gebhart/patrepeval huggingface dataset:
ChemInform Abstract: An Evaluation of Peptide‐Bond Isosteres (2011)

Abstract Review: ca. 60 refs.
TF-Cluster: A pipeline for identifying functionally coordinated transcription factors via network decomposition of the shared coexpression connectivity matrix (SCCM) (2011)

TF-Cluster can be used to identify a set of TFs controlling a biological process of interest from gene expression data. Its high accuracy in recognizing true positive TFs involved in a biological process makes it extremely valuable in building core GRNs controlling a biological process. The pipeline implemented in Perl can be installed in various platforms.
Atomic-Level Insight into the Postsynthesis Band Gap Engineering of a Lewis Base Polymer Using Lewis Acid Tris(pentafluorophenyl)borane (2019)

In this report, we investigate the binding properties of the Lewis acid tris(pentafluorophenyl)borane with a Lewis base semiconducting polymer, PFPT, and the subsequent mechanism of band gap reduction. Experiments and quantum chemical calculations confirm that the formation of a Lewis acid adduct is energetically favorable (ΔG° < −0.2 eV), with preferential binding at the pyridyl nitrogen in the polymer backbone over other Lewis base sites. Upon adduct formation, ultraviolet photoelectron spectroscopy indicates only a slight decrease in the HOMO energy, implying that a larger reduction in the LUMO energy is primarily responsible for the observed optical band gap narrowing (ΔEopt = 0.3 eV). Herein, we also provide the first spatially resolved picture of how Lewis acid adducts form in heterogeneous, disordered polymer/tris(pentafluorophenyl)borane thin films via one- (1D) and two-dimensional (2D) solid-state nuclear magnetic resonance. Notably, solid-state 1D 11B, 13C{1H}, and 13C{19F} cross-polarization magic-angle spinning (CP-MAS) NMR and 2D 1H{19F} and 1H{1H} correlation NMR analyses establish that BCF molecules are intercalated between branched C16H33 side chains with the boron atom facing toward the pyridyl nitrogen atoms of PFPT.
Adjacent Channel Interference Cancellation using Orthogonal Precoding for Fractional Sampling OFDM Receiver (2012)

To achieve diversity with a single antenna, fractional sampling has been proposed. The imaging component of a desired signal must be transmitted by increasing the baseband filter bandwidth. This paper proposes and evaluates a system in which the imaging component is transmitted on the adjacent channel to the desired signal. The adjacent channel interference is cancelled by the precoding generated based on the basis of the channel state information of all the terminals. In this paper, the performance with perfect feedback and limited feedback is evaluated. Numerical results obtained through computer simulation show that the proposed scheme with a 6 bit random codebook for QPSK modulation improves the performance compared with that with the conventional scheme in the low $$E_b/N_0$$ region.
The heat shock response, determined by QuantiGene multiplex, is impaired in HD mouse models and not caused by HSF1 reduction (2021)

Huntington's disease (HD) is a devastating neurodegenerative disorder, caused by a CAG/polyglutamine repeat expansion, that results in the aggregation of the huntingtin protein, culminating in the deposition of inclusion bodies in HD patient brains. We have previously shown that the heat shock response becomes impaired with disease progression in mouse models of HD. The disruption of this inducible arm of the proteostasis network is likely to exacerbate the pathogenesis of this protein-folding disease. To allow a rapid and more comprehensive analysis of the heat shock response, we have developed, and validated, a 16-plex QuantiGene assay that allows the expression of Hsf1 and nine heat shock genes, to be measured directly, and simultaneously, from mouse tissue. We used this QuantiGene assay to show that, following pharmacological activation in vivo, the heat shock response impairment in tibialis anterior, brain hemispheres and striatum was comparable between zQ175 and R6/2 mice. In contrast, although a heat shock impairment could be detected in R6/2 cortex, this was not apparent in the cortex from zQ175 mice. Whilst the mechanism underlying this impairment remains unknown, our data indicated that it is not caused by a reduction in HSF1 levels, as had been reported.
Batteries in Service of Human Health (2022)

Advances in treatment and diagnosis of human health demand advances in energy storage providing small, adaptable, predictable, and reliable systems. This article summarizes key milestones in the adoption of batteries used for implantable medical applications, provides details about several of the dominant battery chemistries currently powering medical devices, and provides comment on the future impact of advances in the battery field on medical devices.
Computer-assisted synthetic analysis. Synthetic strategies based on appendages and the use of reconnective transforms (1976)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTComputer-assisted synthetic analysis. Synthetic strategies based on appendages and the use of reconnective transformsE. J. Corey and William L. JorgensenCite this: J. Am. Chem. Soc. 1976, 98, 1, 189–203Publication Date (Print):January 1, 1976Publication History Published online1 May 2002Published inissue 1 January 1976https://pubs.acs.org/doi/10.1021/ja00417a030https://doi.org/10.1021/ja00417a030research-articleACS PublicationsRequest reuse permissionsArticle Views378Altmetric-Citations35LEARN 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 Other access optionsGet e-Alertsclose Get e-Alerts
Protein Tyrosine Phosphatase PTP20 Induces Actin Cytoskeleton Reorganization by Dephosphorylating p190 RhoGAP in Rat Ovarian Granulosa Cells Stimulated with Follicle-Stimulating Hormone (2003)

We identified 25 protein tyrosine phosphatases (PTPs) expressed in rat ovarian granulosa cells. Of these PTPs, the expression levels of at least PTP20, PTP-MEG1, PTPepsilonM, and PTPepsilonC significantly changed during the estrous cycle. We examined the cellular functions of PTP20 in granulosa cells by expressing the wild type, a catalytically inactive CS mutant in which Cys229 of PTP20 was changed to Ser, or a substrate-trapping DA mutant in which Asp197 was mutated to Ala, using an adenovirus vector. Overexpression of the wild type, but not of the CS mutant, induced retraction of the cell body with the extension of long, dendritic-like processes after stimulation with FSH, a critical factor for the survival and differentiation of these cells. In addition, cell adhesion to the substratum decreased in an FSH-dependent manner. Inhibiting Rho GTPase activity with C3 botulinum toxin caused similar morphological changes. The FSH-enhanced phosphotyrosine (p-Tyr) level of p190 RhoGAP was selectively reduced by the overexpressed wild type, but not by mutated PTP20. Although p190 RhoGAP is tyrosine phosphorylated by c-Src via the tyrosine kinase Pyk2, wild-type PTP20 had little effect on p-Tyr418 of c-Src and no effect on p-Tyr402 of Pyk2, which are required for full c-Src activity and for interacting between Pyk2 and c-Src, respectively. The CS and DA mutants as well as the wild type reduced the formation of p190 RhoGAP-p120 RasGAP complexes. Confocal microscopy analysis revealed that PTP20 intracellularly colocalizes with p190 RhoGAP. These results demonstrate that PTP20 regulates the functions of granulosa cells in an FSH-dependent manner by dephosphorylating p190 RhoGAP and subsequently inducing reorganization of the actin cytoskeleton. Moreover, our data suggest that PTPs play significant roles in controlling the dynamics of ovarian functions.
Mid-IR generation in a compact high repetition rate DFG system based on an Yb-fiber laser (2021)

We demonstrate a compact mid-IR system using difference frequency generation based on a femtosecond Ytterbium fiber laser system with a repetition rate of 100 MHz. Based on the fundamental 1040 nm beam, we use frequency conversion in a nonlinear fiber to generate a tuneable signal beam for mid-IR generation based on difference frequency generation. We investigate different nonlinear fibers for signal generation between 1100 nm and 1600 nm for optimum mid-IR generation between 3 µm and 10 µm, for which power levels of more than 200 mW have been observed at an emission wavelength of 4 µm.
CD117 expression in gammopathies is associated with an altered maturation of the myeloid and lymphoid hematopoietic cell compartments and favorable disease features (2010)

Aberrant CD117 expression is associated with a favorable outcome in multiple myeloma. We analyzed 106 patients with symptomatic multiple myeloma (n=50), smoldering multiple myeloma (n=38) and monoclonal gammopathy of undetermined significance (n=18) to elucidate biological features of CD117(+) versus CD117(-) monoclonal gammopathies. CD117(+) (mono)clonal plasma cells were detected in 30% symptomatic multiple myeloma, 45% smoldering multiple myeloma and 72% monoclonal gammopathy of undetermined significance patients. CD117 expression was associated with higher percentages of normal bone marrow plasma cells, CD117(+) myeloid precursors and CD38(+) B lymphocytes in all monoclonal gammopathies. Conversely, the number of bone marrow CD34(+) myeloid cells and peripheral blood neutrophils was reduced among CD117(+) multiple myeloma but not monoclonal gammopathy of undetermined significance patients. CD117 expression by (mono)clonal plasma cells is associated with uniquely altered patterns of production of hematopoietic bone marrow cells with decreased peripheral blood neutrophil counts and persistence of normal residual bone marrow plasma cells.
Using biphasic CT to reveal gastrointestinal arteriovenous malformations. (1997)

Using biphasic CT to reveal gastrointestinal arteriovenous malformations.R E Mindelzun and C F BeaulieuAudio Available | Share
Investigation of a Soft-Switching Flyback Converter With Full Secondary Side-Based Control (2017)

A conventional Flyback converter's controller is based on the primary side of the coupled inductor-requiring isolated coupling for both the output voltage measurement and for any synchronous rectification gate signal. A novel communication approach is proposed here, whereby the need for such signal coupling is eliminated by moving the controller to the secondary side and communicating back to the primary switch through the coupled inductor itself. This simultaneously allows direct access to the output voltage, reduced component count, synchronous rectification, and soft primary switch turn-on without optoisolator propagation delay or additional magnetic coupling. This paper presents a novel drain-source voltage sensing method that provides reliable turn-on signals for the primary switch along with the principles of the secondary-side control. Concept feasibility is proven using a 65 W demonstrator with a simple constant-on-time control scheme. The benefits, limitations, and suggested improvements are presented.
Coronary Endothelial Dysfunction in Humans Is Associated With Myocardial Perfusion Defects (1997)

Background Coronary endothelial dysfunction may occur in patients with minimally obstructive coronary artery disease and angina, and potentially may cause myocardial ischemia. Methods and Results Coronary endothelium-dependent vasodilation was examined in patients with angina and &lt;50% coronary artery diameter (CAD) stenosis by selectively infusing acetylcholine (10 −6 mol/L to 10 −4 mol/L) into the left anterior descending coronary artery (LAD). Percent change in CAD (%ΔCAD) was measured by quantitative coronary angiography, and percent change in coronary blood flow (%ΔCBF) was calculated using intracoronary flow Doppler. Coronary endothelium-independent vasodilation was examined using intracoronary adenosine and nitroglycerin. 99m Tc sestamibi was injected intravenously just prior to the infusion of the highest dose of acetylcholine. Patients were divided blindly into three groups: Perfusion defects in non-LAD territory (group 1, n=6), no perfusion defects (group 2, n=7), and perfusion defects in the LAD territory (group 3, n=7). All patients had intact endothelium-independent vasodilation. In group 1, perfusion defects outside the LAD territory reflected an increase in %ΔCAD and %ΔCBF by 24±5% and 241±46% in the LAD. In group 2, %ΔCAD decreased by 26±5%, but %ΔCBF increased by 54±17%. In group 3, perfusion defects were within the LAD territory, reflecting a decrease in %ΔCAD and %ΔCBF by 35±5% and 51±14%, respectively. Conclusions This study demonstrates that coronary endothelial dysfunction in humans may be temporally associated with myocardial perfusion defects and supports a role for the coronary epicardial and microcirculation endothelium in regulating myocardial perfusion. Myocardial ischemia may occur in humans with impaired endothelium-dependent coronary flow reserve of the coronary epicardial and microcirculation.
Insense: Incoherent Sensor Selection for Sparse Signals (2017)

Sensor selection refers to the problem of intelligently selecting a small subset of a collection of available sensors to reduce the sensing cost while preserving signal acquisition performance. The majority of sensor selection algorithms find the subset of sensors that best recovers an arbitrary signal from a number of linear measurements that is larger than the dimension of the signal. In this paper, we develop a new sensor selection algorithm for sparse (or near sparse) signals that finds a subset of sensors that best recovers such signals from a number of measurements that is much smaller than the dimension of the signal. Existing sensor selection algorithms cannot be applied in such situations. Our proposed Incoherent Sensor Selection (Insense) algorithm minimizes a coherence-based cost function that is adapted from recent results in sparse recovery theory. Using six datasets, including two real-world datasets on microbial diagnostics and structural health monitoring, we demonstrate the superior performance of Insense for sparse-signal sensor selection.
Materials Research Society Symposium Proceedings; Volume 720. Materials Issues for Tunable RF and Microwave Devices III Held in San Francisco, California on April 2-3, 2002 (2002)

The purpose of this symposium was to bring together researchers from a broad range of disciplines to discuss the challenges facing the implementation of an affordable tunable RF and microwave device technology. Low cost, tunable, microwave devices will have a tremendous impact on a variety of commercial and military systems, including, but not limited to, tunable band-select filters for wireless communications, phase shifters and true time delay devices for electronic scanning antennas, tunable radiating structures for frequency hopping, and tunable transformers to reduce RF impedance mismatch. The papers of this proceedings discuss a wide range of topics from materials issues through devices and even a system level demonstration of electronic beam steering. Specific materials issues discussed are: new tunable materials; issues of tunability, preparation and optimization of bulk and thin film properties; materials, surface, and interface characterization; evaluation of material loss and loss mechanisms; effects of microstructure; and temperature stability. At the device level, phase shifters are discussed and a new device concept for variable true time delay versus phase shift is introduced. At the system level, a paraelectric lens is used to demonstrate electronic beam steering of an antenna at 10 GHz with about 2 dB of loss.
The synthesis and characterization of polyimide homopolymers based on 5(6)-amino-1-(4-aminophenyl)-1,3,3-trimethylindane (2000)

The isomeric diamine monomer 5(6)-amino-1-(4-aminophenyl)-1,3,3-trimethylindane (DAPI) was successfully synthesized via the dimerization of α-methylstyrene followed by nitration and reduction. High molecular weight, soluble polyimides were synthesized via ester–acid solution imidization techniques and had glass-transition temperature values ranging from 247 to 369 °C. The polymers were soluble in common organic solvents because of the asymmetric and nonplanar nature of DAPI and displayed good short-term thermal stability by thermogravimetric analysis, as shown by their 5% weight-loss values above 500 °C in air. The DAPI/(3,4-dicarboxyphenyl) hexafluoropropane dianhydride (6FDA) polyimide also showed 2-h thermal stability at 400 °C under nitrogen, despite the partial aliphatic character. Refractive index values as low as 1.571 were observed for DAPI/6FDA, which allows an estimated dielectric constant of 2.47 to be derived. The permeation of O2 and N2 was conducted on thin dense films. The bulky, bent, and isomeric nature of DAPI imparted film-forming membranes that permitted high O2 permeability. In combination with 3,3′,4,4′-benzophenone tetracarboxylic dianhydride (BTDA), DAPI had a good combination of O2 permeability and O2/N2 selectivity values of 2.8 Ba and 7.3, respectively. The polymerization method utilized to facilitate the cyclization of DAPI/BTDA to the polyimide affected the final thermal properties of the resulting polymer. The chemical imidization of DAPI/BTDA generated a polyimide with a glass-transition temperature value of 311 °C and a 5% weight-loss value in air of 457 °C. However, thermal and ester–acid imidization routes yielded an increase in the thermal properties. The ester–acid solution imidization of DAPI/BTDA produced a polymer glass-transition temperature value of 333 °C and a 5% weight-loss value of 525 °C in air. © 2000 John Wiley & Sons, Inc. J Polym Sci A: Polym Chem 38: 2840–2854, 2000
Abdominal aortic aneurysm monitoring via arterial waveform analysis: towards a convenient point-of-care device (2022)

Abdominal aortic aneurysms (AAAs) are lethal but treatable yet substantially under-diagnosed and under-monitored. Hence, new AAA monitoring devices that are convenient in use and cost are needed. Our hypothesis is that analysis of arterial waveforms, which could be obtained with such a device, can provide information about AAA size. We aim to initially test this hypothesis via tonometric waveforms. We study noninvasive carotid and femoral blood pressure (BP) waveforms and reference image-based maximal aortic diameter measurements from 50 AAA patients as well as the two noninvasive BP waveforms from these patients after endovascular repair (EVAR) and from 50 comparable control patients. We develop linear regression models for predicting the maximal aortic diameter from waveform or non-waveform features. We evaluate the models in out-of-training data in terms of predicting the maximal aortic diameter value and changes induced by EVAR. The best model includes the carotid area ratio (diastolic area divided by systolic area) and normalized carotid-femoral pulse transit time ((age·diastolic BP)/(height/PTT)) as input features with positive model coefficients. This model is explainable based on the early, negative wave reflection in AAA and the Moens-Korteweg equation for relating PTT to vessel diameter. The predicted maximal aortic diameters yield receiver operating characteristic area under the curves of 0.83 ± 0.04 in classifying AAA versus control patients and 0.72 ± 0.04 in classifying AAA patients before versus after EVAR. These results are significantly better than a baseline model excluding waveform features as input. Our findings could potentially translate to convenient devices that serve as an adjunct to imaging.
Prophylaxe der Post-ERCP-Pankreatitis: Update der Leitlinie der Europäischen Gesellschaft für Gastrointestinale Endoskopie (ESGE) – Juni 2014 (2015)

Diese Leitlinie ist ein offizielles Statement der Europäischen Gesellschaft für Gastrointestinale Endoskopie (ESGE). Sie behandelt die Prophylaxe der durch eine endoskopische retrograde Cholangiopankreatikografie verursachten akuten Pankreatitis (Post-ERCP-Pankreatitis). <b>Hauptempfehlungen</b>
Randomized phase II study of perifosine in combination with capecitabine versus capecitabine alone in patients with second- or third-line metastatic colon cancer (2009)

4081 Background: Perifosine (Peri), a synthetic alkylphospholipid, inhibits or modifies a number of different signal transduction pathways (AKT, MAPK and JNK). Peri as a single agent or in combination with other cytotoxic agents, has shown clinical benefit with a manageable safety profile. In a phase I solid tumor trial, Peri was safely combined with capecitabine (Cap) and demonstrated interesting activity in patients (pts) with metastatic colorectal cancer (mCRC), with one patient progression-free for 49 weeks (wks). To assess the true effect of Peri, a phase II was initiated as an exploratory randomized double-blind, placebo controlled study where mCRC pts received Cap in combination with Peri or placebo. Methods: Pts with 2 nd or 3 rd line mCRC, not previously treated with single agent Cap. ECOG PS 0–1, normal organ/marrow function required. Dose for Cap was 825 mg/m 2 BID d 1–14 q 3 weeks. Dose for Peri or placebo was 50 mg qd. Primary outcome analyses included median time to progression (TTP) and response rate (CR+PR). Results: 37 pts have been randomized. Median age 68 (range 32–83) and 57% were male. Median prior Rx was 2 (range 1 - 5). For the analyses, 25 pts were unblinded (12 too early) with 22/25 pts evaluable for response (2 pts off for toxicity at d 14, 46 and 1 patient off at d 4 for other disease; all 3 pts were on Cap + placebo). Results in table below. The log-rank p-value comparing active to placebo for TTP is 0.01. As of 12/08, all unblinded pts are off treatment and 11/12 that were too early remain on treatment with enrollment ongoing. Most frequent (&gt;5%) grade 3 /4 adverse events for Cap + Peri was hand/foot syndrome (16%) and anemia (8%); for Cap + placebo was fatigue (8%). Conclusions: Perifosine in combination with capecitabine was well tolerated, clinically active and more than doubled median TTP over capecitabine alone in pts with advanced, metastatic CRC. [Table: see text] [Table: see text]