gebhart/patrepeval huggingface dataset:
Multi-Level Factorial Analysis of Ca 2+ /P i Supplementation as Bio-Instructive Media for In Vitro Biomimetic Engineering of Three-Dimensional Osteogenic Hybrids (2011)

We report on the in vitro use of Ca(2+)/P(i) supplementation as a bio-instructive medium to drive human periosteum-derived cells (hPDCs) toward osteogenic differentiation on three-dimensional (3D) porous Ti6Al4V scaffolds. Through a multilevel factorial analysis, we have systematically investigated the biological effect and interactions of Ca(2+) or P(i) supplementation in three selected media preparations (i.e., basic growth medium, osteogenic medium [OM], and osteogenic medium without β-glycerophosphate [OM(-)]) and have identified specific conditions which induce proliferation and significant osteogenic differentiation of two-dimensional (2D) hPDC cultures. These findings were translated from 2D to 3D cultures conditions to instruct hPDCs to populate porous Ti6Al4V scaffolds and to differentiate into the osteoblast lineage with collagenous matrix production and subsequent matrix mineralization on the 3D structures. These osteogenic hybrids may potentially serve as a clinically relevant customizable bone reparative unit, providing a biomimetic template to more effectively mediate in vivo bone regeneration.
Exploring designability of electrostatic complementarity at an antigen-antibody interface directed by mutagenesis, biophysical analysis, and molecular dynamics simulations (2019)

Antibodies protect organisms from a huge variety of foreign antigens. Antibody diversity originates from both genetic and structural levels. Antigen recognition relies on complementarity between antigen-antibody interfaces. Recent methodological advances in structural biology and the accompanying rapid increase of the number of crystal structures of proteins have enabled atomic-level manipulation of protein structures to effect alterations in function. In this study, we explored the designability of electrostatic complementarity at an antigen-antibody interface on the basis of a crystal structure of the complex. We designed several variants with altered charged residues at the interface and characterized the designed variants by surface plasmon resonance, circular dichroism, differential scanning calorimetry, and molecular dynamics simulations. Both successes and failures of the structure-based design are discussed. The variants that compensate electrostatic interactions can restore the interface complementarity, enabling the cognate antigen-antibody binding. Retrospectively, we also show that these mutational effects could be predicted by the simulations. Our study demonstrates the importance of charged residues on the physical properties of this antigen-antibody interaction and suggests that computational approaches can facilitate design of antibodies that recognize a weakly immunogenic antigen.
Use of Artificial Intelligence and Deep Neural Networks in Evaluation of Patients With Electrocardiographically Concealed Long QT Syndrome From the Surface 12-Lead Electrocardiogram (2021)

In this study, the AI-ECG was found to distinguish patients with electrocardiographically concealed LQTS from those discharged without a diagnosis of LQTS and provide a nearly 80% accurate pregenetic test anticipation of LQTS genotype status. This model may aid in the detection of LQTS in patients presenting to an arrhythmia clinic and, with validation, may be the stepping stone to similar tools to be developed for use in the general population.
The WNT antagonist Dickkopf2 promotes angiogenesis in rodent and human endothelial cells (2011)

Neovessel formation is a complex process governed by the orchestrated action of multiple factors that regulate EC specification and dynamics within a growing vascular tree. These factors have been widely exploited to develop therapies for angiogenesis-related diseases such as diabetic retinopathy and tumor growth and metastasis. WNT signaling has been implicated in the regulation and development of the vascular system, but the detailed mechanism of this process remains unclear. Here, we report that Dickkopf1 (DKK1) and Dickkopf2 (DKK2), originally known as WNT antagonists, play opposite functional roles in regulating angiogenesis. DKK2 induced during EC morphogenesis promoted angiogenesis in cultured human endothelial cells and in in vivo assays using mice. Its structural homolog, DKK1, suppressed angiogenesis and was repressed upon induction of morphogenesis. Importantly, local injection of DKK2 protein significantly improved tissue repair, with enhanced neovascularization in animal models of both hind limb ischemia and myocardial infarction. We further showed that DKK2 stimulated filopodial dynamics and angiogenic sprouting of ECs via a signaling cascade involving LRP6-mediated APC/Asef2/Cdc42 activation. Thus, our findings demonstrate the distinct functions of DKK1 and DKK2 in controlling angiogenesis and suggest that DKK2 may be a viable therapeutic target in the treatment of ischemic vascular diseases.
High‐Resolution Melt as a Screening Method in Autosomal Dominant Polycystic Kidney Disease (ADPKD) (2014)

We have developed a strategy for rapid mutation analysis of the PKD2 gene in ADPKD families, which utilizes an HRM-based prescreening followed by direct sequencing of amplicons with abnormal profiles. This is a simple and good technique for PKD2 genotyping and may significantly reduce the time and cost for diagnosis in ADPKD.
CD antigens 2001 (2001)

The most recent Human Leucocyte Differentiation Antigen Workshop ("HLDA7") took place in 2000 in Harrogate, UK and the proceedings are about to be published (Leucocyte Typing VII). New Sections were introduced in this Workship (Dendritic cells, Stem/progenitor cells, Erythroid cells and Carbohydrate Structures) and monoclonal antibodies were selected for which at least some molecular data were already available (to avoid "blind" screening of reagents against known specificities). A total of more than 80 new CD specificities were established (previously the average was less than 30 new CD specificities per Workshop) and these are listed in this article. There is already evidence for the existence of many new leucocyte surface molecules for study at the next HLDA Workshop (in Adelaide in 2004), and we have listed in this article a number of such potential CD candidates (identified following the production of monoclonal antibodies or via gene cloning). There are also today an increasing number of lineage- and/or stage-restricted leucocyte-associated molecules localised within the cell cytoplasm (or nucleus): they will certainly prove of intense in the future for many laboratories studying human haematopoietic cells (regardless of whether a new "intracellular CD" categorisation scheme is devised for such molecules).
Pyrogenic Silica—Rheological Properties in Reactive Resin Systems (2006)

Pyrogenic silica is a finely divided amorphous silicon dioxide produced by high temperature hydrolysis of silicon tetrachloride in an oxygen–hydrogen flame. The most important thermal pyrogenic path is the flame hydrolysis of silanes, which gives access to pyrogenic silica, silica. Pyrogenic silica is widely used in industry as an efficient thickening agent, providing shear thinning and thixotropy to liquid media like sealants, adhesives, composite resins, coatings, and inks. Control over the rheological properties of liquid systems is of enormous industrial importance. In the case of pyrogenic silica, several general types of silica are commonly used to govern the rheological properties of liquid media such as paints or adhesives. In silica–resin mixtures, adsorption of resin oligomers due to the high surface energy of the silica particles has to be taken into account. The surface of a colloidal system influences most strongly on the viscosity of a fluid where the colloidal solid is dispersed.
ChemInform Abstract: Recent Advances in Solventless Organic Reactions: Towards Benign Synthesis with Remarkable Versatility (2002)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
On-clock non-paralyzable count-loss model (2004)

This paper proposes a new count-loss model that is applicable to radiation detection systems in the field of nuclear medicine. The proposed model, represented by n = (1 - exp(-tau(n)0))/tau(n)0: input rate, n: output rate,tau: system clock duration), gives higher count rates than the well-known standard nonparalyzable (non-extensible) model represented by n = n0/(1 + tau(n)0) does, being equally simple. This model assumes that a part of the data processing is performed on a fixed system clock, requiring a data buffering function (latch) to retain digital event information temporarily, and that input timing is random. The model's simple interpretation and expression also offers an advantage over various other advanced count-loss models proposed so far. This model was found to be a better fit to a data-acquisition system for a positron emission tomography scanner.
Aurora A–Selective Inhibitor LY3295668 Leads to Dominant Mitotic Arrest, Apoptosis in Cancer Cells, and Shows Potent Preclinical Antitumor Efficacy (2019)

Although Aurora A, B, and C kinases share high sequence similarity, especially within the kinase domain, they function distinctly in cell-cycle progression. Aurora A depletion primarily leads to mitotic spindle formation defects and consequently prometaphase arrest, whereas Aurora B/C inactivation primarily induces polyploidy from cytokinesis failure. Aurora B/C inactivation phenotypes are also epistatic to those of Aurora A, such that the concomitant inactivation of Aurora A and B, or all Aurora isoforms by nonisoform-selective Aurora inhibitors, demonstrates the Aurora B/C-dominant cytokinesis failure and polyploidy phenotypes. Several Aurora inhibitors are in clinical trials for T/B-cell lymphoma, multiple myeloma, leukemia, lung, and breast cancers. Here, we describe an Aurora A-selective inhibitor, LY3295668, which potently inhibits Aurora autophosphorylation and its kinase activity in vitro and in vivo, persistently arrests cancer cells in mitosis, and induces more profound apoptosis than Aurora B or Aurora A/B dual inhibitors without Aurora B inhibition-associated cytokinesis failure and aneuploidy. LY3295668 inhibits the growth of a broad panel of cancer cell lines, including small-cell lung and breast cancer cells. It demonstrates significant efficacy in small-cell lung cancer xenograft and patient-derived tumor preclinical models as a single agent and in combination with standard-of-care agents. LY3295668, as a highly Aurora A-selective inhibitor, may represent a preferred approach to the current pan-Aurora inhibitors as a cancer therapeutic agent.
Cryocooled Wideband Digital Channelizing RF Receiver Based on Low-Pass ADC (2007)

We have demonstrated a digital receiver performing direct digitization of radio frequency signals over a wide frequency range from kilohertz to gigahertz. The complete system, consisting of a cryopackaged superconductor All-Digital Receiver (ADR) chip followed by room-temperature interface electronics and a field programmable gate array (FPGA) based post-processing module, has been developed. The ADR chip comprises a low-pass delta modulator with phase modulation- demodulation architecture together with digital in-phase and quadrature mixer and a pair of digital decimation filters. The chip is fabricated using a 4.5 kA/cm 2 process and is cryopackaged using a commercial-off-the-shelf cryocooler. Experimental results in HF, VHF, UHF and L bands and their analysis proving consistent operation of the cryopackaged ADR chip up to 24.32 GHz clock frequency, are presented and discussed. To our knowledge this is the fastest digital receiver demonstrated to date.
Structure-based Evolution of G protein-biased μ-opioid Receptor Agonists (2022)

Abstract The μ-opioid receptor (μOR) is the major target for opioid analgesics. Activation of μOR initiates signaling through G protein pathways as well as through β-arrestin recruitment. μOR agonists that are biased towards G protein signaling pathways demonstrate diminished side effects. PZM21, discovered by computational docking, is a G protein biased μOR agonist. Here we report the cryoEM structure of PZM21 bound μOR in complex with G i protein. Structure-based evolution led to multiple PZM21 analogs with more pronounced G i protein bias and increased lipophilicity to improve CNS penetration. Among them, FH210 shows extremely low potency and efficacy for arrestin recruitment. We further determined the cryoEM structure of FH210 bound to μOR in complex with G i protein and confirmed its expected binding pose. The structural and pharmacological studies reveal a potential mechanism to reduce β-arrestin recruitment by the μOR, and hold promise for developing next-generation analgesics with fewer adverse effects. Table of Contents Graphical Abstract We obtained cryoEM structures of the μ-opioid receptor (μOR) bound to the lead compound PZM21 and the newly developed agonist FH210 to understand the mechanism of their biased signaling and to guide the evolution of next-generation analgesics with fewer adverse effects.
Scene-based non-uniformity correction for focal plane arrays using a facet model (2005)

This paper discusses scene-based estimation of non-uniformity correction (NUC) coefficients for focal-plane array sensors using spatial image neighborhood information (facet model). Several scene-based methods for estimation of non-uniformity correction (NUC) parameters were proposed in the literature, but artifacts can remain in specific situations. The objective of the work is to estimate non-uniformity correction coefficients using random scene images without making assumptions about motion or constant statistics. We show analytically and experimentally, how to reduce fixed pattern noise using a facet model. The method works best if out-of-focus images are available for calibration. We estimate NUC coefficients experimentally from a set of twelve scene images. The facet model approach can be an alternative for applications where artifacts otherwise would remain.
Reconfiguring Array Codes (2015)

In this letter we consider array codes that are used for erasure protection in, e.g., wireless sensor networks. By treating the network as distributed storage with multiple sources, information can be exchanged between the nodes in the network allowing each node to store parity symbols relating to data from other nodes. We show how these array codes can be reconfigured to minimise the probability that some data symbols are not correctly exchanged (and therefore reducing the erasure correcting capability of the array code). We also present a suboptimal method for a class of array codes which significantly reduces the complexity of the reconfiguration while maintaining almost all of the performance.
Processes for microemulsion polymerization employing novel microemulsion systems (2023)

This invention is directed to a microemulsion system comprising a first phase including a low-polarity fluid material which is a gas at standard temperature and pressure, and which has a cloud-point density. It also includes a second phase including a polar fluid, typically water, a monomer, preferably a monomer soluble in the polar fluid, and a microemulsion promoter for facilitating the formation of micelles including the monomer in the system. In the subject process, micelles including the monomer are formed in the first phase. A polymerization initiator is introduced into the micelles in the microemulsion system. The monomer is then polymerized in the micelles, preferably in the core of the micelle, to produce a polymeric material having a relatively high molecular weight.
Consideration for the pulse-link DC-AC converter for fuel cells (2008)

This paper proposes a novel topology of DC-AC converter for fuel cells application, and considers the input- current reduction method. The conventional DC-AC converter for Fuel Cells has large capacitor between boost converter stage and PWM converter stage, in order to reduce input-current ripple. That capacitor disturbs to reduce the size of unit. The proposed DC-AC converter provides boosted-voltage pulse directly to PWM inverter. So, this topology is no need to insert large capacitor. Furthermore, the series LC circuit which is inserted on proposed circuit topology works as ripple canceling. This paper shows the mechanism of current-ripple reduction. Moreover, active input current-ripple reduction method is shown. Using this method, input current ripple becomes 1[A].
Highlights from the 2005 New Security Paradigms Workshop (2005)

This panel highlights a selection of the most interesting and provocative papers from the 2005 New Security Paradigms Workshop. This workshop was held September 2005 - the URL for more information is http://www.nspw.org. The panel consists of authors of the selected papers, and the session is moderated by the workshop's general chairs. We present selected papers focusing on exciting major themes that emerged from the workshop. These are the papers that will provoke the most interesting discussion at ACSAC.
Multiple sensors ensure guide strand selection in human RNAi pathways (2013)

Small RNAs guide RNA-induced silencing complexes (RISCs) to bind to cognate mRNA transcripts and trigger silencing of protein expression during RNA interference (RNAi) in eukaryotes. A fundamental aspect of this process is the asymmetric loading of one strand of a short interfering RNA (siRNA) or microRNA (miRNA) duplex onto RISCs for correct target recognition. Here, we use a reconstituted system to determine the extent to which the core components of the human RNAi machinery contribute to RNA guide strand selection. We show that Argonaute2 (Ago2), the endonuclease that binds directly to siRNAs and miRNAs within RISC, has intrinsic but substrate-dependent RNA strand selection capability. This activity can be enhanced substantially when Ago2 is in complex with the endonuclease Dicer and the double-stranded RNA-binding proteins (dsRBPs)-trans-activation response (TAR) RNA-binding protein (TRBP) or protein activator of PKR (PACT). The extent to which human Dicer/dsRBP complexes contribute to strand selection is dictated by specific duplex parameters such as thermodynamics, 5' nucleotide identity, and structure. Surprisingly, our results also suggest that strand selection for some miRNAs is enhanced by PACT-containing complexes but not by those containing TRBP. Furthermore, overall mRNA targeting by miRNAs is disfavored for complexes containing TRBP but not PACT. These findings demonstrate that multiple proteins collaborate to ensure optimal strand selection in humans and reveal the possibility of delineating RNAi pathways based on the presence of TRBP or PACT.
Robust Estimation of Anisotropy Parameters from Correlation of PP and PS Images and Wells (2001)

P113 ROBUST ESTIMATION OF ANISOTROPY PARAMETERS FROM CORRELATION OF PP AND PS IMAGES AND WELLS O. MIKHAILOV 1 and E. F. HERKENHOFF 2 Summary Isotropic imaging of 4C data at Alba has resulted in significant mismatches between reflector depths in PP and PS images and the depths determined from well control (Mikhailov et al. 2001). These mismatches indicate that the subsurface at Alba is effectively anisotropic. We present a simple procedure for estimating anisotropy parameters of the effective TI medium based on these depth mismatches. Our analysis relies primarily on near-offset information and therefore may be more robust than methods
Electron-phonon coupling in DyFeO3 revealed by infrared spectroscopy (2013)

We have investigated crystal field and phonon dynamics of the multiferroic orthoferrite DyFeO$_3$ via polarized infrared spectroscopy. Reflectance of single crystals was measured in the far- to mid-infrared spectral range at range of temperatures from 10-295 K. We observe a strongly anisotropic phonon spectrum which differs from earlier lattice dynamical calculations in its symmetry, as well as a mode with significant and unusual temperature dependence that we interpret as a coupled phonon-crystal-field excitation.
Abstract 301: Aortic and Central Venous Pressure Wave Synchronization in Pseudo-Pulseless Electrical Activity (2020)

Introduction: Pseudo-Pulseless Electrical Activity (p-PEA) is a lifeless form of profound cardiac shock characterized by measurable cardiac mechanical activity without clinically detectable pulses. p-PEA may constitute up to 40% of reported cases of cardiac arrest and its etiologies and physiology are distinctly different from ventricular fibrillation or even true-PEA. In the normal physiologic state, there is an expected delay between the central venous (CV) and aortic (Ao) pressure waveforms corresponding to atrial kick and ventricular systole, respectively. We studied this relationship in hypoxic porcine p-PEA. Hypothesis: Development of p-PEA may be associated with changes in Ao and CV waveform synchronization. Methods: Female swine (N = 14) under intravenous anesthesia were instrumented with Ao and CV micromanometer catheters. ECG and ET-CO 2 were measured continuously. p-PEA was induced by ventilation with 6% oxygen in 94% nitrogen, and was defined as a systolic aortic pressure less than 40 mmHg. After 2 min. of p-PEA, 100% O 2 , CPR, and epinephrine were administered in a stepwise progression until ROSC was achieved. Results: One min. before the onset of hypoxia, the mean CV to Ao waveform delay was 0.161 sec. (SE ± 0.0015) across 52 experiments (n = 4797). This delay shortened during development of the p-PEA disease state (Figure 1), where the average delay decreased to 0.057 seconds (SE ± 0.0012) across 52 experiments (n = 3969, P &lt; 10-6). There were statistically significant differences (P &lt; 10-6) in waveform delays in between cohorts of animals who required more interventions to achieve ROSC, with shorter delay periods in both baseline and disease states correlating strongly with greater interventions. Conclusions: Development of the hypoxic p-PEA state may be associated with a loss of the normal CV to Ao pressure waveform delay. The degree of this loss may be associated with the severity of p-PEA disease state and predictive of the therapy required for ROSC.
22.2 A Rugged Wearable Modular ExG Platform Employing a Distributed Scalable Multi-Channel FM-ADC Achieving 101dB Input Dynamic Range and Motion-Artifact Resilience (2019)

Wearable ExG biopotential acquisition systems can potentially capture a wealth of clinically useful diagnostic information during activities of daily life. In practice, however, motions from common activities introduce large artifacts that can easily saturate traditional analog front-ends (AFEs) designed to sense biopotentials on the micro- to milli-volt scale. In addition, the wires that connect each electrode to an array of high-impedance AFEs can easily pick up interference and large, potentially saturating artifacts. For these reasons, many-channel monolithic biopotential sensing systems are often fragile and difficult to use in ambulatory environments. While active electrodes can be used to combat interference picked up by high-impedance wires, they require power-hungry drivers to deliver high-fidelity signals across relevant anatomy to an array of ADCs. Placing an ADC on each active electrode followed by a digital bus driver can eliminate analog driver power, resulting in a per-channel power consumption of 104μW in [1]. However, the 12b SAR ADC in [1] could not tolerate significant motion artifacts, and further increasing the ADC resolution to accommodate a larger dynamic range (DR) would require a quadratic increase in per-channel ADC power consumption.
Abnormal neutrophil signature in the blood and pancreas of presymptomatic and symptomatic type 1 diabetes (2018)

Juvenile Diabetes Research Foundation (JDRF), NIH, Diabetes UK.