD4+ T-cell functions in mice bearing recurrent neoplasms, resulting in robust antineoplastic effects.
AML: A Manufacturing Language (1982)

AML, A Maufacturing Language, was designed to be a well-structured, semantically powerful interactive language for robot programming. In this paper, we identify the de sign objectives for such a language and give a technical description of AML. Important features are described and illustrated through representative examples of robot appli cations programming.
Purification and biochemical characterization of chicken anaemia agent (1990)

Chicken anaemia agent (CAA) was purified using differential centrifugation and successive cycles of equilibrium density gradient centrifugation using sucrose and CsCl. The purification method was dependent on the use of an antigen-detecting ELISA based on a CAA-specific monoclonal antibody. Virus particles banded at a density of 1.33 to 1.34 g/ml in CsCl and measured 23.5 +/- 0.8 nm in diameter. Purified preparations contained one major polypeptide (Mr 50,000) and a single-stranded, circular DNA (2.3 kb). CAA shares some of the biochemical characteristics possessed by porcine circovirus and the virus associated with psittacine beak and feather disease.
The blood bank "black box" debunked: pretransfusion testing explained (2006)

An ABO-incompatible red blood cell (RBC) transfusion (i.e., transfusion of RBCs with A or B antigens to a recipient with the corresponding antibodies) is fatal in 10% of cases[1][1] and is the main cause of death from transfusion. Errors leading to an ABO-incompatible transfusion can occur at any
Monolithically integrated silicon nitride platform (2021)

A comprehensive set of SiN building blocks was demonstrated on a monolithic SiPh platform. Low-loss SiN waveguides (&lt;0.35dB/cm), Si-SiN transitions (0.026dB), efficient polarization splitters/rotators, and compact ring WDM filters were realized at O-band.
Pholipomycin, a new member of phosphoglycolipid antibiotics. III. Biological properties. (1977)

Pholipomycin, a new member of the phosphoglycolipid antibiotics, was primarily active against gram-positive bacteria including clinically isolated resistant bacteria. It differed from other members of the antibiotic family as it also demonstrated activity against gram-negative bacteria. Pholipomycin protected mice from infection with Staphylococcus aureus and was nontoxic to mice having an LD50 (i.v.) of 600 mg/kg. Besides possessing anti-microbiol activity, pholipomycin, when administered orally, appeared to promote growth in chickens and pigs.
Endogenous biosynthesis of prostacyclin and thromboxane and platelet function during chronic administration of aspirin in man. (1983)

To assess the pharmacologic effects of aspirin on endogenous prostacyclin and thromboxane biosynthesis, 2,3-dinor-6-keto PGF1 alpha (PGI-M) and 2,3-dinor-thromboxane B2 (Tx-M) were measured in urine by mass spectrometry during continuing administration of aspirin. To define the relationship of aspirin intake to endogenous prostacyclin biosynthesis, sequential urines were initially collected in individuals prior to, during, and subsequent to administration of aspirin. Despite inter- and intra-individual variations, PGI-M excretion was significantly reduced by aspirin. However, full mass spectral identification confirmed continuing prostacyclin biosynthesis during aspirin therapy. Recovery of prostacyclin biosynthesis was incomplete 5 d after drug administration was discontinued. To relate aspirin intake to indices of thromboxane biosynthesis and platelet function, volunteers received 20 mg aspirin daily followed by 2,600 mg aspirin daily, each dose for 7 d in sequential weeks. Increasing aspirin dosage inhibited Tx-M excretion from 70 to 98% of pretreatment control values; platelet TxB2 formation from 4.9 to 0.5% and further inhibited platelet function. An extended study was performed to relate aspirin intake to both thromboxane and prostacyclin generation over a wide range of doses. Aspirin, in the range of 20 to 325 mg/d, resulted in a dose-dependent decline in both Tx-M and PGI-M excretion. At doses of 325-2,600 mg/d Tx-M excretion ranged from 5 to 3% of control values while PGI-M remained at 37-23% of control. 3 d after the last dose of aspirin (2,600 mg/d) mean Tx-M excretion had returned to 85% of control, whereas mean PGI-M remained at 40% of predosing values. Although the platelet aggregation response (Tmax) to ADP ex vivo was inhibited during administration of the lower doses of aspirin the aggregation response returned to control values during the final two weeks of aspirin administration (1,300 and 2,600 mg aspirin/d) despite continued inhibition of thromboxane biosynthesis. These results suggest that although chronic administration of aspirin results in inhibition of endogenous thromboxane and prostacyclin biosynthesis over a wide dose range, inhibition of thromboxane biosynthesis is more selective at 20 than at 2,600 mg aspirin/d. However, despite this, inhibition of platelet function is not maximal at the lower aspirin dosage. Doses of aspirin in excess of 80 mg/d resulted in substantial inhibition of endogenous prostacyclin biosynthesis. Thus, it is unlikely that any dose of aspirin can maximally inhibit thromboxane generation without also reducing endogenous prostacyclin biosynthesis. These results also indicate that recovery of endogenous prostacyclin biosynthesis is delayed following aspirin administration and that the usual effects of aspirin on platelet function ex vivo may be obscured during chronic aspirin administration in man.
Functional Expression in Escherichia coli and Membrane Topology of Porin HopE, a Member of a Large Family of Conserved Proteins in Helicobacter pylori (2000)

HopE is one of the smallest members of a family of 31 outer membrane proteins in Helicobacter pylori and has been shown to function as a porin. In this study it was cloned into Escherichia coli where it was expressed in the outer membrane, as confirmed by indirect immunofluorescence using HopE-specific antibodies. HopE purified from E. coli reconstituted channels in planar bilayer membranes that were the same size as those formed by HopE purified from H. pylori. A model of the membrane topology of HopE was constructed and indicated that this protein formed a beta-barrel with 16 transmembrane amphipathic beta-strands. The accuracy of this model was tested by linker insertion mutagenesis, assuming that, like other porins, amino acid insertions were not tolerated in the transmembrane beta-strands but were tolerated in the adjoining loop regions. Generally, the results obtained with a series of 12 insertions of the sequence RSKDV and two substitutions were consistent with the topological model. The preponderance of amino acids that were conserved in the extended family of HopE paralogs were predicted to be within the membrane and comprised 45% of all residues in the membrane.
Mucositis: Its Occurrence, Consequences, and Treatment in the Oncology Setting (1998)

INTRODUCTION: Mucositis induced by antineoplastic drugs is an important, dose-limiting, and costly side effect of cancer therapy. The ulcerative lesions produced by mucotoxic chemoradiotherapy are painful, restrict oral intake and, importantly, act as sites of secondary infection and portals of entry for the endogenous oral flora. The overall frequency of mucositis varies and is influenced by the patient's diagnosis, age, level of oral health, and type, dose, and frequency of drug administration. Some degree of mucositis occurs in approximately 40% of patients who receive cancer chemotherapy. Approximately one-half of those individuals develop lesions of such severity as to require modification of their cancer treatment and/or parenteral analgesia. The condition's incidence is consistently higher among patients undergoing conditioning therapy for bone marrow/peripheral blood progenitor cell transplantation, continuous infusion therapy for breast and colon cancer, and therapy for tumors of the head and neck associating concomitant chemotherapy and radiotherapy. Among patients in the high-risk protocols, severe mucositis occurs with a frequency in excess of 60%. Concomitant with mucositis is often a chemotherapy-induced myelosuppression. The neutropenia that results puts the patient with oral mucositis at significant risk for systemic infection. Patients with mucositis and neutropenia have a relative risk of septicemia that is greater than four times that of individuals without mucositis. The morbidity of all mucositis can be profound. It is estimated that approximately 15% of patients treated with radical radiotherapy to the oral cavity and oral pharynx will require hospitalization for treatment-related complication. In addition, severe oral mucositis may interfere with the ability to deliver the intended course of therapy, leading to significant interruptions in treatment, and possibly impacting on local tumor control and patient survival. It is also not unusual for mucositis to necessitate delays in cancer chemotherapy particularly with those agents that are known to be mucotoxic, including 5-fluorouracil with or without folinic acid, methotrexate, doxorubicin, etoposide, melphalan, cytosine arabinoside and cyclophosphamide. In addition to its impact on a patient's treatment course, on quality of life, and morbidity and mortality, mucositis can also have a significant economic cost. This is particularly true in the autologous and allogeneic bone marrow transplant settings for hematologic malignancies, where the length of hospital stay may be prolonged due to severe mucositis.
Oscillatory Flow in Pulsating Heat Pipes with Arbitrary Numbers of Turns (2003)

Oscillatory flow in pulsating heat pipes (PHPs) with arbitrary numbers of turns is investigated numerically. The PHP is placed vertically with the evaporator sections at the top and the condenser sections at the bottom. The governing equations, obtained by analysis of the conservation of mass, momentum, and energy of the liquid and vapor plugs, are nondimensionalized, and the problem is described by eight nondimensional parameters. The numerical solution is obtained by employment of an implicit scheme. The effects of the number of turns, length of the heating and cooling sections, and charge ratio on the performance of the PHP were also investigated.
Abstract 4772: Stearoyl-CoA Desaturase (SCD1) regulates liver tumor initiating cells through modulating ER stress (2017)

Abstract Sorafenib is the FDA approved drug for patients with advanced hepatocellular carcinoma (HCC), but the survival benefit is only modest, partly due to drug resistance. Increasing evidence shows that tumor-initiating cells (T-ICs) are intrinsically resistant to conventional treatments, and targeting signaling pathways in T-ICs provides potential therapeutic targets for HCC. In our established enriched T-IC population, we identified the activation of a lipogenesis pathway in which expression of stearoyl-CoA desaturase-1 (SCD1), an enzyme involved in the conversion of saturated into monounsaturated fatty acids, was most significant. SCD1 overexpression is frequently found in HCC samples and is significantly associated with poorer patient survival. Using overexpression and knockdown approaches, SCD1 was found to regulate the traits of T-ICs, including tumorigenicity, self-renewal, differentiation, drug resistance and the expression of liver T-IC markers. Interestingly, SCD1 was markedly upregulated in our established sorafenib-resistant cell lines as well as patient-derived xenografts (PDTXs), and its overexpression predicts the clinical response of HCC patients to sorafenib treatment. Consistently, pharmacological inhibition of SCD1 suppressed T-IC phenotypes and enhanced sensitivity to sorafenib treatment. Using a patient-derived xenograft model, we found that a novel SCD1 inhibitor (SSI-4) in combination with sorafenib demonstrated a maximal tumor suppressive effect. Induction of endoplasmic reticulum (ER) stress-mediated T-IC differentiation can account for the enhanced sensitivity towards sorafenib treatment upon SCD1 suppression. In conclusion, SCD1-induced ER stress may specifically increase the sensitivity of liver T-ICs to the effects of sorafenib treatment. Targeting SCD1 in combination with sorafenib therapy may be a novel therapeutic regimen against HCC. Citation Format: Kin Fai Ma, Eunice Yuen Ting Lau, Irene Oi Lin Ng, Kin Wah Lee. Stearoyl-CoA Desaturase (SCD1) regulates liver tumor initiating cells through modulating ER stress [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2017; 2017 Apr 1-5; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2017;77(13 Suppl):Abstract nr 4772. doi:10.1158/1538-7445.AM2017-4772
Indoor PDR performance enhancement using minimal map information and particle filters (2008)

For professional users such as firefighters and other first responders, GNSS positioning technology (GPS, assisted GPS) can satisfy outdoor positioning requirements in many instances. However, there is still a need for high-performance deep indoor positioning for use by these same professional users. This need has already been clearly expressed by various communities of end users in the context of WearIT@Work, an R&D project funded by the European Community's Sixth Framework Program. It is known that map matching can help for indoor pedestrian navigation. In most previous research, it was assumed that detailed building plans are available. However, in many emergency / rescue scenarios, only very limited building plan information may be at hand. For example a building outline might be obtained from aerial photographs or cataster databases. Alternatively, an escape plan posted at the entrances to many building would yield only approximate exit door and stairwell locations as well as hallway and room orientation. What is not known is how much map information is really required for a USAR mission and how much each level of map detail might help to improve positioning accuracy. Obviously, the geometry of the building and the course through will be factors consider. The purpose of this paper is to show how a previously published Backtracking Particle Filter (BPF) can be combined with different levels of building plan detail to improve PDR performance. A new in/out scenario that might be typical of a reconnaissance mission during a fire in a two-story office building was evaluated. Using only external wall information, the new scenario yields positioning performance (2.56 m mean 2D error) that is greatly superior to the PDR-only, no map base case (7.74 m mean 2D error). This result has a substantial practical significance since this level of building plan detail could be quickly and easily generated in many emergency instances. The technique could be used to mitigate heading errors that result from exposing the IMU to extreme operating conditions. It is hoped that this mitigating effect will also occur for more irregular paths and in larger traversed spaces such as parking garages and warehouses.
Antifungal peptides with novel specific inhibitors of glucosamine 6-phosphate synthase. (1988)

N3-4-Methoxyfumaroyl-L-2,3-diaminopropanoic acid (FMDP) has been found to be a strong and selective inhibitor of glucosamine 6-phosphate synthase from Candida albicans. Incorporation of FMDP into a dipeptide structure has produced effective antifungal agents (portage transport). A number of dipeptides containing FMDP have been synthesized, with Nva-FMDP showing the highest in vitro activity against different fungi, including Candida albicans (MIC90 = 2.2 micrograms/ml for 50 clinical strains), Cryptococcus neoformans and Aspergillus spp. This compound, when tested in a general candidiosis model infection in mice, gave PD50/10 and CD50/10 values of 5.0 and 1.63 mg/kg, respectively. Meanwhile, the LD50 value after i.v. administration was higher than 300 mg/kg.
An automated approach for identifying potential vulnerabilities in software (2002)

The paper presents results from analyzing the vulnerability of security-critical software applications to malicious threats and anomalous events using an automated fault injection analysis approach. The work is based on the well understood premise that a large proportion of security violations result from errors in software source code and configuration. The methodology employs software fault injection to force anomalous program states during the execution of software and observes their corresponding effects on system security. If insecure behaviour is detected, the perturbed location that resulted in the violation is isolated for further analysis and possibly retrofitting with fault tolerant mechanisms.
Nicotine's Defensive Function in Nature (2004)

Plants produce metabolites that directly decrease herbivore performance, and as a consequence, herbivores are selected for resistance to these metabolites. To determine whether these metabolites actually function as defenses requires measuring the performance of plants that are altered only in the production of a certain metabolite. To date, the defensive value of most plant resistance traits has not been demonstrated in nature. We transformed native tobacco(Nicotiana attenuata) with a consensus fragment of its two putrescine N-methyl transferase (pmt) genes in either antisense or inverted-repeat (IRpmt) orientations. Only the latter reduced (by greater than 95%) constitutive and inducible nicotine. With D(4)-nicotinic acid (NA), we demonstrate that silencing pmt inhibits nicotine production, while the excess NA dimerizes to form anatabine. Larvae of the nicotine-adapted herbivore Manduca sexta (tobacco hornworm) grew faster and, like the beetle Diabrotica undecimpunctata, preferred IRpmt plants in choice tests. When planted in their native habitat, IRpmt plants were attacked more frequently and, compared to wild-type plants, lost 3-fold more leaf area from a variety of native herbivores, of which the beet armyworm, Spodoptera exigua, and Trimerotropis spp. grasshoppers caused the most damage. These results provide strong evidence that nicotine functions as an efficient defense in nature and highlights the value of transgenic techniques for ecological research.
Active antenna using parasitic elements (2002)

This paper proposes a coplanar waveguide-fed active antenna with the parasitic elements of half-wavelength dipole placed above the oscillator to improve the frequency stability. The quality factor of this antenna is increased by the parasitic element, which is not obtained by the conventional active antenna that is connected directly to the oscillator. This paper describes experimental results of this active antenna's characteristics, power combining, and self-oscillating mixer (Cha and Itoh 1995).
Coronary artery calcification detected with ultrafast CT as an indication of coronary artery disease. (1992)

To assess the relationship of coronary artery calcification to angiographically detectable disease, the authors evaluated 100 patients less than 60 years of age who underwent clinically indicated coronary angiography and ultrafast computed tomography (CT). The ultrafast CT technique consisted of 3-mm-thick contiguous sections and a 100-msec acquisition time. All patients with clinically significant disease at angiography (defined as at least one stenosis with a diameter narrowing of at least 50%) had some coronary artery calcification present at ultrafast CT (100% sensitivity in this population). The absence of calcification at ultrafast CT had a 100% negative predictive value for clinically significant coronary artery disease. Specificity and positive predictive value were 47% and 62%, respectively. Sensitivity and specificity of ultrafast CT in the detection of patients with angiographically detectable disease were 94% and 72%, respectively. Ultrafast CT of the heart is an anatomically based, noninvasive test with high sensitivity for the detection of coronary artery calcification. Ultrafast CT may be beneficial in the screening of selected populations for the presence of atherosclerotic coronary disease.
MultiLoc: prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino acid composition (2006)

http://www-bs.informatik.uni-tuebingen.de/Services/MultiLoc/
Interfacial Bioorthogonal Cross-Linking (2014)

Described herein is interfacial bioorthogonal cross-linking, the use of bioorthogonal chemistry to create and pattern biomaterials through diffusion-controlled gelation at the liquid-gel interface. The basis is a rapid (<i>k</i><sub>2</sub> 284000 M<sup>-1</sup> s<sup>-1</sup>) reaction between strained <i>trans</i>-cyclooctene (TCO) and tetrazine (Tz) derivatives. Syringe delivery of Tz-functionalized hyaluronic acid (HA-Tz) to a bath of bis-TCO cross-linker instantly creates microspheres with a cross-linked shell through which bis-TCO diffuses freely to introduce further cross-linking at the interface. Tags can be introduced with 3D resolution without external triggers or templates. Water-filled hydrogel channels were prepared by simply reversing the order of addition. Prostate cancer cells encapsulated in the microspheres have 99% viability, proliferate readily, and form aggregated clusters. This process is projected to be useful in the fabrication of cell-instructive matrices for in vitro tissue models.