gebhart/patrepeval huggingface dataset:
CARDIAC TROPONIN I PREDICTS DEATH AND POOR OUT-COME AFTER SUBARACHNOID HEMORRHAGE. (2005)

Naidech, Andrew; Hurt, Kiki; Tamul, Paul; Getch, Christopher; Stock, M Christine Author Information
Abstract B43: Comparative proteomic analysis of colorectal cell lines to identify biomarkers for the prediction of intrinsic resistance to FOLFOX chemotherapy (2010)

Abstract As there is a great interpatient variability in drug response caused by the individual geno- and phenotype the choice of optimal chemotherapy should be tailored for each patient. Intrinsic drug resistance is one of the main reasons for therapeutic ineffectiveness of first line therapy and recurrence in colorectal cancer. To advance individualized chemotherapy and understanding of drug resistance mechanisms, predictive biomarkers which indicate individual drug response of patients are urgently needed. The prediction of response to first line therapy will identify subgroups of patients who benefit from treatment and thus avoid ineffective treatment and associated side effects. In this study, several commercially available cell lines as well as primary epithelial mixed cultures and clonal cell lines established from colorectal cancer patients were treated with different drugs, such as 5-fluorouracil, oxaliplatin, and drug combinations, e.g., FOLFOX. The determination of chemosensitivity of these cell lines to drug treatment was performed using two different assays, the ATPlite™-(Perkin Elmer) and FMC-assay (according to Larsson et al.). Both assays showed time- and dose-dependent drug responses which differed significantly among the 18 colorectal cell cultures. The analysis of obtained in vitro chemosensitivity data allowed us to cluster sensitive versus resistant cell lines by determining IC50-values. For the discovery of differentially expressed proteins which might be linked to a specific phenotypes of intrinsic chemoresistance we generated protein expression patterns from all 18 cell lines using a combination of reversed phase highperformance liquid chromatography and matrix-assisted laser desorption/ionization mass spectrometry (RP-HPLC MALDI MS). Up to 3500 m/z ion signals in the molecular mass range between 2500-35000 m/z were detected reflecting a complex pattern of small proteins and peptides. For protein identification, RP-HPLC fractionated samples were purified and digested by trypsin. Fragments of interest were subjected to MS/MS analysis in the TOF/TOF mode. The corresponding MS/MS spectra were used to search the NCBInr database using MASCOT software. Based on these data, we hope to gain more understanding of the biological processes of chemoresistance concerning important cellular drug responses (e.g., signal transduction pathways) and thereby obtain insight into new drug targets for future therapeutic intervention. Citation Information: Clin Cancer Res 2010;16(14 Suppl):B43.
Extended analysis of SSN effect on phase-locked loop (PLL) circuit (2009)

Electronic devices are increasingly susceptible to simultaneous switching noise (SSN) as devices shrink in size and operate at lower voltage to achieve higher speed. This is a major concern in high-speed system designs as SSN causes voltage and timing variations which affect signal integrity. Consequently, it is imperative that electronic system designers pay strict attention to signal integrity whether it is on the chip level or on the system level. This paper analyzes the output buffer SSN effect on the phase-locked loop (PLL) input pins, PLL output pins, and PLL power supplies using an Altera FPGA device. Experimental results show that direct PLL jitter transfer principle cannot be applied in a straight forward manner because of the wide spectrum and asynchronous nature of SSN. However, the PLL circuit is still effective in filtering the noise that is attacking the PLL input signal. This paper also shows that SSN greatly affects the PLL power distribution network (PDN) especially when the noise coupled into the PDN have the same frequency as the PDN resonance. In addition, it is also shown that SSN do not directly attack the PLL circuit through its output. These findings assist Altera's customers and electronic system designers in optimizing PLL performance for error-free device designs. Furthermore, the findings provide a basis future PLL design improvements.
Substituent Effects on the Catalytic Activity of Bipyrrolidine-Based Iron Complexes (2013)

The catalytic activity and the selectivity of the new bipyrrolidine-based Fe(II) complexes 2·Fe(OTf)2 and 3·Fe(OTf)2 in the oxidation of a series of alkyl and alkenyl hydrocarbons as well as of an aromatic sulfide with H2O2 were tested and compared with the catalytic efficiency of White's parent complex 1·Fe(OTf)2 in order to evaluate the sensitivity of the reaction to electronic effects.
Adaptation aftereffects in the perception of radiological images (2012)

Radiologists must classify and interpret medical images on the basis of visual inspection. We are examining how an observer’s visual sensitivity and perception might change as they view and thus adapt to the characteristic properties of radiological scans. Measurements were focused on the effects of adaptation to images of normal mammograms, and were tested in observers who were not radiologists. These scans have steeper power spectra (slopes of ~-3) than natural images (~-2) and thus are physically blurry. To test for adaptation specific to this blur, we measured contrast sensitivity for Gabor patches after observers viewed a sequence of randomly sampled sections from mammograms. Sensitivity was selectively reduced at lower spatial frequencies (less than ~2 c/deg), consistent with an adaptation to the low-frequency bias in the images. However, similar sensitivity losses were also found when the images were sharpened to have more "natural" spectra, suggesting that the blur in the scans was not sufficient to substantially change threshold sensitivity relative to the observer’s natural operating state. In contrast, aftereffects specific to the image blur were found when observers instead judged the perceived blur within the images, by adjusting the spectral slope of a comparison image presented to an unadapted retinal location. Strong aftereffects in the appearance of the images were also found when observers judged the perceived texture of the images. For example, tissue density in mammograms is routinely classified and ranges from "dense" to "fatty." Adaptation to dense images caused an intermediate image to appear more fatty and vice versa. Our results suggest that observers can selectively adapt to the properties of radiological images, and that this selectivity could especially impact the perceived textural characteristics of the images. Meeting abstract presented at VSS 2012
In-111 DTPA Ommayagrams in Leptomeningeal Carcinomatosis (1995)

Radionuclide Ommayagrams in 25 patients with leptomeningeal carcinomatosis were performed after injection of 0.5 mCl of In-111 DTPA into Ommaya shunt reservoirs to evaluate cerebrospinal fluid-shunt communication, detect the blockage of the cerebrospinal fluid pathway, evaluate the cerebrospinal fluid flow pattern, and predict the distribution of the chemotherapeutics. All results were correlated with MRI evaluations of the brain and spine, as well as clinical findings. Radionuclide Ommayagrams were found to be 73% sensitive and 100% specific in the evaluation of cerebrospinal fluid space disease. MRI of the spine and head was found to be 100% sensitive, but 86% specific for obstructive cerebrospinal fluid space disease.
Graphical tools for macromolecular crystallography in<i>PHENIX</i> (2012)

A new Python-based graphical user interface for the PHENIX suite of crystallography software is described. This interface unifies the command-line programs and their graphical displays, simplifying the development of new interfaces and avoiding duplication of function. With careful design, graphical interfaces can be displayed automatically, instead of being manually constructed. The resulting package is easily maintained and extended as new programs are added or modified.
Management of Key Ocular Adverse Events in Patients Implanted with the Port Delivery System with Ranibizumab (2022)

Surgeons using the PDS should be aware of potential ocular AEs and identify them early for optimal management. As with any new surgical procedure, it is important to provide surgeons with appropriate training, ensure adherence to optimal surgical techniques, and continually refine the procedure to mitigate complications and improve outcomes.
Adjunctive therapy with oxcarbazepine in children with partial seizures (2000)

OXC adjunctive therapy administered in a dose range of 6 to 51 mg/kg/day (median 31.4 mg/kg/day) is safe, effective, and well tolerated in children with partial seizures.
Identification of Src Phosphorylation Sites in the Catenin p120 (2001)

p120-catenin (p120(ctn)) interacts with the cytoplasmic tail of cadherins and is thought to regulate cadherin clustering during formation of adherens junctions. Several observations suggest that p120 can both positively and negatively regulate cadherin adhesiveness depending on signals that so far remain unidentified. Although p120 tyrosine phosphorylation is a leading candidate, the role of this modification in normal and Src-transformed cells remains unknown. Here, as a first step toward pinpointing this role, we have employed two-dimensional tryptic mapping to directly identify the major sites of Src-induced p120 phosphorylation. Eight sites were identified by direct mutation of candidate tyrosines to phenylalanine and elimination of the accompanying spots on the two-dimensional maps. Identical sites were observed in vitro and in vivo, strongly suggesting that the physiologically important sites have been correctly identified. Changing all of these sites to phenylalanine resulted in a p120 mutant, p120-8F, that could not be efficiently phosphorylated by Src and failed to interact with SHP-1, a tyrosine phosphatase shown previously to interact selectively with tyrosine-phosphorylated p120 in cells stimulated with epidermal growth factor. Using selected tyrosine to phenylalanine p120 mutants as dominant negative reagents, it may now be possible to selectively block events postulated to be dependent on p120 tyrosine phosphorylation.
Model-Based Organization Analysis and Design for an ESG Organization (2006)

The concept of Expeditionary Strike Groups (ESGs) arose to satisfy the requirements of global war on terrorism (GWOT), when it was realized that surface warfare capabilities were needed to complement the capability of the Amphibious Ready Groups (ARGs). The addition of cruiser (CG), destroyer (DDG), frigate (FFG), and submarine (SSN) assets to those of an ARG, which include an amphibious assault ship (LHA or LHD) with a Marine expeditionary unit (MEU), a dock landing ship (LSD) and an amphibious transport dock ship (LPD) provide the ESG with a highly mobile, self-sustaining force. This addition also provides the capability for an ESG to deploy independently, as well as a part of a larger joint force. The primary goal for the introduction of ESG organizational concept is to find suitable ways to integrate the Navy and Marine forces. These include exploring evolving non-traditional C2 structures, and developing the corresponding new capabilities (including introduction of new offensive and defensive weaponry). The merger between the two forces and the resulting C2 philosophy has to take into account various operational and cultural issues. In this paper, we propose systematic, but somewhat simplified, analysis of an ESG organization that allows us to abstract the mission environment, and to glean various organizational issues of interest via a model-based organizational analysis framework. The heart of the proposed framework is the utilization of an agent-based simulation to capture key organizational processes, and identify strengths and potential limitations of an organization. Based on the assessment, a set of recommendations are put forth to mitigate the potential limitations. This approach is an extension of our model-based organizational design and analysis framework, wherein an organization and its mission environment are abstracted in terms of three modeling components: decision-makers (DMs-C2 nodes), assets, and tasks.
Synthese monodisperser linearer und cyclischer Oligomere der (<i>R</i>)‐3‐Hydroxybuttersäure mit bis zu 128 Einheiten (1996)

Monodisperse Linear and Cyclic Oligo[( R )‐3‐hydroxybutanoates] Containing up to 128 Monomeric Units Using benzyl ester/( tert ‐butyl)diphenylsilyl ether protection, (COCl) 2 /pyridine esterification conditions, and a fragment‐coupling strategy (with H 2 /Pd‐C debenzylation and HF · pyridine desilylation), linear oligomers of ( R )‐3‐hydroxybutanoic acid (3‐HB) containing up to 128 3‐HB building blocks (mol. weight &gt; 11 000 Da) are assembled ( Schemes 1,2,5 , and 6 ). In contrast to the previously employed protecting‐group combination, and due to the low‐temperature esterifying conditions, this procedure leads to monodisperse oligomers: all steps occur without loss of single 3‐HB units. The product oligomers with two, one, and no terminal protecting groups (mostly prepared in multi‐gram amounts) are characterized by all standard spectroscopic methods, especially by mass spectroscopy ( Figs. 2 and 3 ), by their optical activity, and by elemental analyses. Cyclization of the oligo[( R )‐3‐hydroxybutanoic acids] with up to 32 3‐HB units, using thiopyridine activation and CuBr 2 for the ring closure, produces oligolides consisting of up to 128 ring atoms ( Scheme 7 ). Mixed oligolides containing 3‐HB and ( R )‐3‐hydroxypentanoic units are prepared from the corresponding linear trimers, using Yamaguchi 's method for the ring closure ( Scheme 8 and Fig.4 (X‐ray crystal structures of two folded conformers)). Comparisons of melting points ( Table 1 ), of [α] values ( Tables 2 and 3 ), of 1 H‐NMR coupling constants ( Table 3 ), and of molecular volume/hydroxyalkanoate unit ( Table 4 ) of linear and cyclic oligomer derivatives and of the high‐molecular‐weigh polymer show that the monodisperse oligomers appear to be surprisingly good models for the polymer. Besides this insight, our synthesis is supplying the samples to further test the role of P(3‐HB) ( ca. 140 units) as a component of complexes forming channels through cell‐wall phospholipid bilayers.
Smoking history and pulmonary arterial hypertension (PAH) onset and clinical outcomes (REVEAL) (2020)

<b>Aim:</b> Data on impact of smoking on pulmonary hypertension is conflicting. REVEAL (Registry to Evaluate Early and Long-term PAH Disease Management) a US-based, multicentre observational registry characterising clinical features and outcomes of PAH patients (pts) was queried to assess the relationship between smoking status (NEVER- vs EVER-smoker) and onset and outcome in PAH. <b>Methods:</b> REVEAL (NCT00370214) pts ≥18 years (yrs), group 1 PAH, with pulmonary capillary wedge pressure ≤15 mmHg at diagnosis were included. 5-yr mortality (all cause), the composite of transplant or mortality and time to first hospitalisation were evaluated for NEVER- vs EVER-smokers, and by newly vs previously diagnosed pts unadjusted (un-) and adjusted (adj) for age, time from diagnosis to enrolment, sex and log transformed pulmonary vascular resistance (PVR). <b>Results:</b> NEVER (N=1619) vs EVER-smokers (N=1427) differed for: median age at diagnosis, 48.3 vs 52.5 years; obstructive lung disease, 7.8% vs 21.7%; male, 15.2% vs 27.8% (all p&lt;0.001). 5-yr mortality did not differ for EVER- vs NEVER-smokers overall. Newly diagnosed EVER-smokers vs NEVER smokers (adj and un- for PVR and gender) had a higher risk of mortality (adj hazard ratio [HR] 1.33 [95% CI, 1.05-1.69; p=0.019]; un- HR 1.41, 95% CI 1.12-1.78, p=0.0039); composite of transplant or mortality (adj HR 1.38 [95% CI, 1.09–1.73 p=0.007]; un- HR 1.46 [95% CI 1.16-1.83,p=0.0012]) and hospitalisation (adj HR 1.25 [95% CI, 1.03–1.51; p=0.022]; un- HR 1.27 [95%CI 1.06-1.53, p=0.0012]). <b>Conclusions:</b> In REVEAL, PAH pts who were EVER- vs NEVER-smoker were older at diagnosis. In newly diagnosed PAH pts smoking was associated with worse clinical outcomes irrespective of PVR.
What Drives Female Labour Force Participation? Comparable Micro-level Evidence from Eight Developing and Emerging Economies (2020)

We investigate the micro-level determinants of labour force participation of urban married women in eight low- and middle-income economies: Bolivia, Brazil, India, Indonesia, Jordan, South Africa, Tanzania, and Vietnam. In order to understand what drives changes and differences in participation rates since the early 2000s, we build a unified empirical framework that allows for comparative analyses across time and space. We find that the returns to the characteristics of women and their families differ substantially across countries, and this explains most of the between-country differences in participation rates. Overall, the economic, social, and institutional constraints that shape women’s labour force participation remain largely country-specific. Nonetheless, rising education levels and declining fertility consistently increased participation rates, while rising household incomes contributed negatively in relatively poorer countries, suggesting that a substantial share of women work out of economic necessity.
Enabling 3D-Liver Perfusion Mapping from MR-DCE Imaging Using Distributed Computing (2013)

An MR acquisition protocol and a processing method using distributed computing on the European Grid Infrastructure (EGI) to allow 3D liver perfusion parametric mapping after Magnetic Resonance Dynamic Contrast Enhanced (MR-DCE) imaging are presented. Seven patients (one healthy control and six with chronic liver diseases) were prospectively enrolled after liver biopsy. MR-dynamic acquisition was continuously performed in free-breathing during two minutes after simultaneous intravascular contrast agent (MS-325 blood pool agent) injection. Hepatic capillary system was modeled by a 3-parameters one-compartment pharmacokinetic model. The processing step was parallelized and executed on the EGI. It was modeled and implemented as a grid workflow using the Gwendia language and the MOTEUR workflow engine. Results showed good reproducibility in repeated processing on the grid. The results obtained from the grid were well correlated with ROI-based reference method ran locally on a personal computer. The speed-up range was 71 to 242 with an average value of 126. In conclusion, distributed computing applied to perfusion mapping brings significant speed-up to quantification step to be used for further clinical studies in a research context. Accuracy would be improved with higher image SNR accessible on the latest 3T MR systems available today.
Regulation of T cell receptor complex-mediated signaling by ubiquitin and ubiquitin-like modifications (2014)

Post-translational protein modifications are a dynamic method of regulating protein function in response to environmental signals. As with any cellular process, T cell receptor (TCR) complex-mediated signaling is highly regulated, since the strength and duration of TCR-generated signals governs T cell development and activation. While regulation of TCR complex-mediated signaling by phosphorylation has been well studied, regulation by ubiquitin and ubiquitin-like modifiers is still an emerging area of investigation. This review will examine how ubiquitin, E3 ubiquitin ligases, and other ubiquitin-like modifications such as SUMO and NEDD8 regulate TCR complex-mediated signaling.
Facial anomalies in D‐2‐hydroxyglutaric aciduria (1999)

D-2-hydroxyglutaric aciduria is a rare autosomal recessive organic aciduria with variable clinical expression. The biochemical defect is still unknown, and genetic heterogeneity has been suggested. Here, we report on facial anomalies in two unrelated cases of D-2-hydroxyglutaric aciduria presenting with epileptic encephalopathy. In a review, we found that minor facial anomalies have been mentioned in three patients. A flat face with a broad nasal bridge and external ear anomalies were present in our patients and in reported cases. We suggest giving consideration to D-2-hydroxyglutaric aciduria as a cause of minor facial anomalies in epileptic encephalopathy of unknown origin. Am. J. Med. Genet. 86:124–129, 1999. © 1999 Wiley-Liss, Inc.
A 4.2mW 4K 6-8GHz CMOS LNA for Superconducting Qubit Readout (2021)

Millions of qubits need to be employed in a quantum computer to achieve a fault-tolerant quantum operation. To reduce the complexity in such a large-scale system, the control and readout circuitries have been proposed to be placed at the 4 K stage of dilution refrigerators [1]. CMOS technology is commonly used to leverage its scaling to enable large integration of control and readout circuitries with qubits. However, the high-fidelity readout operations require low noise amplifiers (LNAs) with a noise temperature of a few Kelvins. This necessitates the usage of HEMT and parametric amplifiers [2]. Recently reported CMOS LNAs are still far away from attaining such good performance [3–5]. Thus, this is one of the greatest challenges on the way to the fully integrated CMOS readout. Additionally, due to the limited cooling power of dilution refrigerators, low-power solutions are needed for achieving a very good noise performance at 4 K. This paper presents a 28 nm CMOS LNA for qubit readout, which achieves an order of magnitude power reduction compared to its CMOS counterparts while still providing a similar good noise Figure (NF) performance at 4 K.
Development of the chick olfactory nerve (1999)

Gonadotropin releasing hormone (GnRH) is produced and secreted by neurons dispersed throughout the septal-preoptic and anterior hypothalamic areas in adult birds and mammals. These neurons, essential for a functional brain-pituitary-gonadal axis, differentiate in the olfactory placode, the superior aspect of which forms the olfactory epithelium. To reach their final placement within the brain, GnRH neurons migrate out of the epithelium and along the olfactory nerve to the CNS. This nerve is essential for the entrance of GnRH neurons into the CNS. Due to the importance of the nerve for the proper migration of these neurons, we have used immunocytochemistry, DiI labeling and 1μm serial plastic-embedded sections to characterize the nerve's earliest development in the embryonic chick (stages 17–21). Initially (stage 17) the zone between the placode and prosencephalon is a cellular mass contiguous with the placode. This cluster, known as epithelioid cells, is positive for some but not all neuronal markers studied. The epithelium itself is negative for all neuronal and glial markers at this early stage. By stage 18, the first neurites emerge from the epithelium; this was confirmed at stage 19 by examination of serial 1μm plastic sections. There is sequential acquisition of immunoreactivity to neuronal markers from stage 18 to 21. The glial component of the nerve appears at stage 21. Axons originating from epithelium, extend to the border of the CNS as confirmed by DiI labeling at stage 21. Small fascicles have entered the CNS at this stage. As previously reported, GnRH neurons begin their migration between stages 20–21 and have also arrived at the border of the brain at stage 21. Despite the penetration of neurites from the olfactory nerve into the CNS, GnRH neurons pause at the nerve-brain junction until stage 29 (2½ days later) before entering the brain. Subsequent studies will examine the nature of the impediment to continued GnRH neuronal migration. Dev Dyn 1999;214:349–360. © 1999 Wiley-Liss, Inc.