gebhart/patrepeval huggingface dataset:
Metabolism of tumor regression from angiogenesis inhibition: 31P magnetic resonance spectroscopy (1989)

31P NMR spectroscopy was used to analyzed the in vivo metabolism of reticulum cell sarcoma of mice. The ratio of high- to low-energy phosphates ATPB/(Pi + PME) was measured to reflect the relative metabolic state in the tumor. Of the 34 mice studied, 26 were treated with an antiangiogenesis regimen of heparin and cortisone. Eighty-two percent of the tumors treated eventually decreased in volume (P less than 0.01). Volumes and spectroscopic information of 20 tumors were analyzed. Although the average untreated volume was similar to the volume after 3 days of treatment, the average ATPB/(Pi + PME) ratio rose from 0.34 +/- 0.10 to 0.47 +/- 0.07 (P = 0.02). However, after 6 days of treatment, the volume significantly decreased (P less than 0.0001) but the ratio did not significantly rise further (P = 0.06). The rise in the high-energy phosphate preceded a significant decrease in volume of the tumors. In addition, the replenishment of high-energy stores with tumor regression coincided with the histologic findings of a decrease in the number of tumor cells, a decrease of the mitotic index, and a decrease of the number of necrotic cells present with ongoing treatment. Our data suggest that noninvasive methods of assessing early biochemical response of tumor regression may be possible.
Diagnostic accuracy of a clinical diagnosis of idiopathic pulmonary fibrosis: an international case–cohort study (2017)

We conducted an international study of idiopathic pulmonary fibrosis (IPF) diagnosis among a large group of physicians and compared their diagnostic performance to a panel of IPF experts.A total of 1141 respiratory physicians and 34 IPF experts participated. Participants evaluated 60 cases of interstitial lung disease (ILD) without interdisciplinary consultation. Diagnostic agreement was measured using the weighted kappa coefficient (κ<sub>w</sub>). Prognostic discrimination between IPF and other ILDs was used to validate diagnostic accuracy for first-choice diagnoses of IPF and were compared using the C-index.A total of 404 physicians completed the study. Agreement for IPF diagnosis was higher among expert physicians (κ<sub>w</sub>=0.65, IQR 0.53-0.72, p<0.0001) than academic physicians (κ<sub>w</sub>=0.56, IQR 0.45-0.65, p<0.0001) or physicians with access to multidisciplinary team (MDT) meetings (κ<sub>w</sub>=0.54, IQR 0.45-0.64, p<0.0001). The prognostic accuracy of academic physicians with >20 years of experience (C-index=0.72, IQR 0.0-0.73, p=0.229) and non-university hospital physicians with more than 20 years of experience, attending weekly MDT meetings (C-index=0.72, IQR 0.70-0.72, p=0.052), did not differ significantly (p=0.229 and p=0.052 respectively) from the expert panel (C-index=0.74 IQR 0.72-0.75).Experienced respiratory physicians at university-based institutions diagnose IPF with similar prognostic accuracy to IPF experts. Regular MDT meeting attendance improves the prognostic accuracy of experienced non-university practitioners to levels achieved by IPF experts.
Database-Driven Iterative Learning for Building Temperature Control (2019)

Building interior temperatures are affected by the outdoor air temperature. Note that outdoor weather patterns are somewhat repetitive in nature and historical records of outdoor temperature are readily accessible; we present a data-driven iterative learning approach to improve the room temperature tracking performance over time. By comparing the short-term temperature forecast with the past data, chains of (nonconsecutive) days exhibiting similar outside temperature patterns can be identified. The corresponding building operation record (heat input and temperature output trajectories) may then be used in the iterative learning control (ILC) to update the input based on the past temperature tracking error. Multizone buildings are strictly passive from the heat input to temperature output in all zones. This property assures the convergence of the ILC iteration if the update gain is suitably bounded, without the need of an accurate model. This means that for each chain, the zone temperature deviation from the specified profile will converge to zero as the number of days in the chain grows (i.e., as more iterations of ILC are performed). Using a six-zone physical test bed with programmable ambient temperatures, we demonstrate the practicality of the proposed approach in multiple experimental trials. Additional longer-duration simulations are performed based on the actual temperature recorded in Orlando, FL, USA and New York, NY, USA over a two-year period. In all cases, ILC is shown to improve the tracking error in the presence of ambient temperature fluctuations.
Inherent Charge-Shifting Polyelectrolyte Multilayer Blends: A Facile Route for Tunable Protein Release from Surfaces (2011)

Recent research has highlighted degradable multilayer films that enable the programmed release of different therapeutics. Multilayers constructed by the layer-by-layer (LbL) deposition that can undergo disassembly have been demonstrated to be of considerable interest, particularly for biomedical surface coatings due to their versatility and mild aqueous processing conditions, enabling the inclusion of biologic drugs with high activity. In this study, we examine the controlled release of a protein using a different mechanism for film disassembly, the gradual dissociation of film interactions under release conditions. Poly(β-amino ester)s and poly(L-lysine) (PLL) were used as the positively charged multilayer components coassembled with a model negatively charged antigen protein, ovalbumin (Ova). The release of the protein from these multilayer films is dominated by the slow shift in the charge of components under physiological pH conditions rather than by hydrolytic degradative release. The time scale of release can be varied over almost 2 orders of magnitude by varying the ratio of the two polyamines in the deposition solution. The highly versatile and tunable properties of these films form a basis for designing controlled and sequential delivery of drug coatings using a variety of polyions.
Optimisation and integration of catalytic porous structures into structured reactors for CO₂ conversion to methane (2017)

Dans cette étude de doctorat, la technique de dépôt tridimensionnel de fibres (3DFD) a été appliquée pour développer et fabriquer des structures de support catalytique multi-canaux avancées. En utilisant cette technique, le matériau, la porosité, la forme et la taille des canaux et l'épaisseur des fibres peuvent être contrôlées. L'objectif de cette recherche est d'étudier les performances des supports structurés 3D conçus pour la méthanation du CO2 en termes d'activité, de sélectivité de stabilité et d’étudier l'impact des propriétés spécifiques introduites dans la conception structurale des supports.
Energy Frontier Research Center for Solid-State Lighting Science: Exploring New Materials Architectures and Light Emission Phenomena (2014)

The Energy Frontier Research Center (EFRC) for Solid-State Lighting Science (SSLS) is one of 46 EFRCs initiated in 2009 to conduct basic and use-inspired research relevant to energy technologies. The overarching theme of the SSLS EFRC is the exploration of energy conversion in tailored photonic structures. In this article we review highlights from the research of the SSLS EFRC. Major research themes include: studies of the materials properties and emission characteristics of III-nitride semiconductor nanowires; development of new phosphors and II–VI quantum dots for use as wavelength downconverters; fundamental understanding of competing radiative and nonradiative processes in current-generation, planar light-emitting diode architectures; understanding of the electrical, optical, and structural properties of defects in InGaN materials and heterostructures; exploring ways to enhance spontaneous emission through modification of the environment in which the emission takes place; and investigating routes such as stimulated emission that might outcompete nonradiative processes.
High-resolution continuously acquired peripheral MR angiography featuring partial parallel imaging GRAPPA (2006)

Continuously-moving-table MRI, in contrast to traditional multistation techniques, potentially can improve the scan time efficiency of whole-body applications and provide seamless images of an extended field of view (FOV). Contrast-enhanced MR angiography (CE-MRA) in particular requires high spatial resolution and at the same time has rigid scan time constraints due to the limited arterial contrast window. In this study a reconstruction method for continuously acquired 3D data sets during table movement was combined with a self-calibrated partial parallel imaging algorithm (generalized autocalibrating partially parallel acquisitions (GRAPPA)). The method was applied to peripheral CE-MRA and compared with a standard continuously-moving-table MRA protocol. The gain in scan time was used to increase the data acquisition matrix and decrease the slice thickness. The method was evaluated in five healthy volunteers and applied to one patient with peripheral arterial occlusive disease (PAOD). The protocols were intraindividually compared with respect to the signal-to-noise ratio (SNR) and contrast-to-noise ratio (CNR) in selected vessel segments, as well as overall vessel depiction. The combination of the continuously-moving-table technique with parallel imaging enabled the acquisition of seamless peripheral 3D MRA with increased resolution and an overall crisper appearance.
Reducing handover time in heterogeneous wireless networks (2003)

A novel approach for handover in heterogeneous wireless networks is proposed in this paper. In our approach, the mobile terminal (MT) sends the handover-initiating message to the new base station instead of the old base station before it loses connection with its old base station. Hence, it reduces the time to perform handover, which is crucial for packet switched networks. Furthermore, we propose that MT activates its interfaces only in the measurement region, which is the region just before the MT enters the handover region.
Imaging the Human Prostate Gland Using 1-μm-Resolution Optical Coherence Tomography (2018)

Because μOCT can be implemented in a small-diameter flexible probe, this study suggests that high-resolution μOCT imaging may be a useful tool for needle-based virtual biopsy of the prostate gland.
Postural Reorganization Induced by Torso Cutaneous Covibration (2013)

Cutaneous information from joints has been attributed proprioceptive properties similar to those of muscle spindles. This study aimed to assess whether vibration-induced changes in torso cutaneous information contribute to whole-body postural reorganization in humans. Ten healthy young adults stood in normal and Romberg stances with six vibrating actuators positioned on the torso in contact with the skin over the left and right external oblique, internal oblique, and erector spinae muscle locations at the L4/L5 vertebrae level. Vibrations around the torso were randomly applied at two locations simultaneously (covibration) or at all locations simultaneously. Kinematic analysis of the body segments indicated that covibration applied to the skin over the internal oblique muscles induced shifts of both the head and torso in the anterior direction (torso flexion) while the hips shifted in the posterior direction (ankle plantar flexion). Conversely, covibration applied to the skin over the erector spinae muscle locations produced opposite effects. However, covibration applied to the skin over the left internal oblique and left erector spinae, the right internal oblique and right erector spinae, or at all locations simultaneously did not induce any significant postural changes. In addition, the center of pressure position as measured by the force plate was unaffected by all covibration conditions tested. These results were independent of stance and suggest an integrated and coordinated reorganization of posture in response to vibration-induced changes in cutaneous information. In addition, combinations of vibrotactile stimuli over multiple locations exhibit directional summation properties in contrast to the individual responses we observed in our previous work.
Optically preamplified receiver at 10, 20, and 40 Gb/s using a 1550-nm vertical-cavity SOA (2005)

In this study, we demonstrate optical preamplification at 1550 nm using a vertical-cavity semiconductor optical amplifier (VCSOA). At 10 Gb/s, a receiver sensitivity of -28.5 dBm was achieved for 13 dB of fiber-to-fiber gain. This corresponds to an improvement in the receiver sensitivity of 9.7 dB. We also evaluated the performance at 20 and 40 Gb/s. A 4.7-dB power penalty was measured at 20 Gb/s with 6-dB fiber-to-fiber gain. Theoretical simulations show that the pattern dependence can be mitigated using a VCSOA with lower mirror reflectivity.
In-vivo detection of binary PKA network interactions upon activation of endogenous GPCRs (2015)

Membrane receptor-sensed input signals affect and modulate intracellular protein-protein interactions (PPIs). Consequent changes occur to the compositions of protein complexes, protein localization and intermolecular binding affinities. Alterations of compartmentalized PPIs emanating from certain deregulated kinases are implicated in the manifestation of diseases such as cancer. Here we describe the application of a genetically encoded Protein-fragment Complementation Assay (PCA) based on the Renilla Luciferase (Rluc) enzyme to compare binary PPIs of the spatially and temporally controlled protein kinase A (PKA) network in diverse eukaryotic model systems. The simplicity and sensitivity of this cell-based reporter allows for real-time recordings of mutually exclusive PPIs of PKA upon activation of selected endogenous G protein-coupled receptors (GPCRs) in cancer cells, xenografts of mice, budding yeast, and zebrafish embryos. This extends the application spectrum of Rluc PCA for the quantification of PPI-based receptor-effector relationships in physiological and pathological model systems.
Conductivity discontinuities in the upper mantle beneath a stable craton (1993)

We present evidence for approximate collocation of seismic and electrical transitions in the upper mantle. More than two years of very long period magnetotelluric (MT) data were recorded at a lakebottom observatory in the central Canadian Shield. After processing to contend with non‐stationary source effects, and removal of galvanic distortion, the underlying structure is 1D for periods of one hour to four days. The response was extended to periods of 100 days by appending Geomagnetic Depth Sounding data to the MT curves. Minimum structure linearised inversion, nonlinear extremal inversion, and a new genetic algorithm for nonlinear hypothesis testing, reveal discrete jumps in conductivity at depths near the major upper mantle seismic discontinuities. The jumps occur over limited depth ranges.
Beauty production in pp collisions at s=2.76 TeV measured via semi-electronic decays (2014)

The ALICE Collaboration at the LHC reports measurement of the inclusive production cross section of electrons from semi-leptonic decays of beauty hadrons with rapidity |y| < 0.8 and transverse momentum 1 < p T < 10 GeV/c, in pp collisions at s = 2.76 TeV. Electrons not originating from semi-electronic decay of beauty hadrons are suppressed using the impact parameter of the corresponding tracks.
A DNA prism : Physical principles for optimizing a microfabricated DNA separation device (2002)

Recently, we reported a microfabricated "DNA prism" device that continuously sorts large DNA molecules (61 kilobase pair to 209 kb) according to size in 15 seconds. In this paper, we develop models to understand and optimize the device. The device's complicated characteristics are explained poorly by a simple model based on the assumption that DNA molecules are fully stretched. Assuming DNA molecules obey Hooke's law, a second model successfully explains the "biphasic" separation characteristics under low fields. Further, the model suggests the use of high fields combined with shorter pulse durations for more linear separation dependence on molecular weight, an advantage which is then confirmed by experiments.
Colorectal Carcinomas Containing Hypermethylated MLH1 Promoter and Wild-Type BRAF/KRAS Are Enriched for Targetable Kinase Fusions (2019)

Kinase fusions are rare and poorly characterized in colorectal carcinoma, yet they present unique opportunities for targeted therapy. In this study, we characterized kinase fusions from patients with advanced colorectal carcinoma who had MSK-IMPACT testing of their tumors between January 2014 and June 2018. Patients were analyzed for the presence of fusions, microsatellite instability (MSI), and <i>RAS/BRAF</i> mutations. Mismatch repair (MMR), IHC, and promoter hypermethylation status of MLH1 (MLH1ph) in microsatellite instability-high (MSI-H) colorectal carcinoma with fusions were investigated. Fusion transcripts were confirmed using a targeted RNA-seq panel assay. Of 2,314 colorectal carcinomas with MSK-IMPACT testing, 21 harbored kinase fusions. Overall 57% (12/21) of colorectal carcinoma fusions were MSI-H/MMR-D. Loss of MLH1 and MLH1ph was confirmed in all 12 and all 10 cases with available material, respectively. Fusions were present in 5% of MSI-H/MMR-D colorectal carcinoma compared with 0.4% of MSS/MMR-P colorectal carcinoma (<i>P</i> < 0.001) and 15% of MSI-H/MMR-D colorectal carcinoma with wild-type <i>RAS/BRAF</i>. Of 24 total MLH1-deficient colorectal carcinomas with MLH1ph and wild-type <i>RAS/BRAF</i>, 10 (42%) harbored kinase fusions. Kinase fusions in MSI-H colorectal carcinoma were associated with sporadic MLH1ph rather than with Lynch syndrome, and these patients may be eligible for kinase inhibitors, particularly following resistance or toxicity in response to immunotherapy. These findings identify a molecular subset of colorectal carcinoma with kinase fusions that may be responsive to kinase inhibitors.<b>Significance:</b> A high frequency of targetable kinase fusions in <i>BRAF/RAS</i> wild-type, MSI-H colorectal carcinoma offers a rationale for routine screening to identify patients with colorectal carcinoma with kinase fusions that may be responsive to kinase inhibitors.<i>See related commentary by Valeri, p. 1041</i>.
Risk Factors of Influenza-Associated Respiratory Illnesses Reported to a Sentinel Hospital of Lahore, Pakistan: 2015-2016 (2021)

Epidemiological data about determinants of influenza A virus (IAV) in the Pakistani population is scarce. We aimed to conduct a prospective hospital-based active surveillance study from October 2015 to May 2016 to identify potential risk factors associated with IAV infection among patients with influenza-like illness (ILI) and severe acute respiratory illness (SARI). Surveillance was conducted in Lahore General Hospital, selected as a sentinel site in Lahore District, Pakistan. Nasal/throat samples were collected along with epidemiological and clinical data from enrolled patients. Real-time reverse-transcription polymerase chain reaction (rRT-PCR) was performed to identify IAV and its subtypes (H1N1pdm09, H3N2). Data were analyzed to determine risk factors and risk markers associated with IAV infections. A total of 311 suspected ILI and SARI cases were enrolled in the study, and among these 50 were IAV-positive. Of these 50 confirmed cases of IAV, 14 were subtyped as H1N1pdm09 and 15 were H3N2; the remaining 21 were untyped. A final multivariable model identified four independent risk factors/markers for IAV infection: exposure history to ILI patients within last 7 days and gender being male were identified as risk factors of IAV infection, while use of antibiotics prior to hospital consultation and presence of fever were identified as risk markers. We concluded that adopting nonpharmaceutical interventions like hand hygiene, masks, social distancing, and where possible, avoiding identified risk factors could decrease the risk of IAV infection and may prevent imminent outbreaks of IAV in the community.
<title>Double-passage imaging through a random phase screen using coherent illumination</title> (1995)

We evaluate the time-averaged double-passage image of a coherently illuminated object that is obscured by a random phase screen. In particular, we study the effect of changing the location of the random screen on the average intensity spectrum of the image. We consider two cases, when the random screen is at an arbitrary location between the pupil plane of the imaging system and the object plane and when it is located right next to the object. In both cases we find that the average intensity spectrum of the image is diffraction-limited.
P‐181: The Analysis of Energy Transfer Mechanism According to Abnormal Host Mixing Composition by Using Solution‐processed OLEDs (2018)

We reported an influence of abnormal mixing effect of host systems having undesirable energy level in the emission layer (EML) by using solution processed OLEDs. From this study, we found that a high performance of the solution OLEDs was realized by controlling photo‐physical pathways such as exciton quenching process.
Inhibition of the nuclear entry of 3,3',5'-triiodo-L-thyronine by monodansylcadaverine in GH3 cells. (1982)

We have recently reported that the entry of 3,3',5-triiodo-L-thyronine (T3) into mouse 3T3 fibroblasts occurs by receptor-mediated endocytosis (Cheng, S. Y., Maxfield, F. R., Robbins, J., Willingham, M. C., and Pastan, I. (1980) Proc. Natl. Acad. Sci. U. S. A. 77: 3425-3429). In this communication, we evaluated the functional significance of this mode of entry using GH3 cells, a growth hormone-producing cell line which has a high number of T3 nuclear receptors. T3-specific, saturable membrane uptake systems were demonstrated in GH3 cells. Monodansylcadaverine, an inhibitor of alpha 2-macroglobulin, epidermal growth factor, vesicular stomatitis virus, and T3 uptake in fibroblasts, blocked virtually all of the cellular uptake of T3, with a half-maximal concentration of 29 microM. Concomitant with the inhibition of the cellular uptake of T3, the accumulation of T3 into nuclei was reduced. The inhibitory effect of monodansylcadaverine on the reduction of T3 incorporation into nuclei was not due to the inhibition of binding to nuclear receptors, but probably was due to a decrease in the cytoplasmic availability of T3 as a result of inhibition of cellular entry. These results indicate that the uptake of T3 by receptor-mediated endocytosis is a physiologically significant process.
Stereoisomeric Imidazolo-Pentoses − Synthesis, Chiroptical Properties, and Evaluation as Glycosidase Inhibitors (2001)

The syntheses of all four imidazolo-piperidino-pentoses in the L-series ent-2 to ent-5, and of three out of the four possible stereomers in the D-series 3, 4, and 5, are reported. The linear imidazolo sugar precursors were prepared, either by double condensation of formamidine with protected aldohexoses, or by nucleophilic addition of a lithiated imidazole derivative to protected aldotetroses. Cyclisation of these linear imidazolo-carbohydrates was performed by intramolecular SN2 reactions. These were followed by deprotection to the target molecules. The four pairs of opposite enantiomers showed pronounced mirror-image-type Cotton effects in their CD spectra. All stereomers of the D-series show a negative rotatory power ([α]D), while the stereomers of the L-series show a positive one. None of the eight imidazolo sugars inhibited the replication of HIV-1. Some of them proved to be rather selective but only moderately potent inhibitors of α-glycosidases, as determined by Michaelis-Menten kinetics.
Table S2 from Distinct Mechanisms of Mismatch-Repair Deficiency Delineate Two Modes of Response to Anti–PD-1 Immunotherapy in Endometrial Carcinoma (2023)

&lt;p&gt;Supplementary Table S2: HLA genotype calls.&lt;/p&gt;