gebhart/patrepeval huggingface dataset:
Low Pressure Transurethral Resection of the Prostate Using a Suprapubic Trocar (1988)

The TUR syndrome was described by Creevy (1947) and is caused by absorption of irrigating fluid with rising intravesical pressure. To maintain low intravesical pressure and permit a clear view, the “return flow resectoscope” was developed. However, Matouschek and Wimmer (1984) showed that even when a suction pump was used with this resectoscope the return flow channel was unable to drain the returning fluids properly even if a 28 F resectoscope was used. Thus the “transurethral resection controller” was developed in order to monitor the intravesical pressures continuously when using a return flow resectoscope (Perez, unpublished data).
Biosensing Lasers using External Cavities with Photonic and Plasmonic Crystals (2015)

Using the optically resonant surfaces of photonic crystals and plasmonic crystals, we demonstrate the design and application of a new class of label-free optical biosensors that utilize the stimulated emission process associated with an external cavity laser to achieve high resolution, while retaining the high wavelength shift sensitivity. The External Cavity Laser (ECL) biosensor approach has been applied to direct detection of small molecule interactions with immobilized proteins in the context of high throughput drug screening, using a novel self-referencing approach that accurately compensates for the effects of thermal drift and bulk refractive index variation.
Transcriptional perturbation of protein arginine methyltransferase-5 exhibits MTAP-selective oncosuppression (2021)

We hypothesized that small molecule transcriptional perturbation could be harnessed to target a cellular dependency involving protein arginine methyltransferase 5 (PRMT5) in the context of methylthioadenosine phosphorylase (MTAP) deletion, seen frequently in malignant pleural mesothelioma (MPM). Here we show, that MTAP deletion is negatively prognostic in MPM. In vitro, the off-patent antibiotic Quinacrine efficiently suppressed PRMT5 transcription, causing chromatin remodelling with reduced global histone H4 symmetrical demethylation. Quinacrine phenocopied PRMT5 RNA interference and small molecule PRMT5 inhibition, reducing clonogenicity in an MTAP-dependent manner. This activity required a functional PRMT5 methyltransferase as MTAP negative cells were rescued by exogenous wild type PRMT5, but not a PRMT5E444Q methyltransferase-dead mutant. We identified c-jun as an essential PRMT5 transcription factor and a probable target for Quinacrine. Our results therefore suggest that small molecule-based transcriptional perturbation of PRMT5 can leverage a mutation-selective vulnerability, that is therapeutically tractable, and has relevance to 9p21 deleted cancers including MPM.
Predicting evidence of understanding by monitoring user's task manipulation in multimodal conversations (2007)

The aim of this paper is to develop animated agents that can control multimodal instruction dialogues by monitoring user's behaviors. First, this paper reports on our Wizard-of-Oz experiments, and then, using the collected corpus, proposes a probabilistic model of fine-grained timing dependencies among multimodal communication behaviors: speech, gestures, and mouse manipulations. A preliminary evaluation revealed that our model can predict a instructor's grounding judgment and a listener's successful mouse manipulation quite accurately, suggesting that the model is useful in estimating the user's understanding, and can be applied to determining the agent's next action.
The flow structure in the near field of jets and its effect on cavitation inception (1999)

Cavitation experiments performed in the near field of a 50 mm diameter ( D ) jet at Re D = 5 × 10 5 , showed inception in the form of inclined ‘cylindrical’ bubbles at axial distances ( x / D ) less than 0.55, with indices of 2.5. On tripping the boundary layer, cavitation inception occurred at x / D ≈ 2, as distorted ‘spherical’ bubbles with inception indices of 1.7. To investigate these substantial differences, the near field of the jet was measured using PIV. Data on the primary flow, the strength distribution of the ‘streamwise’ vortices and the velocity profiles within the initial boundary layers were obtained. The untripped case showed a direct transition to three-dimensional flow in the near field ( x / D &lt; 0.7) even before rolling up to distinct vortex rings. Strong ‘streamwise’ vortices with strengths up to 25% of the jet velocity times the characteristic wavelength were seen. Cavitation inception occurred in the core of these vortices. In contrast, in the tripped jet the vortex sheet rolled up to the familiar Kelvin–Helmholtz vortex rings with weak secondary vortices. Using the measured nuclei distribution, strengths and straining of the ‘streamwise’ structures, the rates of cavitation events were estimated. The estimated results match very well the measured cavitation rates. Also, the Reynolds stresses in the near field of the jet show similar trends and magnitudes to those of Browand &amp; Latigo (1979) and Bell &amp; Mehta (1990) for a plane shear layer.
Generation of DAR1 Antibody-Drug Conjugates for Ultrapotent Payloads Using Tailored GlycoConnect Technology (2023)

GlycoConnect technology can be readily adapted to provide different drug-to-antibody ratios (DARs) and is currently also evaluated in various clinical programs, including ADCT-601 (DAR2), MRG004a (DAR4), and XMT-1660 (DAR6). While antibody-drug conjugates (ADCs) typically feature a DAR2-8, it has become clear that ADCs with ultrapotent payloads (e.g., PBD dimers and calicheamicin) can only be administered to patients at low doses (<0.5 mg/kg), which may compromise effective biodistribution and may be insufficient to reach target receptor saturation in the tumor. Here, we show that GlycoConnect technology can be readily extended to DAR1 ADCs without the need of antibody re-engineering. We demonstrate that various ultrapotent, cytotoxic payloads are amenable to this methodology. In a follow-up experiment, HCC-1954 tumor spheroids were treated with either an AlexaFluor647-labeled DAR1 or DAR2 PBD-based ADC to study the effect on tumor penetration. Significant improvement of tumor spheroid penetration was observed for the DAR1 ADC compared to the DAR2 ADC at an equal payload dose, underlining the potential of a lower DAR for ADCs bearing ultrapotent payloads.
Illuminated to dark ratio improvement in lateral SOI PIN photodiodes at high temperatures (2014)

This work presents a study of the illuminated to dark ratio (IDR) of lateral SOI PIN photodiodes. Measurements performed on fabricated devices show a fivefold improvement of the IDR when the devices are biased in accumulation mode and under high temperatures of operation, independently of the anode voltage. The obtained results show that the doping concentration of the intrinsic region has influence on the sensitivity of the diodes: the larger the doping concentration, the smaller the IDR. Furthermore, the photocurrent and dark current present lower values as the silicon film thickness is decreased, resulting in a further increase in the illuminated to dark ratio. © 2014 IOP Publishing Ltd.
NMR and quenched molecular dynamics studies of superpotent linear and cyclic α‐melanotropins (1998)

Conformational searching, computer simulations, synthesis and NMR are used on a variety of alpha melanocyte-stimulating hormone (alpha-MSH) analogues to understand the physical characteristics required for biological potency. Peptides I (Ac-[Nle4,Asp5,D-Phe7,Lys10]alpha-MSH(4-10)-NH2), II (Ac-c[Nle4,Asp5,D-Phe7,Lys10]alpha-MSH(4-10)-NH2) and III (Ac-[Nle4,Asp5,D-Phe7,Dap10]alpha-MSH(4-10)-NH2 all show very similar conformational properties (backbone and side-chain torsional angles), and all display high biological potencies. The modeling results for these compounds are supported by the NMR data. Peptide IV (Ac-c[Nle4,Asp5,D-Phe7,Dap10]alpha-MSH(4-10)-NH2) appears to have a markedly different conformation and has decreased biological potency.
Combined immune checkpoint inhibition with durvalumab and tremelimumab with and without radiofrequency ablation in patients with advanced biliary tract carcinoma. (2023)

e16158 Background: The prognosis of advanced bile tract cancer (BTC) is unfavorable with a 5-year overall survival (OS) rate of less than 10%. Durvalumab has been approved in the first line setting in combination with chemotherapy (gemcitabine with cisplatin) for advanced BTC. Monotherapy with immune checkpoint inhibitors (ICI) in BTC in the second line is suboptimal with ORR reported in the 5-15% range. The purpose of this study was to explore the efficacy of an anti-PD-L1 (durvalumab) agent in combination with an anti-CTLA4 (tremelimumab) agent with and without radio frequency ablations (RFA) in advanced BTC. Methods: Eligible patients with advanced BTC who had received or refused at least one prior line of systemic therapy were treated with tremelimumab 75 mg intravenously (IV) and durvalumab 1500 mg (IV) for 4 combined doses followed by monthly durvalumab 1500 mg IV alone until progression of disease or unacceptable toxicity. Objective response was assessed through CT or MRI by Response Evaluation Criteria in Solid Tumors (RECIST, version 1.1) every 8 weeks. Adverse events (AEs) were recorded and managed. The primary endpoint was 6-month progression free survival (PFS). All patients underwent a pretreatment and on treatment biopsy. Results: 22 patients with advanced BTC were enrolled in this study; 10 patients were treated with durvalumab and tremelimumab (Durva/ Treme -Arm A) and 12 patients were treated with the combination of durvalumab and tremelimumab and an ablative procedure (Durva/ Treme/ RFA -Arm B). A total of 18 patients were evaluable (10 in Arm A and 8 in Arm B). The best clinical response in Arm A were as follows: PR (n=8), SD (n=1), PD (n=1) and in Arm B: SD (n=3), PD (n=5). The median progression free survival (PFS) in the Durva/ Treme Arm A was 3.3 months (95% CI: 1.9-3.9) and Durva/ Treme/ RFA Arm was 2 months (95% CI: 1.3-2.5)). The median overall survival (OS) in the Durva/ Treme Arm A was 6.1 months (95% CI: 3.5-7.4) and Durva/ Treme/ RFA Arm was 5.7 months (95% CI: 2.9-7.6). The most common study hematologic related Grade 3-4 adverse events (AEs) were lymphopenia (n=6) and anemia (n=3) and the most common non hematologic AEs included increased AST (n=9), increased alk phos (n=7) and increased total bilirubin (n=6). Conclusions: Combined ICI with Durva/ Treme with and without RFA is well tolerated; Durva/ Treme alone showed promising activity in this small early-stage study, with an ORR of 80%, in patients with advanced BTC. Clinical trial information: NCT02821754 .
Diastereo- and enantioselective syntheses of heteroaryloxiranes (2004)

α-Chloroheteroarylalkyllithiums generated by deprotonation of 2-(1-chloroalkyl)-heterocycles with n-BuLi in THF at -78 °C, were found to react as Darzens-type reagents with racemic and optically pure 2-and 3-methylcyclohexanones.Heteroaryloxiranes containing new stereocentres were isolated in a diastereo-and enantioselective manner.
Comparing simulation techniques for microarchitecture-aware floorplanning (2006)

Due to the long simulation times of the reference input sets, microarchitects resort to alternative techniques to speed up cycle-accurate simulations. However, the reduction in the runtimes comes with an associated loss of accuracy in replicating the characteristics of the reference sets. In addition, the effect of these inaccuracies on the overall performance can vary across different microarchitecture optimizations or enhancements. In this work, we study and compare two such techniques, reduced input sets and statistical sampling, in the context of microarchitecture-aware floorplanning, a physical design stage, where the objective is to find an IPC-optimal global placement of the blocks of a microprocessor. The variation in the IPC results due the insertion of additional flip-flops on some across-chip wires of the processor that have multicycle delays in nanometer technology nodes. The objective of IPC-aware floorplanning is to minimize the amount of pipelining required by the system buses that are critical in determining the system performance. Our results indicate that, although the two techniques exhibit contrasting behavior in quantifying the criticality of bus latencies, the ensuing floorplanning optimization process results in almost identical performance improvements for both reduced input sets and sampling. The reason behind this is that, for discrete optimization problems such as IPC-aware floorplanning, a reasonably accurate relative ordering of performance bottlenecks is sufficient, absolute accuracy is not necessary.
Microwatt embedded processor platform for medical system-on-chip applications (2010)

A medical system-on-chip (SoC) that integrates an ARM Cortex-M3 processor is presented. Ultra-low power operation is achieved via 0.5-1.0 V operation, a 28 fW/bit fully differential subthreshold 6T SRAM, a 90%-efficient DC-DC converter, and a 100-nJ fast Fourier transform (FFT) accelerator to reduce processor workload. Using a combination of novel circuit design, system architecture, and SoC implementation, the first sub-microwatt per channel electroencephalograph (EEG) seizure detection is demonstrated.
Correction to Compartment-Specific Labeling of Bacterial Periplasmic Proteins by Peroxidase-Mediated Biotinylation (2018)

ADVERTISEMENT RETURN TO ISSUEPREVAddition/CorrectionNEXTORIGINAL ARTICLEThis notice is a correctionCorrection to Compartment-Specific Labeling of Bacterial Periplasmic Proteins by Peroxidase-Mediated BiotinylationUday S. GanapathyUday S. GanapathyMore by Uday S. Ganapathy, Lu BaiLu BaiMore by Lu Bai, Linpeng WeiLinpeng WeiMore by Linpeng Weihttp://orcid.org/0000-0003-3257-7691, Kathryn A. EckarttKathryn A. EckarttMore by Kathryn A. Eckartt, Clarissa M. LettClarissa M. LettMore by Clarissa M. Lett, Mary L. PrevitiMary L. PrevitiMore by Mary L. Previti, Isaac S. CarricoIsaac S. CarricoMore by Isaac S. Carrico, and Jessica C. Seeliger*Jessica C. SeeligerMore by Jessica C. Seeligerhttp://orcid.org/0000-0001-7148-1073Cite this: ACS Infect. Dis. 2018, 4, 7, 1157Publication Date (Web):June 25, 2018Publication History Received18 June 2018Published online25 June 2018Published inissue 13 July 2018https://pubs.acs.org/doi/10.1021/acsinfecdis.8b00143https://doi.org/10.1021/acsinfecdis.8b00143correctionACS PublicationsCopyright © 2018 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views887Altmetric-Citations-LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail PDF (214 KB) Get e-Alertsclose Get e-Alerts
Metal oxide nanostructures and white light emission (2012)

We report on white light emission from zinc oxide nanostructures chemically grown on paper substrates. The effect of the growth solution pH on the morphology is discussed. The light emission form light emitting diodes based on ZnO nanorods/organic polymer hybrids on paper substrate is presented. Further copper oxide was grown on the walls of zinc oxide nanorods and the optical properties were investigated.
Structural integrity after cold storage of human epidermal model in hypothermosol: A correlative ultrastructural and fluorescent assay (1994)

For research in cell differentiation and in vitro toxicology it is essential to provide a natural state of cell structure as a benchmark for interpreting results. Hypothermosol (Cryomedical Sciences, Rockville, MD) has proven useful in insuring the viability of synthetic human epidermis during cold-storage and in maintaining the epidermis’ ability to continue to differentiate following warming. Human epidermal equivalent, EpiDerm (MatTek Corporation, Ashland, MA) consisting of fully differentiated stratified human epidermal cells were grown on a microporous membrane. EpiDerm samples were fixed before and after cold-storage (4°C) for 5 days in Hypothermosol or skin culture media (MatTek Corporation) and allowed to recover for 7 days at 37°C. EpiDerm samples were fixed 1 hour in 2.5% glutaraldehyde in sodium cacodylate buffer (pH 7.2). A secondary fixation with 0.2% ruthenium tetroxide (Polysciences, Inc., Warrington, PA) in sodium cacodylate was carried out for 3 hours at 4°C. Other samples were similarly fixed, but with 1% Osmium tetroxide in place of ruthenium tetroxide. Samples were dehydrated through a graded acetone series, infiltrated with Spurrs resin (Polysciences Inc.) and polymerized at 70°C.
Binding of Ochratoxin A to Human Serum Albumin Stabilized by a Protein−Ligand Ion Pair (2003)

Ochratoxin A (OTA), a fungal metabolite of strains of Penicillium and Aspergillus, binds in its dianion form to Sudlow site I of human serum albumin (HSA) with high affinity. In this study, isothermal calorimetry (ITC) is used to study the binding of OTA and its O-methyl derivative (MOA). Calculations of the equilibrium geometry of the monoanion and dianion of OTA reveal only small structural changes among the lowest energy conformers. The ITC data show the binding of MOA, which lacks the phenolic proton of OTA, is accompanied by the uptake of a proton from the surrounding solvent. At pH 7.13, the binding of OTA is accompanied by uptake of 0.43 ± 0.15 protons from the solvent. At this pH, the monoanion (0.54) and dianion (0.46) forms of OTA are both present in solution. However, the pKa of the phenolic group of OTA decreases by more than three units upon protein binding, and so all available OTA is bound to the protein as the dianion. To account for the ITC data, a model is proposed in which the proton is provided by the phenolic moiety of OTA in the case of initial binding of the monoanion, and a proton is taken up from the surrounding solvent for initial binding of the dianion. The binding constant of MOA is 2 orders of magnitude smaller than that of OTA, indicating the ion pair between the phenoxide group of OTA and the protonated amino acid is a major contributor to the high binding affinity of OTA to HSA. To identify the specific amino acid involved, the binding of OTA to bovine, rat, and porcine serum albumins was examined. Deprotonation of the monoanion of OTA occurred upon binding to all species. Assuming the amino acid is conserved between species and taking into account crystal structures of ligands bound to site I of HSA and their ability to displace OTA from HSA, either R218 or R257 is involved in the ion pairing with OTA. These two amino acids sit across the binding cavity from one other in site I.
[Beta adrenergic receptors and experimental left ventricular hypertrophy]. (1992)

The effects of sinoaortic denervation (SAD) on the development of left ventricular hypertrophy (R: heart weight/total body weight; LVT : left ventricular thickness), myocardial beta-adrenergic receptivity ([125I]CYP binding; adenylate cyclase activity) and plasma catecholamine levels (HPLC) were investigated in both normotensive (group 1) and hypertensive dogs evaluated (group 2) 1 and 18 months (group 3) after SAD. Noradrenaline (NA) and adrenaline (A) plasma levels were 461 +/- 54 and 85 +/- 45 pg/ml in controls, 861 +/- 185 and 191 +/- 23 pg/ml in group 2 (P < 0.05) and were normal in group 3 (426 +/- 132 and 110 +/- 16 pg/ml). R and LVT values were higher (p < 0.05) in SAD dogs (R = 7.7 +/- 0.1 and 7.8 +/- 0.2; LVT = 13.6 +/- 1.3 and 14.2 +/- 0.9 mm in groups 2 and 3 respectively) than in group 1 (R = 6.7 +/- 0.1, LVT = 9.3 +/- 0.8 mm). In group 1, the total number of beta-adrenoceptors (beta-AR) was 37 +/- 11 and 29 +/- 6 fmol/mg prot in left ventricule (LV) and right auricle (RA) respectively. Bmax was significantly lower in group 2 (LV: 10 +/- 3; RA: 13 +/- 2 fmol/mg prot, p < 0.05) than in group 1 but was normal in group 3 (LV: 37 +/- 3 and RA: 31 +/- 3 fmol/mg prot).(ABSTRACT TRUNCATED AT 250 WORDS)
The CD83 Molecule – An Important Immune Checkpoint (2020)

The CD83 molecule has been identified to be expressed on numerous activated immune cells, including B and T lymphocytes, monocytes, dendritic cells, microglia, and neutrophils. Both isoforms of CD83, the membrane-bound as well as its soluble form are topic of intensive research investigations. Several studies revealed that CD83 is not a typical co-stimulatory molecule, but rather plays a critical role in controlling and resolving immune responses. Moreover, CD83 is an essential factor during the differentiation of T and B lymphocytes, and the development and maintenance of tolerance. The identification of its interaction partners as well as signaling pathways have been an enigma for the last decades. Here, we report the latest data on the expression, structure, and the signaling partners of CD83. In addition, we review the regulatory functions of CD83, including its striking modulatory potential to maintain the balance between tolerance versus inflammation during homeostasis or pathologies. These immunomodulatory properties of CD83 emphasize its exceptional therapeutic potential, which has been documented in specific preclinical disease models.
A generic model for advanced networks handling imprecise information (2009)

The previously separate fields of computing and communications are converging rapidly. Besides, the intelligence aspects necessitate the integration of formerly separate various processing modes. The emerging intelligent network aims to provide advanced services, extending well beyond the traditional voice, data transfer and computing services, handling intelligence aspects of possibly imprecise and inconsistent information as well. These services are offered on dynamically varying network structures and processing nodes for arbitrary number of users in a transparent way. The widely used design models are based on separate problem classes, thus their extension to these problems is very difficult, if possible at all. A generic model for the clarification of the issues involved and determining the theoretical limitations is investigated, thus forming a starting point for various design models with precisely known limitations.
Oxygen Chemiluminescence in a He Plasma as a Method for Plasma Damage Evaluation of Low-k Dielectrics (2008)

In this work we propose a new method of plasma damage evaluation based on Optical Emission Spectroscopy (OES) analysis during Helium plasma exposure of a low-k sample. We discuss the formation of oxygen radicals in the low-pressure He plasma and some practical aspects of this phenomenon.