gebhart/patrepeval huggingface dataset:
A Supramolecular Receptor of Diatomic Molecules (O2, CO, NO) in Aqueous Solution (2008)

A per-O-methylated beta-cyclodextrin dimer, Py2CD, was conveniently prepared via two steps: the Williamson reaction of 3,5-bis(bromomethyl)pyridine and beta-cyclodextrin (beta-CD) yielding 2A,2'A-O-[3,5-pyridinediylbis(methylene)bis-beta-cyclodextrin (bisCD) followed by the O-methylation of all the hydroxy groups of the bisCD. Py2CD formed a very stable 1:1 complex (Fe(III)PCD) with [5,10,15,20-tetrakis(p-sulfonatophenyl)porphinato]iron(III) (Fe(III)TPPS) in aqueous solution. Fe(III)PCD was reduced with Na2S2O4 to afford the Fe (II)TPPS/Py2CD complex (Fe(II)PCD). Dioxygen was bound to Fe(II)PCD, the P(1/2)(O2) values being 42.4 +/- 1.6 and 176 +/- 3 Torr at 3 and 25 degrees C, respectively. The k(on)(O2) and k(off)(O2) values for the dioxygen binding were determined to be 1.3 x 10(7) M(-1) s(-1) and 3.8 x 10(3) s(-1), respectively, at 25 degrees C. Although the dioxygen adduct was not very stable (K(O2) = k(on)(O2)/k(off)(O2) = 3.4 x 10(3) M(-1)), no autoxidation of the dioxygen adduct of Fe(II)PCD to Fe(III)PCD was observed. These results suggest that the encapsulation of Fe (II)TPPS by Py2CD strictly inhibits not only the extrusion of dioxygen from the cyclodextrin cage but also the penetration of a water molecule into the cage. The carbon monoxide affinity of Fe(II)PCD was much higher than the dioxygen affinity; the P(1/2)(CO), k(on)(CO), k(off)(CO), and K(CO) values being (1.6 +/- 0.2) x 10(-2) Torr, 2.4 x 10(6) M(-1) s(-1), 4.8 x 10(-2) s(-1), and 5.0 x 10(7) M(-1), respectively, at 25 degrees C. Fe(II)PCD also bound nitric oxide. The rate of the dissociation of NO from (NO)Fe(II)PCD ((5.58 +/- 0.42) x 10(-5) s(-1)) was in good agreement with the maximum rate ((5.12 +/- 0.18) x 10(-5) s(-1)) of the oxidation of (NO)Fe(II)PCD to Fe(III)PCD and NO3(-), suggesting that the autoxidation of (NO)Fe(II)PCD proceeds through the ligand exchange between NO and O2 followed by the rapid reaction of (O2)Fe(II)PCD with released NO, affording Fe(II)PCD and the NO3(-) anion inside the cyclodextrin cage.
An automatic equalization method without voltage sensing circuits for series connected battery string (2016)

The power battery plays a crucial role in electric vehicles (EVs). In order to extend the battery lifetime and guarantee safety, equalizers are required to balance the cells' energy. Traditional equalization methods need voltage sensing circuits and software to collect and compare cell voltages. It needs high hardware and software cost. Therefore, an automatic equalization method without cell voltage sensing circuits is proposed in this paper. The method releases the controller from collecting and comparing cell voltages. The assessment of cell energy and the equalization process are both accomplished by hardware. The simulation and experimental results show that the equalizer using the proposed automatic method can obtain good equalization effects within a short time. The proposed automatic equalization method is simple, reliable, and inexpensive.
Densification process and mechanism of solution-processed amorphous indium zinc oxide thin films for high-performance thin film transistors (2019)

Although sol-gel IZO thin films are entirely porous, there are local dense regions at the surface and interface. From the relationship between the refractive index and thickness, we found that densified regions are maximized to the level of sputter thin films&amp;apos; density when the thickness is reduced. TFT devices with one-layer and four-layer IZO channels with the same thickness of 200 angstrom were compared. The four-layer channel showed a field-effect mobility of 9.06 cm(2) V-1 s(-1). This result shows an improvement of five times compared to the 1.95 cm(2) V-1 s(-1) of the one-layer channel, thus validating the effect of densification. (C) 2019 The Japan Society of Applied Physics
Towards SSD-Ready Enterprise Platforms. (2010)

High-performance solid state disks (SSDs) deliver a 2–3 orders of magnitude increase in I/O operations per second (IOPS) over hard disk drives (HDDs). Extreme-performance SSDs can produce up to 120,000 IOPS for random-access reads, taking as few as eight direct-attached SSDs to reach one million IOPS. However, today’s multi-core platforms have long been optimized for HDDs, leading to the question: Are platforms ready to deliver such extreme IOPS to the application? To this end, we provide measurements aimed to expose the correct optimizations necessary to deliver such performance. We found that the majority of platform I/O latency still lies in the SSD and not in system software. We identified data copies, uncacheable MMIO reads, interrupt processing, and context switches to be the primary contributors of I/O processing cost. We found typical reference platforms to be surprisingly robust, delivering up to 177,000 IOPS from a single host-bus adapter (HBA). We validated almost 500,000 IOPS with as many HBAs we can put into the platform while maintaining 50 % CPU utilization, showcasing the extreme IOPS capable on single volume platform. 1.
Visualizing Uncertainty with Uncertainty Multiples (2006)

It is difficult to depict uncertainty graphically. Conventional means, which rely on mapping uncertainty to graphical attributes in an image, have limited effectiveness because they require presenting additional variables and are not generally intuitive. The concept of uncertainty multiples is proposed herein to address these challenges. Uncertainty multiples are small-scale images positioned within the eyespan on a single page or screen showing the range of possible interpretations of the information. This concept is illustrated and its implementation in practice, including the role of software technology, is discussed.
ChemInform Abstract: Phases in the System XeF2/XeF5AsF6 and Structural and Vibrational Evidence for the Following Ionization Pathway: XeF2 → XeF+ + F‐. (1988)

Abstract The fusion temp. versus composition curve of the title system indicates compound formation at XeF 2 to XeF 5 AsF 6 ratios of 1:2 (at 89.5 °C), 2:1 (59.5 °C), and 3:1 (74.0 °C).
Suboptimal stimulation with staphylococcal enterotoxin C1 induces immunosuppressive CD4+CD25+ regulatory T cells by differential expression of FOXP3 isoforms (2018)

Abstract Regulatory T cells (Tregs) play an important role in maintaining immune homeostasis and preventing excessive tissue damage upon immune activation. However, pathogens could exploit Tregs for their successful pathogenesis. We demonstrated that immunosuppressive CD4+CD25+FOXP3+ Tregs were induced by staphylococcal enterotoxin (SE) produced by an important human pathogen, Staphylococcus aureus. CD4+CD25+FOXP3+ T cells were induced from stimulation with SEC1 at a high (1 μg/ml) and low (1 ng/ml) concentrations that induced optimal stimulation and suboptimal stimulation, respectively. However, CD4+CD25+FOXP3+ T cells induced from suboptimal stimulation were functionally immunosuppressive, not from optimal stimulation. Immunosuppressive CD4+CD25+FOXP3+ T cells induced from suboptimal stimulation showed typical Treg surface markers such as CTLA-4, GITR, TNFR2, and CD45RO and produced immunomodulatory cytokines such as TGF-β and IL-10. However, suppression was mainly mediated by galectin-1 in a contact-dependent manner. We found that CD4+CD25+ Tregs from suboptimal stimulation highly express FOXP3 isoform lacking exon 2 (ΔE2) and partially lacking exon3 (ΔpE3) preferably localized to the nucleus, compared to those from optimal stimulation. Lentiviral transduction of FOXP3 isoforms (full length, ΔE2, ΔpE3) to Jurkat T cells did not result in immunosuppressive function. By contrast, when cultured in the media generated from suboptimal T cell stimulation, transduced Jurkat T cells became more immunosuppressive in an order of ΔE2 ΔpE3, and full length FOXP3. These results suggest that soluble factors generated from suboptimal T cell proliferation play an important role in induction of immunosuppressive Tregs.
Applications of the MTT assay to functional studies of mouse intestinal intraepithelial lymphocytes (1996)

The MTT [3(4,5-dimethyl-thiazoyl-2-yl)2,5 diphenyl-tetrazolium bromide] and other related colorimetric assays were compared, and applied to functional studies of mouse intestinal intraepithelial lymphocytes and their hybridomas. Functional studies of intestinal lymphocytes included cell adhesion, cytotoxicity, growth inhibition, and proliferation. Our data demonstrate that MTT and related assays are time, labor, and cost saving alternatives to standard radiolabeling assays. The novel application of the MTT method to measure cell-to-cell adhesion and cell-mediated cytotoxicity greatly speed and simplify the determination. The new application of the MTT methods provides a reliable, reproducible, and rapid alternative for the study of intestinal immune cell functions. © 1996 Wiley-Liss, Inc.
Supplementary Dataset 2 from Distinct Subtypes of Gastric Cancer Defined by Molecular Characterization Include Novel Mutational Signatures with Prognostic Capability (2023)

&lt;p&gt;DNA repair gene mutations, SMGs, and hotspot mutations in RGC and HGC.&lt;/p&gt;
Cost-efficient remote PON monitoring based on OTDR measurement and OTM functionality (2011)

We present a method to monitor single- and cascaded-splitter TDM-PON systems based on combined techniques of Optical Time-Domain Reflectometry (OTDR) and Optical Transceiver Monitoring (OTM). The method is non-invasive to data traffic flow and requires no additional functionality (hardware or software) at the Optical Network Terminals (ONT). The description of the Fiber Plant Manager (FPM) overall architecture and components is followed by measurement results proving the concept on a 25-km 1:32 PON testbed.
Impact of Assimilating Ocean Velocity Observations Inferred from Lagrangian Drifter Data Using the NCOM-4DVAR* (2013)

Abstract Eulerian velocity fields are derived from 300 drifters released in the Gulf of Mexico by The Consortium for Advanced Research on Transport of Hydrocarbon in the Environment (CARTHE) during the summer 2012 Grand Lagrangian Deployment (GLAD) experiment. These data are directly assimilated into the Navy Coastal Ocean Model (NCOM) four-dimensional variational data assimilation (4DVAR) analysis system in a series of experiments to investigate their impact on the model circulation. The NCOM-4DVAR is a newly developed tool for data analysis, formulated for weak-constraint data assimilation based on the indirect representer method. The assimilation experiments take advantage of this velocity data along with other available data sources from in situ and satellite measurements of surface and subsurface temperature and salinity. Three different experiments are done: (i) A nonassimilative NCOM free run, (ii) an assimilative NCOM run that utilizes temperature and salinity observations, and (iii) an assimilative NCOM run that uses temperature and salinity observations as well as the GLAD velocity observations. The resulting analyses and subsequent forecasts are compared to assimilated and future GLAD velocity and temperature/salinity observations to determine the performance of each experiment and the impact of the GLAD data on the analysis and the forecast. It is shown that the NCOM-4DVAR is able to fit the observations not only in the analysis step, but also in the subsequent forecast. It is also found that the GLAD velocity data greatly improves the characterization of the circulation, with the forecast showing a better fit to future GLAD observations than those experiments without the velocity data included.
A functionally significant allelic polymorphism in a T cell receptor Vβ gene segment (1996)

The effect of an allelic polymorphism in the BV1S1 gene segment on recognition of major histocompatibility complex (MHC)-peptide complexes by a specific T cell receptor (TCR) was studied using RBL 2H3 cells transfected with TCR-CD3 zeta chimeric receptors. An HLA-A2-restricted human immunodeficiency virus (HIV) pol-specific cytotoxic T lymphocyte (CTL) clone utilizing the BV1S1A2 gene in combination with AV2S1A2 was identified and the extracellular domains of the TCR were fused to CD3 zeta. In degranulation assays RBL 2H3 transfectants expressing this receptor maintained the specificity of the parental CTL clone. The allelic variant BV1S1A1N1 containing a glutamine for histidine substitution at position 48 in the loop of the second complementarity-determining region was generated by site-directed mutagenesis. Transfection of this molecule as a CD3 zeta chimera together with the original AV2S1A2 CD3 zeta molecule resulted in cell surface expression of both chains but a loss of recognition of HLA-A2 HIV pol peptide-pulsed targets. The effect of this polymorphism on MHC-peptide recognition supports current models of TCR MHC-peptide interaction and provides evidence for a functional role for polymorphism in the TCRV genes.
Inflammatory markers of lung disease in adult patients with cystic fibrosis (2007)

Severity of lung disease in long surviving adult CF patients is correlated with CRP and IgG levels. Our findings relating CRP and IgG levels and lung function provide a foundation for subsequent longitudinal studies and consideration of novel disease mechanisms and outcome measurements.
Choosing the UMTS air interface parameters, the voice packet size and the dejittering delay for a voice-over-IP call between a UMTS and a PSTN party (2002)

We develop a methodology to set the VoIP application parameters (voice packet size and dejittering delay) and the UMTS air interface parameters in such a way that the quality of VoIP calls involving a UMTS party is ensured. We use analytical techniques to determine the delay and packet loss contributions of the various transmission stages crossed by the voice packet flow, and the E-model to predict the perceived quality. Our numerical results show that provided the parameters of the VoIP application and the UMTS air interface are chosen properly, UMTS access and the stringent delay and packet loss requirements of VoIP are reconcilable.
Some recent advances in gold-based catalysis facilitated by aberration corrected analytical electron microscopy (2012)

The recent availability of aberration corrected analytical electron microscopes (ACAEM) is revolutionizing our ability to characterize nanostructured catalyst materials. Some recent case studies are presented whereby the application of the high angle annular dark field (HAADF) imaging technique, coupled with STEM-XEDS analysis, has given us a more detailed and realistic view of the catalyst morphology. The examples chosen include supported Au catalysts for low temperature CO oxidation and supported AuPd bimetallic alloy catalysts for the direct production of H2O2.
Fabrication of a high anisotropy nanoscale patterned magnetic recording medium for data storage applications (2006)

An approach to fabrication of a patterned magnetic recording medium for next generation data storage systems is presented. (Co/Pd)n magnetic multilayers are evaluated as candidates for patterned medium materials for their high and easily controllable magnetic anisotropy. The multilayer films deposited on a Ta seed layer enable high intergranular exchange coupling—an essential feature of a patterned magnetic recording medium. The quality of (Co/Pd)n superlattices was optimized via deposition conditions and monitored using low-angle x-ray diffraction. An estimated in-plane (hard-axis) magnetization saturation field in excess of 40 000 Oe was observed. Vertical (easy-axis) hysteresis loops for as-deposited continuous magnetic multilayers exhibited a low coercivity of 930 Oe, indicating highly uniform (magnetically) films with weak domain wall pinning. Ion-beam proximity lithography was used to pattern magnetic multilayers into 43 nm islands on a 135 nm pitch. Following patterning, easy-axis coercivity increased nearly 15-fold to 12.7 kOe.
Table S1 from MEK plus PI3K/mTORC1/2 Therapeutic Efficacy Is Impacted by <i>TP53</i> Mutation in Preclinical Models of Colorectal Cancer (2023)

&lt;p&gt;Table S1. MiSeq 57-gene panel list&lt;/p&gt;
The Cost of Simultaneous Surgical Standby for Percutaneous Transluminal Coronary Angioplasty (1986)

WILSON, J. M.; DUNN, E. J.; WRIGHT, C. B.; BAILEY, W. W.; CALLARD, G. M.; MELVIN, D. B.; MITTS, D. L.; WILL, R. J.; FLEGE, J. B. JR Author Information
Development of sustainable self-compacting concrete utilising silico manganese fume (2022)

This study investigated the possibility of developing self-compacting concrete (SCC) utilising silicomanganese fume (SMF), an industrial waste material. SCC was produced by replacing cement with 10, 20, 30, 40, 50, 60, 70, 80 and 90% SMF. First, an assessment of the fresh properties of 10 SCC mixtures was carried out, and then mixtures satisfying the fresh requirements were selected for further evaluation. Plastic shrinkage and setting time of the fresh SMF-SCC mixtures were measured, and thereafter the mechanical properties and drying shrinkage were evaluated. The incorporation of SMF increased the dosage of superplasticizer required for a certain flow, but it enhanced the filling ability and passing ability of SCC. In addition, the incorporation of SMF increased the plastic and drying shrinkage, as well as initial and final setting times. Although there was an improvement in mechanical properties of SCC mixtures containing 10 and 20% SMF, increasing the quantity of SMF beyond 20% negatively affected the mechanical properties. Furthermore, the use of SMF decreased the cost of SCC by 7–42% and the CO2 emission decreased by 10–68%.
Characterization of the organic-sulfur-degrading enzymes. [Rhodococcus rhodochorous] (1992)

Our immediate objective of this project is to characterize and purify the enzymes involved in degrading organic sulfur in coal from two well characterized organic sulfur-degrading strains, IGTS8 and K3B. The purification of these enzymes will facilitate the analysis of the structural organization of the genes encoding these enzymes. The characterization of these enzymes will be able to determine the true value of these enzymes towards the development of a practical process for coal desulfurization. Our long-term goal for this project is to overexpress the genes encoding these enzymes in their original host as well as in other microorganisms that can grow very well under the conditions suitable for coal desulfurization. Progress to date is described.
Changeprozesse positiv gestalten (2020)

Veränderungen sind im Zuge der Digitalisierung an der Tagesordnung - doch tauchen dabei immer wieder Barrieren auf. Dies macht es den Verantwortlichen oft sehr schwer, den anstehenden Wandel im notwendigen Umfang und in einer angemessenen Zeit umzusetzen.
Abstract LB-216: Integrated analysis of differential pathway resiliency in response to MAPK inhibition in BRAF-mutant cancer (2014)

Abstract Despite the development of potent RAF-MAPK pathway inhibitors, only a fraction of BRAF-mutant patients responds to the treatment with these drugs. Here, we applied a combined chemo-genomics and chemo-proteomics approach to gain insights into the dynamics of primary resistance signaling and to define novel cancer vulnerabilities in these tumors. These analyses uncovered differential pathway resiliency in response to MAPK inhibition in BRAF-mutant cancer cells. Using forward- and reverse-genetics we identify the assembly of RAS/RAF/MEK complexes as a critical force to override RAF-MAPK pathway inhibitor efficacy. Mapping of global phosphorylation dynamics using orthogonal mass-spectrometry based methods revealed multi-layered MAPK pathway feedback-loop release that feeds into MAPK-pathway hyperactivation. The phosphoprotein nuclear interacting partner of ALK (NIPA) identified in the phosphoproteome screen is critical for maintenance of the primary resistance phenotype. Overall, our data provide a kinome- and phosphoproteome-wide view of the adaptive process of primary resistance to MAPK inhibitors in BRAF-mutant tumors and reveals translatable strategies toward improvement of the efficacy of individualized therapies in these patients. Citation Format: Martin L. Sos, Rebecca Levin, John Gordan, Juan Oses-Prieto, James Webber, Megan Salt, Byron Hann, Alma Burlingame, Frank Mccormick, Sourav Bandyopadhyay, Kevan Shokat. Integrated analysis of differential pathway resiliency in response to MAPK inhibition in BRAF-mutant cancer. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr LB-216. doi:10.1158/1538-7445.AM2014-LB-216
Design of communication networks for distributed computation with privacy guarantees (2014)

In this paper we address a communication network design problem for distributed computation with privacy guarantees. More precisely, given a possible communication graph between different agents in a network, the objective is to design a protocol, by proper selection of the weights in the dynamics induced by the communication graph, such that 1) weighted average consensus of the initial states of all the agents will be reached; and 2) there are privacy guarantees, where each agent is not able to retrieve the initial states of non-neighbor agents, with the exception of a small subset of agents (that will be precisely characterized). In this paper, we assume that the network is cooperative, i.e., each agent is passive in the sense that it executes the protocol correctly and does not provide incorrect information to its neighbors, but may try to retrieve the initial states of non-neighbor agents. Furthermore, we assume that each agent knows the communication protocol.
Supplementary Methods from Targeting Activated Akt with GDC-0068, a Novel Selective Akt Inhibitor That Is Efficacious in Multiple Tumor Models (2023)

&lt;p&gt;PDF file - 94K&lt;/p&gt;
Experimental Mycoplasma pneumoniae Infection of Young Guinea Pigs (1973)

Young guinea pigs were experimentally infected with Mycoplasma pneumoniae. The organisms were isolated from the lungs of infected animals for at least nine weeks thereafter. Mycoplasmacidal antibody developed five weeks after infection, while lung lesions were detected within two weeks after inoculation. The histopathology of the affected lungs was similar to that observed in infected hamsters. The guinea pig may prove to be useful for studies on the pathogenesis of disease and the cell-mediated immune response during infection with M. pneumoniae.
Paneth cell defensins: Endogenous peptide components of intestinal host defense (1996)

Paneth cells are epithelial granulocytes at the base of the crypts of Lieberkühn in the small intestine of many mammalian species. These secretory cells contribute to mucosal barrier function by the apical release of granules containing a variety of antimicrobial products, including peptides termed cryptdins, for crypt defensins. In mice, six Paneth cell defensins have been characterized at the peptide level that have potent antimicrobial activities equivalent to or greater than that of rabbit neutrophil defensin NP-1. Cryptdin peptides that differ only by single amino acid substitutions have been shown to exhibit a high degree of specificity against certain target microorganisms. Cryptdins are coded by separate, two-exon genes that are located on chromosome 8 in both mice and humans. Human Paneth cells contain high levels of two different defensin mRNAs, but in mice at least 19 cryptdin isoforms are predicted from cDNA sequencing data. The mouse cryptdin-4 gene is expressed with positional specificity along the longitudinal intestinal axis, and cryptdin genes are active in the intestinal epithelium prior to Paneth cell differentiation. Accordingly, Paneth cell defensins are early markers of crypt ontogeny and are therefore useful in studies of lineage determination in the intestinal epithelium. Because cryptdins mediate innate immunity in the hostile environment of the intestinal lumen, it should be of interest to define biochemical and biophysical attributes that adapt these peptides to barrier function of mucosal surfaces.