gebhart/patrepeval huggingface dataset:
Supplementary Figure 1 from c-Src Modulates Estrogen-Induced Stress and Apoptosis in Estrogen-Deprived Breast Cancer Cells (2023)

&lt;p&gt;PDF file - 77K, 1A, The c-Src inhibitor blocked E2 activated non-genomic pathway. MCF-7:5C cells were treated with vehicle (0.1% DMSO), E2 (10-9 mol/L), PP2 (5x10-6 mol/L), E2 (10-9 mol/L) plus PP2 (5x10-6 mol/L) respectively for 10 minutes and the cell lysates were harvested. Phosphorylated MAPK and c-Src were examined by immunoblotting with primary antibodies. Immunoblotting for total MAPK and c-Src were used for loading controls. 1B, E2 rapidly activated MAPK and c-Src. MCF-7:5C cells were treated with vehicle (0.1% EtOH) and E2 (10-9 mol/L) for different time points as indicated and the cell lysates were harvested. Phosphorylated MAPK and c-Src were examined by immunoblotting with primary antibodies. Immunoblotting for total MAPK and c-Src were used for loading controls. 1C, E2 stimulated c-Src after 24 hours treatment. MCF-7:5C cells were treated with vehicle (0.1% EtOH) and E2 (10-9 mol/L) for different time points as indicated and the cell lysates were harvested. Phosphorylated c-Src was examined by immunoblotting with primary antibody. Immunoblotting for total c-Src was used for loading control. 1D, Quantification of Annexin V binding assay. MCF-7:5C cells were treated with vehicle (0.1% DMSO), E2 (10-9 mol/L), 4-OHT (10-6 mol/L), E2 (10-9 mol/L) plus 4-OHT (10-6 mol/L), PP2 (5x10-6 mol/L), E2 (10-9 mol/L) plus PP2 (5x10-6 mol/L) respectively for 72 hours and the cells were harvested for Annexin V binding assay through flow cytometry. The percentage of Annexin V binding was compared with control. P&lt;0.05, * compared with control. All the data shown were representative of at least three separate experiments with similar results.&lt;/p&gt;
The challenges of double-blind peer review in an era of increasing research transparency (2020)

1Northwestern University, Chicago, IL, USA 2La Trobe University, Melbourne, VIC, Australia 3University of Washington, Seattle, Washington, USA 4Jönköping University, Jönköping, Sweden Stefania Fatone, Northwestern University, 680 N Lake Shore Drive, Suite 1100, Chicago, IL 60611, USA. Email: [email protected]
Anomalous Stability Behavior of Synchronous Machine With High Impedance Faults (2015)

It is generally believed that following a fault, the system remains stable as long as the fault is cleared within a “critical clearing time” or CCT. This letter shows that when there is a high impedance resistive fault, there are later intervals such that if the fault is cleared within these intervals of time, the system is still stable notwithstanding that the clearing time is now larger than the conventionally calculated CCT. The results are obtained precisely using digital simulation and explained qualitatively using the equal area criterion.
OBSERVATIONAL STUDY OF EPIDURAL LABOUR ANALGESIA USING BUPIVACAINE AND BUPIVACAINE PLUS TRAMADOL (2016)

The aim of this study is to study the role of epidural for labour analgesia using Bupivacaine and Bupivacaine plus Tramadol.
Abstract 1218: A novel synergistic antibody pair targeting non-overlapping epitopes of MET effectively inhibits MET-driven cancer models (2016)

Abstract The receptor tyrosine kinase MET (Hepatocyte Growth Factor Receptor, HGFR) has been associated with development and progression of a range of human tumors due to its regulation of cell proliferation, migration, invasion, and angiogenesis. A subset of human tumors, particularly of lung or gastric origin, appear to have a primary dependency on MET, which is driven by alterations, such as MET-gene amplification, MET-exon 14 deletion, activating mutations, or autocrine HGF production. Furthermore, MET-amplification has been reported as a key mechanism of de novo resistance to EGFR targeting agents. Sym015 is a mixture of two humanized monoclonal antibodies against non-overlapping epitopes on MET. The specific pair of antibodies was identified in a high-throughput cell based screen searching for antibody mixtures with superior growth inhibitory activity against four MET-dependent cell lines. Both antibodies bind the SEMA domain of MET with high affinity. Synergistic activity was confirmed by dose-response curves in several MET-dependent cell lines and cell line and patient-derived xenograft models. Mechanistically, Sym015 blocks HGF binding to MET, induces MET internalization and degradation effectively diminishing MET oncogenic signaling. Sym015 also induces higher levels of antibody-dependent cell-mediated cytotoxicity (ADCC) in vitro compared to individual mAbs. In conclusion, Sym015, a novel monoclonal antibody mixture against MET, shows strong inhibitory activity against MET driven cell lines and xenografts due to a combined effect of MET degradation and secondary effector functions. These data support initiation of clinical trials. Citation Format: Michael M. Grandal, Thomas T. Poulsen, Klaus Koefoed, Karsten W. Eriksen, Anna Dahlman, Paolo Conrotto, Thomas Bouquin, Helle Jacobsen, Ivan D. Horak, Michael Kragh, Johan Lantto, Mikkel W. Pedersen. A novel synergistic antibody pair targeting non-overlapping epitopes of MET effectively inhibits MET-driven cancer models. [abstract]. In: Proceedings of the 107th Annual Meeting of the American Association for Cancer Research; 2016 Apr 16-20; New Orleans, LA. Philadelphia (PA): AACR; Cancer Res 2016;76(14 Suppl):Abstract nr 1218.
Structural Characterization of Amorfrutins Bound to the Peroxisome Proliferator-Activated Receptor γ (2013)

Amorfrutins are a family of natural products with high affinity to the peroxisome proliferator-activated receptor γ (PPARγ), a nuclear receptor regulating lipid and glucose metabolism. The PPARγ agonist rosiglitazone increases insulin sensitivity and is effective against type II diabetes but has severe adverse effects including weight gain. Amorfrutins improve insulin sensitivity and dyslipidemia but do not enhance undesired fat storage. They bear potential as therapeutics or prophylactic dietary supplements. We identified amorfrutin B as a novel partial agonist of PPARγ with a considerably higher affinity than that of previously reported amorfrutins, similar to that of rosiglitazone. Crystal structures reveal the geranyl side chain of amorfrutin B as the cause of its particularly high affinity. Typical for partial agonists, amorfrutins 1, 2, and B bind helix H3 and the β-sheet of PPARγ but not helix H12.
Closed-Loop Sinusoidal Input-Current Shaping of 12-Pulse Autotransformer Rectifier Unit With Impressed Output Voltage (2010)

This paper presents a novel closed-loop current-control strategy for a hybrid 12-pulse rectifier that uses a two-switch boost stage for output-voltage regulation. Unlike previous attempts to mitigate input-current distortion, e.g., by modulating the rectifier output voltage with open-loop control, this new closed-loop current-control scheme directly controls the line-interphase-transformer input voltage and/or impresses sinusoidal input currents. In this paper, the control strategy is explained and the modulation functions for each (π/6)-wide mains voltage sector are derived. The hardware implementation is described, and experimental results demonstrate that the control strategy ensures a high-quality input current for ideal as well as for distorted/unbalanced mains.
Supplementary Table 2 from Chk2 Phosphorylation of Survivin-ΔEx3 Contributes to a DNA Damage–Sensing Checkpoint in Cancer (2023)

&lt;p&gt;PDF file - 112K, Tissue expression of survivin-�Ex3. HNSCC= Head and neck squamous cell carcinoma, NB=neuroblastoma, n 1=number of samples in group 1, n 2=number of samples in group 2, fc=upregulation fold, rho=spearman correlation coefficient.&lt;/p&gt;
Parallel computational techniques for simulating dopant diffusion in silicon (1989)

Parallel computational techniques have been used to simulate dopant diffusion in Si (e.g. source/drain fabrication of a CMOS transistor) on an ICL distributed array processor (DAP), a single-instruction multiple-data-stream (SIMD) type machine. The finite element and conjugate gradient methods were used for solution. An order of magnitude reduction in computation time has been achieved.
Challenges of Spectrofluorometry, Part 1: Collect Data Right the First Time (2021)

This article is the first of a 3-part series that gives a procedure to avoid common errors in spectrofluorometry using an example case. Part 2 will focus on throughput and polarization correction of spectrofluorometers for the purpose of inter-laboratory comparisons, while Part 3 will focus on non-ideal sample behavior.
Conductive Polymers: A Tunable 3D Nanostructured Conductive Gel Framework Electrode for High‐Performance Lithium Ion Batteries (Adv. Mater. 22/2017) (2017)

In article number 1603922, Amy C. Marschilok, Esther S. Takeuchi, Guihua Yu, and co-workers develop a 3D nanostructured conductive-polymer gel as a novel binder system for lithium-ion batteries. The gel binder greatly enhances the rate capability and cyclic stability of battery electrodes because the molecular framework facilitates both electron and ion transport and the polymer coating formed in situ improves the dispersity of active particles within the entire electrode.
Supplementary Figure S2 from Efficient Payload Delivery by a Bispecific Antibody–Drug Conjugate Targeting HER2 and CD63 (2023)

&lt;p&gt;Lysosomal transport of a bispecific antibody targeting integrin-β1 and CD63&lt;/p&gt;
Data from Metabolic Screening of Cytotoxic T-cell Effector Function Reveals the Role of CRAC Channels in Regulating Lethal Hit Delivery (2023)

&lt;div&gt;Abstract&lt;p&gt;Cytotoxic T lymphocytes (CTL) mediate cytotoxicity toward tumor cells by multistep cell–cell interactions. However, the tumor microenvironment can metabolically perturb local CTL effector function. CTL activity is typically studied in two-dimensional (2D) liquid coculture, which is limited in recapitulating the mechanisms and efficacy of the multistep CTL effector response. We here developed a microscopy-based, automated three-dimensional (3D) interface coculture model suitable for medium-throughput screening to delineate the steps and CTL effector mechanisms affected by microenvironmental perturbation. CTL effector function was compromised by deregulated redox homeostasis, deficient mitochondrial respiration, as well as dysfunctional Ca&lt;sup&gt;2+&lt;/sup&gt; release-activated Ca&lt;sup&gt;2+&lt;/sup&gt; (CRAC) channels. Perturbation of CRAC channel function dampened calcium influx into CTLs, delayed CTL degranulation, and lowered the frequency of sublethal hits (i.e., additive cytotoxicity) delivered to the target cell. Thus, CRAC channel activity controls both individual contact efficacy and CTL cooperativity required for serial killing of target cells. The multistep analysis of CTL effector responses in 3D coculture will facilitate the identification of immune-suppressive mechanisms and guide the rational design of targeted intervention strategies to restore CTL effector function.&lt;/p&gt;&lt;/div&gt;
Data from Treatment of Chronic Lymphocytic Leukemia with a Hypomethylating Agent Induces Expression of NXF2, an Immunogenic Cancer Testis Antigen (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Purpose:&lt;/b&gt; Critical to the success of active immunotherapy against cancer is the identification of immunologically recognized cancer-specific proteins with low tolerogenic potential. Cancer testis antigens (CTA), in particular, fulfill this requirement as a result of their aberrant expression restricted to cancer cells and lack of expression in normal tissues bypassing tolerogenic mechanisms against self. Although CTAs have been extensively studied in solid malignancies, little is known regarding their expression in chronic lymphocytic leukemia (CLL).&lt;/p&gt;&lt;p&gt;&lt;b&gt;Experimental Design:&lt;/b&gt; Using a two-pronged approach we evaluated the immunogenicity of 29 CTAs in 22 patients with CLL and correlated these results to reverse transcriptase PCR data from CLL cell lines and patient cells.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; We identified IgG-specific antibodies for one antigen, NXF2, and confirmed this response by ELISA and Western blot. We found that treatment of CLL with 5-aza-2′-deoxycytidine can induce expression of NXF2 that lasted for several weeks after treatment. Treatment also increased levels of MHC and costimulatory molecules (CD80, CD86, and CD40) necessary for antigen presentation. In addition, we identified other promising antigens that may have potential immunotherapeutic application.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusions:&lt;/b&gt; Our findings suggest that NXF2 could be further pursued as an immunotherapeutic target in CLL, and that treatment with demethylating agents could be exploited to specifically modulate CTA expression and effective antigen presentation in malignant B cells.&lt;/p&gt;&lt;/div&gt;
Vertebral end‐plate failure in porcine‐and bovine models of spinal fracture instrumentation (1990)

The use of mature porcine and immature bovine spines as models for the assessment of spinal fracture instrumentation is commonplace. By comparing the load-displacement characteristics of these spine segments and observing the fracture type, this study investigated the tendency of immature bovine spines to fail prematurely at the vertebral physis, disrupting biomechanical evaluation of spinal fracture fixation devices. Load to failure of the spines was determined using the Instron Universal Testing Machine and a specially designed endcap. In axial compression, the 10-16-week-old calf spines failed at 12,845 +/- 1,466 N, compared with mature pig spines at 17,300 +/- 5,170 N (p less than 0.05). Axial compression with flexion caused consistent failure through an end-plate in both species: 995 +/- 156 N for the calf spines and 2,025 +/- 575 N for the porcine spines (p less than 0.005). It was concluded that the tendency for immature bovine spines to fail more readily at the cartilaginous end-plate makes the calf spine a less desirable model.
Irreversible inhibition of human cathepsins B, L, S and K by hypervalent tellurium compounds (2009)

The inhibition of human cysteine cathepsins B, L, S and K was evaluated by a set of hypervalent tellurium compounds (telluranes) comprising both organic and inorganic derivatives. All telluranes studied showed a time- and concentration-dependent irreversible inhibition of the cathepsins, and their second-order inactivation rate constants were determined. The organic derivatives were potent inhibitors of the cathepsins and clear specificities were detected, which were parallel to their known substrate specificities. In all cases, the activity of the tellurane-inhibited cathepsins was recovered by treatment of the inactivated enzymes with reducing agents. The maximum stoichiometry of the reaction between cysteine residues and telluranes were also determined. The presented data indicate that it is possible to design organic compounds with a tellurium(IV) moiety as a novel warhead that covalently modifies the catalytic cysteine, and which also form strong interactions with subsites of cathepsins B, L, S and K, resulting in more specific inhibition.
QSAR and Proteo-chemometric Analysis of the Interaction of a Series of Organic Compounds with Melanocortin Receptor Subtypes (2003)

We have created quantitative structure-activity relationship (QSAR) models describing the interaction of a series of 54 organic compounds with four melanocortin (MC) receptor subtypes, MC(1), MC(3), MC(4), and MC(5). In addition to traditional QSAR analysis, we applied our recently developed proteo-chemometrics approach. Proteo-chemometrics is based on the combined analysis of series of receptors and ligands, wherein descriptions of ligands, proteins, and so-called ligand-protein cross-terms are correlated with interaction activities. The compounds were characterized by structural descriptors, including three-dimensional grid-independent descriptors (GRINDs), topological descriptors, and geometrical descriptors. Description of receptors was obtained by computing the receptors' amino acid sequence identities. Both the QSAR and proteo-chemometrics approaches resulted in models with essentially the same statistical significance: the cross-validated correlation coefficient q(2) for the proteo-chemometric model being 0.71, while for the QSAR models the q(2)s were 0.75, 0.68, 0.63, and 0.71 for the MC(1), MC(3)(-)(5) receptor, respectively. However, the proteo-chemometrics modeling provided more detailed information about receptor-ligand interactions and determinants for receptor subtype selectivity than did QSAR.
Quantum Cascade Photonic Crystal Microlasers for "Intra-Cavity" Mid-IR Spectroscopy of Biomolecules on a Chip (2006)

Get PDF Email Share Share with Facebook Share on X Post on reddit Share with LinkedIn Add to Mendeley Add to BibSonomy Share with WeChat Get Citation Copy Citation Text R. Perahia, K. Srinivasan, O. Painter, V. Moreau, M. Bahriz, R. Colombelli, L. Diehl, M. Loncar, B. Lee, and F. Capasso, "Quantum Cascade Photonic Crystal Microlasers for "Intra-Cavity" Mid-IR Spectroscopy of Biomolecules on a Chip," in Integrated Photonics Research and Applications/Nanophotonics, Technical Digest (CD) (Optica Publishing Group, 2006), paper JWA4. Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
Alleviation of Hepatic Steatosis by Alpha-Defensin Is Associated with Enhanced Lipolysis (2023)

<i>Background and Objectives</i>: The neutrophilic peptide, alpha-defensin, is considered an evolving risk factor intimately linked with lipid mobilization. It was previously linked to augmented liver fibrosis. Here, we assess a potential association between alpha-defensin and fatty liver. Materials and <i>Methods</i>: A cohort of transgenic C57BL/6JDef<sup>+/+</sup> male mice that overexpress the human neutrophil-derived alpha-defensin in their polymorphonuclear neutrophils (PMNs) were assessed for liver steatosis and fibrosis development. Wild type (C57BL/6JDef.Wt) and transgenic (C57BL/6JDef<sup>+/+</sup>) mice were maintained on a standard rodent chow diet for 8.5 months. At the termination of the experiment, systemic metabolic indices and hepatic immunological cell profiling were assessed. <i>Results</i>: The Def<sup>+/+</sup> transgenic mice exhibited lower body and liver weights, lower serum fasting glucose and cholesterol, and significantly lower liver fat content. These results were associated with impaired liver lymphocytes count and function (lower CD8, NK cells, and killing marker CD107a). The metabolic cage demonstrated dominant fat utilization with a comparable food intake in the Def<sup>+/+</sup> mice. <i>Conclusions</i>: Chronic physiological expression of alpha-defensin induces favorable blood metabolic profile, increased systemic lipolysis, and decreased hepatic fat accumulation. Further studies are needed to characterize the defensin net liver effect.
The effect of positive end-expiratory pressure on cardiac output and oxygen delivery during cardiopulmonary resuscitation (2020)

A PEEP of 0-5 resulted in the optimal oxygen delivery and cardiac output during CPR, with PEEP of 5 resulting in higher oxygen delivery, and a slightly lower, statistically insignificant cardiac output than PEEP of 0.
Flexible Multi-Numerology Systems for 5G New Radio (2018)

The physical layer of 5G cellular communications systems is designed to achieve better flexibility in an effort to support diverse services and user requirements. Orthogonal frequency division multiplexing (OFDM) waveform parameters are enriched with flexible multi-numerology structures. This paper gives a short summary for the Third Generation Partnership Project (3GPP) New Radio (NR) standard and then describes the differences of building blocks for Long Term Evolution (LTE) systems and NR from the flexibility perspective. Research opportunities for multi-numerology systems are presented in a structured manner. Finally, inter-numerology interference (INI) and signal-to-interference ratio (SIR) results as a function of multinumerology parameters, guard allocation and user power levels are obtained through computer simulations.
Novel Ventricular Apical Cannula: In Vitro Evaluation Using Transparent, Compliant Ventricular Casts (1998)

The geometric configuration of the cannula connection to the left ventricular (LV) apex was studied with respect to several characteristics defining functionality and compatibility. The authors had previously determined, through in vivo studies in sheep, that the design of the cannula used with a dynamic blood pump for LV circulatory support can significantly affect the hemodynamics by improving both the bypass flow rate and the fluid dynamics within the ventricle. The tip of the cannula can aid in preventing wall to wall ventricular collapse, as well as septal shift, due to reduced LV pressure. Proper surgical placement of the cannula with respect to the endocardial surface of the LV can also be simplified by the tip geometry. To investigate the anatomic interaction and fluid dynamics of apical cannulation, transparent compliant casts of bovine LVs were fabricated for in vitro flow visualization. Two different heart geometries were cast, end systolic and end diastolic. The latter was fitted with a pericardial mitral valve and pressurized in a pulsatile fashion to simulate the wall movement of a beating heart. The internal flow and anatomy were visualized with fluorescent particle tracking velocimetry. These studies were performed with conventional cannula tips, as well as a novel, trumpet mouth cannula. The visualization clearly shows the dramatic differences in flow between the geometries tested, and strongly advocates a trumpet mouth design. This novel tip demonstrated excellent placement, beneficial stenting, and improved blood flow by reducing apical stasis and recirculation. Ongoing evaluation of these and future geometries include the application of in vitro endoscopy, quantitative velocimetry, and extension to dilated human ventricles.
Synthesis of High-Quality Mg-MOF-74 Thin Films via Vapor-Assisted Crystallization (2021)

The unique features of metal-organic frameworks (MOFs), such as their large surface areas and diversity of structures, make them suitable for a broad range of applications including storage, separation, and sensing of gases. Among all the MOFs, Mg-MOF-74 with the highest CO<sub>2</sub> uptake at 1 bar and 25 °C would be particularly beneficial for CO<sub>2</sub>-related applications. One of the most critical enabling technologies for implementing Mg-MOF-74 is the preparation of dense and continuous films that would maximize the sorption behaviors. However, Mg-MOF-74 thin films present significant challenges in demonstrating large-scale coatings. Herein, we demonstrate for the first time high-quality Mg-MOF-74 films synthesized <i>via</i> a vapor-assisted crystallization (VAC) process. The VAC process described herein provides dense and highly crystalline layers of the Mg-MOF-74 thin film with a low coefficient of variation of film thickness below 7%. By minimizing the solvent use, the VAC process is also more environmentally friendly than conventional techniques. In this work, we first optimized a precursor solution for the VAC process and then investigated the effects of synthesis temperature, time, and droplet volume on the growth, crystallinity, and thickness of VAC Mg-MOF-74 films. The porosity of the MOF film was assessed by measuring the CO<sub>2</sub> uptake at room temperature and 1 bar. The obtained VAC Mg-MOF-74 films possess a well-defined microporosity, as deduced from CO<sub>2</sub> adsorption studies <i>via</i> quartz crystal microbalance (QCM) and comparison with bulk Mg-MOF-74 reference data. Furthermore, CO<sub>2</sub> cyclic adsorption-desorption experiments on the VAC Mg-MOF-74 films showed scaled uptakes to a wide range of CO<sub>2</sub> concentration without showing significant variations in the baseline. We specifically demonstrate how the film's quality of the MOF affects adsorption behavior of CO<sub>2</sub> on VAC Mg-MOF-74 and drop-cast Mg-MOF-74 films.