gebhart/patrepeval huggingface dataset:
AB193. SOH21AS245. Atypical invasive lobular carcinoma of the breast: clinicopathologic profile and outcomes over a 10-year period (2021)

Background: Invasive lobular carcinoma (ILC) accounts for 10–15% of invasive breast cancers. Typical ILC is estrogen receptor (ER) positive and human epidermal growth factor receptor 2 (HER2) negative. Atypical lobular subtypes appear to differ from typical ILCs. This study aimed to analyse the various biologic phenotypes of invasive lobular carcinoma and compare their clinical and prognostic parameters.Methods: All patients with ILC treated in a tertiary referral breast cancer centre from January 2005 to April 2015 were identified from a prospectively maintained database. Clinicopathologic and outcome data was collected and analysed according to tumour biology.Results: A total of 359 patients with ILC were treated. Typical lobular tumour biology was observed in 88.9% (n=319) and atypical biologic phenotypes in 11.1% (n=40). Comparing typical and atypical ILCs, mean tumour size was similar (29.4 vs. 24.8 mm, P=0.157). Atypical ILCs were higher grade (35.0% grade 3 vs. 10.7% grade 3, P<0.001) and a higher proportion of atypical ILCs had lymphovascular invasion. Among node-positive ILCs the atypical group had greater nodal burden with mean number of positive lymph nodes 12 vs. 6, P=0.026. The majority of atypical ILCs underwent neo-adjuvant chemotherapy. A greater proportion of atypical ILCs showed >50% therapeutic response. There was no statistically significant difference in 5-year disease free survival between the two groups.Conclusions: Atypical ILCs are more frequently higher grade and have a higher nodal burden. Although they more frequently undergo neo-adjuvant chemotherapy this does not appear to translate to reduced surgical burden or better long-term outcomes.
The oncoprotein LMO2 is expressed in normal germinal-center B cells and in human B-cell lymphomas (2006)

We previously developed a multivariate model based on the RNA expression of 6 genes (LMO2, BCL6, FN1, CCND2, SCYA3, and BCL2) that predicts survival in diffuse large B-cell lymphoma (DLBCL) patients. Since LMO2 emerged as the strongest predictor of superior outcome, we generated a monoclonal anti-LMO2 antibody in order to study its tissue expression pattern. Immunohistologic analysis of over 1200 normal and neoplastic tissue and cell lines showed that LMO2 protein is expressed as a nuclear marker in normal germinal-center (GC) B cells and GC-derived B-cell lines and in a subset of GC-derived B-cell lymphomas. LMO2 was also expressed in erythroid and myeloid precursors and in megakaryocytes and also in lymphoblastic and acute myeloid leukemias. It was rarely expressed in mature T, natural killer (NK), and plasma cell neoplasms and was absent from nonhematolymphoid tissues except for endothelial cells. Hierarchical cluster analysis of immunohistologic data in DLBCL demonstrated that the expression profile of the LMO2 protein was similar to that of other GC-associated proteins (HGAL, BCL6, and CD10) but different from that of non-GC proteins (MUM1/IRF4 and BCL2). Our results warrant inclusion of LMO2 in multivariate analyses to construct a clinically applicable immunohistologic algorithm for predicting survival in patients with DLBCL.
A self-hardening biodegradable cement as a drug delivery vehicle (2012)

INTRODUCTION: Injectable, resorbable cements are commonly studied for bone repair, but rarely considered as vehicles for sustained drug release in tissues other than bone. In this study, a self-hardening biodegradable calcium carbonate cement containing the drug hydroxyflutamide was developed. Hydroxyflutamide is used for treatment of pancreas cancer, which is a possible indication for this drug delivery system. Drug release measurements showed a sustained release of the drug for several days.
Ultrastretchable Analog/Digital Signal Transmission Line with Carbon Nanotube Sheets (2017)

Stretchable conductors can be used in various applications depending on their own characteristics. Here, we demonstrate simple and robust elastomeric conductors that are optimized for stretchable electrical signal transmission line. They can withstand strains up to 600% without any substantial change in their resistance (≤10% as is and ≤1% with passivation), and exhibit suppressed charge fluctuations in the medium. The inherent elasticity of a polymeric rubber and the high conductivity of flexible, highly oriented carbon nanotube sheets were combined synergistically, without losing both properties. The nanoscopic strong adhesion between aligned carbon nanotube arrays and strained elastomeric polymers induces conductive wavy folds with microscopic bending of radii on the scale of a few micrometers. Such features enable practical applications such as in elastomeric length-changeable electrical digital and analog signal transmission lines at above MHz frequencies. In addition to reporting basic direct current, alternating current, and noise characterizations of the elastomeric conductors, various examples as a stretchable signal transmission line up to 600% strains are presented by confirming the capability of transmitting audio and video signals, as well as low-frequency medical signals without information distortion.
Comparative Analysis of Different Data Center Airflow Management Configurations (2005)

Increase in computing power resulting from high performance microprocessors, packages, and modules and the deployment of high heat load computer rack units in high density configurations, has escalated the thermal challenges in today’s data center systems. One of the key issues is the location of hot recirculation regions in the room and the mixing of hot rack exhaust air with the cold supply air. Along with many factors such as the rack heat load and the cooling capacity of the supply air, the data center thermal management architecture plays an important role in determining the reliability of the electronic equipment and the general thermal performance of the data center. There are several candidate configurations available for the air ducting designs for data centers. The overall energy efficiency of the system is highly dependant upon the selection of the specific configuration. This paper will summarize the results of a broad numerical study carried out to assess the effectiveness of different data center configurations. The numerical modeling is performed using a commercial computational fluid dynamics (CFD) code based on finite volume approach. The configurations studied include different combinations of raised floor and ceiling supply and return vent location subject to specific constraints. The performance of the data center has been characterized on the basis of average and maximum mean region rack inlet air temperature. Among the seven different configurations compared, the raised floor/ceiling return type configuration is found to be the most effective configuration for the given set of constraints and assumptions.
Resonance Raman spectra of bacteriorhodopsin's primary photoproduct: evidence for a distorted 13-cis retinal chromophore. (1982)

We have obtained the resonance Raman spectrum of bacteriorhodopsin's primary photoproduct K with a novel low-temperature spinning sample technique. Purple membrane at 77 K is illuminated with spatially separated actinic (pump) and probe laser beams. The 514-nm pump beam produces a photostationary steady-state mixture of bacteriorhodopsin and K. This mixture is then rotated through the red (676 nm) probe beam, which selectively enhances the Raman scattering from K. The essential advantage of our successive pump-and-probe technique is that it prevents the fluorescence excited by the pump beam from masking the red probe Raman scattering. K exhibits strong Raman lines at 1516, 1294, 1194, 1012, 957, and 811 cm-1. The effects of C15 deuteration on K's fingerprint lines correlate well with those seen in 13-cis model compounds, indicating that K has a 13-cis chromophore. However, the presence of unusually strong "low-wavenumber" lines at 811 and 957 cm-1, attributable to hydrogen out-of-plane wags, indicates that the protein holds the chromophore in a distorted conformation after trans leads to cis isomerization.
Ventricular stroke work and efficiency both remain nearly optimal despite altered vascular loading (1993)

Recent clinical and animal studies have suggested that ventricular-vascular coupling normally operates at either optimal ventricular efficiency (EFF = stroke work/myocardial oxygen consumption) or stroke work (SW) and that efficiency in particular is compromised by cardiac dysfunction. These distinctions between coupling states at maximal work vs. efficiency are largely based on theoretical models. To date, there are few direct experimental data defining optimal conditions for each parameter, respectively, in the same heart or tests of whether changes from these conditions must produce significant declines in both parameters. Therefore, 10 isolated blood-perfused canine hearts were studied at varying contractilities, with the heart ejecting into a simulated three-element Windkessel model of arterial impedance. For a given inotropic state [indexed by the slope of the end-systolic pressure-volume relationship (Ees)], myocardial oxygen consumption and SW were measured over a broad range of afterload resistances. The latter was indexed by the effective arterial elastance (Ea) and ventricular-vascular interaction expressed by the ratio of Ea to Ees (Ea/Ees). On average, maximal SW occurred at Ea/Ees = 0.80 +/- 0.16, whereas EFF was maximal at Ea/Ees = 0.70 +/- 0.15 (P < 0.01). However, these differences were small, and both SW and EFF were > or = 90% of their respective optima over a broad overlapping range of Ea-to-Ees ratios (0.3-1.3, corresponds with ejection fractions ranging from approximately 40 to 80%). These data show that both SW and efficiency are nearly maximal under many conditions of ventricular-vascular interaction.(ABSTRACT TRUNCATED AT 250 WORDS)
Infrared Study of the Decomposition of Polystyrene over Supported Rhodium (1997)

A combined study utilizing infrared spectroscopy and a tubular microreactor on the decomposition of polystyrene over supported rhodium has been performed. The primary product detected by infrared was methane, but only when hydrogen gas was present and only at temperatures higher (523 K) than those necessary (501 K) for hydrogenation of the aromatic rings on polystyrene. Temperatures necessary for production of methane over Rh/SiO2 (573 K) were higher than those for Rh/Al2O3 (523 K). The tubular microreactor studies showed that the yield of methane during sample decomposition was low compared to those of higher hydrocarbons not detected by infrared.
Preparation of Biodegradable Cationic Polycarbonates and Hydrogels through the Direct Polymerization of Quaternized Cyclic Carbonates (2017)

Polymers exhibiting both antimicrobial and biodegradable properties are of great interest for next generation materials in healthcare. Among those, cationic polycarbonates are one of the most promising classes of materials because of their biodegradability, low toxicity, and biocompatibility. They are typically prepared by a chemical postmodification after the polymer has been synthesized. The main problem with the latter is the challenges of ensuring and verifying complete quaternization within the polymer structure. Herein, we report the first example of synthesizing and polymerizing charged aliphatic cyclic carbonates with three different alkane pendant groups (<i>N</i>-methyl, <i>N</i>-butyl, and <i>N</i>-hexyl) by ring-opening polymerization (ROP). These charged eight-membered cyclic carbonates displayed extraordinary reactivity and were even polymerizable in polar solvents (e.g., DMSO) and in catalyst free conditions that are generally unobtainable for other ring opening polymerization processes. A computational study was carried out and the findings were in agreement with the experimental data in regards to the dramatic increase in reactivity of the charged monomer over their neutral analogs. Furthermore, a series of hydrogels were prepared using the different charged eight-membered cyclic carbonates, and we found it to have a significant impact on the hydrogels' ability to swell and degrade in water. Finally, the hydrogels demonstrated antibacterial activity against <i>Escherichia coli</i> (Gram-negative) and <i>Staphylococcus aureus</i> (Gram-positive). These materials could be ideal candidates for biologically relevant applications where cationic structure is required.
Fine motor current control based on new current reconstruction method using one DC-link current sensor (2015)

This paper proposes a current compensation method for current reconstruction from a DC-link current sensor. The method has region in which phase current reconstruction is difficult. To solve this problem, voltage reference and carrier compensation methods have been proposed. However, these methods increase the phase current harmonics. This paper proposes a current compensation method that uses the phase difference between the current and the voltage reference. The effectiveness of the proposed method and characteristics of reconstruction current feedback control are confirmed using a simulation. Experimental results verify the validity of the proposed current reconstruction method.
Investigation of a Microwave Data Telemetry Link for a Retinal Prosthesis (2004)

In this paper, we investigate a novel approach of establishing a data telemetry link for a dual-unit retinal prosthesis at microwave frequencies (1.45 and 2.45 GHz) using a pair of microstrip patch antennas. Appropriately sized extraocular (25/spl times/25 mm) and intraocular (6/spl times/6 mm) antennas are designed to operate at both the frequencies using the finite-difference time-domain method, and the coupling between them is examined computationally in the presence of a 0.25-mm resolution human-head model. Good agreement between numerical and experimental coupling results is shown and it is observed that the eyeball acts as a dielectric lens for the implanted antenna, thus improving the coupling between the extraocular and intraocular antennas. Specific absorption rate (SAR) computations are also performed at both the frequencies, and the peak 1-g SAR value is calculated. Detailed analysis of the design issues of the antennas, results of the numerical and experimental coupling measurements, and SAR calculations are presented.
Spectrographic Microfluidic Memory (2005)

Recent advancements in micro- and nanoscale fluidic manipulation have enabled the development of a new class of tunable optical structures which are collectively referred to as optofluidic devices. In this paper we will introduce our recent work directed towards the development of a spectrographic optofluidic memory. Data encoding for the memory is based on creating spectrographic codes consisting of multiple species of photoluminescent nanoparticles at discrete intensity levels which are suspended in liquids. The data cocktails are mixed, delivered and stored using a series of soft and hard-lithography microfluidic structures. Semiconductor quantum dots are ideally suited for this application due to their narrow and size tunable emission spectra and consistent excitation wavelength. Both pressure driven and electrokinetic approaches to spectral code writing have been developed and will be experimentally demonstrated here. Novel techniques for data storage and readout are also discussed and demonstrated.
Stochastic Probabilistic Programs (2020)

We introduce the notion of a stochastic probabilistic program and present a reference implementation of a probabilistic programming facility supporting specification of stochastic probabilistic programs and inference in them. Stochastic probabilistic programs allow straightforward specification and efficient inference in models with nuisance parameters, noise, and nondeterminism. We give several examples of stochastic probabilistic programs, and compare the programs with corresponding deterministic probabilistic programs in terms of model specification and inference. We conclude with discussion of open research topics and related work.
Formulation matters! A spectroscopic and molecular dynamics investigation on the peptide CIGB552 as itself and in its therapeutical formulation (2021)

Synthetic therapeutic peptides (STP) are intensively studied as new-generation drugs, characterized by high purity, biocompatibility, selectivity and stereochemical control. However, most of the studies are focussed on the bioactivity of STP without considering how the formulation actually used for therapy administration could alter the physico-chemical properties of the active principle. The aggregation properties of a 20-mer STP (Ac-His-Ala-Arg-Ile-Lys-D-Pro-Thr-Phe-Arg-Arg-D-Leu-Lys-Trp-Lys-Tyr-Lys-Gly-Lys-Phe-Trp-NH<sub>2</sub> ), showing antitumor activity, were investigated by optical spectroscopy and atomic force microscopy imaging, as itself (CIGB552) and in its therapeutic formulation (CIGB552TF). It has found that the therapeutic formulation deeply affects the aggregation properties of the investigated peptide and the morphology of the aggregates formed on mica by deposition of CIGB552 and CIGB552TF millimolar solutions. Molecular dynamics simulations studied the first steps of CIGB552 aggregation under physiological ionic strength conditions (NaCl 150 mM), showing that peptide oligomers, from dimers to tetramers, are preferentially formed in this environment. Interestingly, cell viability assays performed on H-460 cell lines indicate a major antiproliferative activity of the peptide in its therapeutic formulation with respect to the peptide aqueous solution.
Ionic Hydrogels with Biomimetic 4D‐Printed Mechanical Gradients: Models for Soft‐Bodied Aquatic Organisms (2019)

Abstract Direct‐ink writing (DIW), a rapidly growing and advancing form of additive manufacturing, provides capacities for on‐demand tailoring of materials to meet specific requirements for final designs. The penultimate challenge faced with the increasing demand of customization is to extend beyond modification of shape to create 4D structures, dynamic 3D structures that can respond to stimuli in the local environment. Patterning material gradients is foundational for assembly of 4D structures, however, there remains a general need for useful materials chemistries to generate gray scale gradients via DIW. Here, presented is a simple materials assembly paradigm using DIW to pattern ionotropic gradients in hydrogels. Using structures that architecturally mimic sea‐jelly organisms, the capabilities of spatial patterning are highlighted as exemplified by selectively programming the valency of the ion‐binding agents. Spatial gradients, when combined with geometry, allow for programming the flexibility and movement of iron oxide nanoparticle–loaded ionotropic hydrogels to generate 4D‐printed structures that actuate in the presence of local magnetic fields. This work highlights approaches to 4D design complexity that exploits 3D‐printed gray‐scale/gradient mechanics.
The anti-inflammatory cytokine interleukin-37 is an inhibitor of trained immunity (2021)

Trained immunity (TI) is a de facto innate immune memory program induced in monocytes/macrophages by exposure to pathogens or vaccines, which evolved as protection against infections. TI is characterized by immunometabolic changes and histone post-translational modifications, which enhance production of pro-inflammatory cytokines. As aberrant activation of TI is implicated in inflammatory diseases, tight regulation is critical; however, the mechanisms responsible for this modulation remain elusive. Interleukin-37 (IL-37) is an anti-inflammatory cytokine that curbs inflammation and modulates metabolic pathways. In this study, we show that administration of recombinant IL-37 abrogates the protective effects of TI in vivo, as revealed by reduced host pro-inflammatory responses and survival to disseminated candidiasis. Mechanistically, IL-37 reverses the immunometabolic changes and histone post-translational modifications characteristic of TI in monocytes, thus suppressing cytokine production in response to infection. IL-37 thereby emerges as an inhibitor of TI and as a potential therapeutic target in immune-mediated pathologies.
Energy Applications for an Energy Box (2016)

Changes in the electric utility will necessitate new needs and opportunities for monitoring and controlling electric power consumption and generation. Technical solutions exploiting these opportunities and answering these needs would ideally preserve best practices like reliability, privacy, efficiency, and flexibility. A nonintrusive load monitor (NILM) can serve as an ideal platform for constructing an “energy box” capable of sophisticated monitoring and control. This paper introduces a data processing and analysis framework, NILM manager. NILM manager creates a business model for handling power data by minimizing network bandwidth and placing intelligence and feature expansion in easily transmitted “energy apps.”
Kinetic Resolution of Two Mechanisms for High-Affinity Granulocyte-Macrophage Colony-Stimulating Factor Binding to Its Receptor (1999)

Granulocyte-macrophage colony-stimulating factor (GM-CSF) is an important hematopoietic cytokine that exerts its effects by interaction with the GM-CSF receptor (GMR) on the surface of responsive cells. The GM-CSF receptor consists of two subunits: GMR, which binds GM-CSF with low affinity, and GMRβ, which lacks intrinsic ligand-binding capability but complexes with GMR to form a high-affinity receptor (GMR/β). We conducted dynamic kinetic analyses of GM-CSF receptors to define the role of GMRβ in the interaction of ligand and receptor. Our data show that GMR/β exhibits a higher kon than GMR, indicating that GMRβ facilitates ligand acquisition to the binding pocket. Heterogeneity with regard to GM-CSF dissociation from GMR/β points to the presence of loose and tight ligand-receptor complexes in high-affinity binding. Although the loose complex has a koff similar to GMR, the lower koffindicates that GMRβ inhibits GM-CSF release from the tight receptor complex. The two rates of ligand dissociation may provide for discrete mechanisms of interaction between GM-CSF and its high-affinity receptor. These results show that the β subunit functions to stabilize ligand binding as well as to facilitate ligand acquisition.
An historical introduction to biocatalysis using enzymes and micro-organisms (2010)

Each year that passes sees increasing interest in the application of enzymes and micro-organisms as catalysts in organic chemistry. Well-received national reports on the potential growth of biotechnology, not to speak of numerous reviews of the topic of biotransformation itself, have described the advantages which biological catalysis can bring to complex organic syntheses. At this time it is indeed an exciting prospect for anyone who has a role to play in the development of this new technology. But occasionally a prospective participant, as well as a reviewer, ought to stand back and ask, Why has this explosion of interest happened now?