gebhart/patrepeval huggingface dataset:
Adsorption/Desorption Characteristics of cis-Platin on Mercapto-Silylated Silica Surfaces (2001)

High-dose cancer treatment with cis-platin (CP, cis-[Pt(NH3)2Cl2]), although of therapeutic value, is limited by its toxicity. Fast removal of excess drug shortly after administration and site-specific drug release are potential partial solutions of this problem. As a first stage toward these solutions, several adsorption/desorption properties of CP have been determined and analyzed. The main adsorbent selected for this study was silica silylated with (3-mercaptopropyl)trimethoxysilane (MPTS). The properties of this mercapto-derivatized silica (SiSH) were compared with an organically modified silica sol−gel material (Ormosil) using MPTS as modifier and with nonderivatized silica (SiOH). Although Langmuirian at first glance, a more detailed analysis of the adsorption isotherm of the CP/SiSH system revealed a cooperative mechanism of adsorption, namely, an increase in adsorption affinity with coverage. This cooperativity was detected by employing a coverage-dependent adsorption-equilibrium constant. Active shifting of the adsorption equilibrium toward the desorption side was achieved with 2,3-dimercapto-1-propane sulfonic acid sodium salt in solution. On the basis of the differences in adsorption affinities between SiSH and SiOH, we demonstrated, we believe for the first time, the ability to achieve interparticle migration of an adsorbate (CP) from one matrix to another.
Induction of Multiple Myeloma-Specific Cytotoxic T Lymphocytes Using HLA-A2.1-Specific CD19 and CD20 Peptides. (2004)

Abstract We have identified novel CD19 and CD20 antigen-derived HLA-A2.1-specific immunogenic peptides, CD19150–158 (KLMSPKLYV) and CD20188–196 (SLFLGILSV), for generating cytotoxic T lymphocytes (CTLs) against malignant B-cell diseases. Initial testing showed that the CTLs displayed antigen-specific and HLA-A2.1-restriced cytotoxic activity against both Burkitt’s lymphoma and chronic lymphoid leukemia cell lines. The observed cytotoxic activity of the CTLs was shown to be specific to the CD19150–158 or the CD20188–196 peptides. Additionally, the CTLs displayed a distinct phenotype (majority CD69+/CD45RO+) along with a significant (p&amp;lt;0.05) increase in cell proliferation and IFN-γ release following re-stimulation with HLA-A2.1+/CD19+/CD20+ tumor cell lines. Based on emerging information that clonogenic myeloma cells express CD19 and/or CD20, we evaluated the activity of the CD19 and CD20 peptide specific-CTLs against several multiple myeloma cell lines. Five of 10 myeloma cell lines evaluated were HLA-A2.1-positive and expressed both CD19 and CD20 antigens. CD19 peptide specific-CTLs generated from normal donors were able to specifically lyse CD19+/HLA-A2.1+ MM cell lines (30% lysis; 10:1 E:T ratio) but did not lyse CD19−/HLA-A2.1+ or CD19+/HLA-A2.1− cell lines. Similarly, the CD20-specific CTLs generated from normal donors lysed CD20+/HLA-A2.1+ MM cell lines (25% lysis; 10:1 E:T ratio), in a manner restricted to HLA-A2.1 and specific to antigens. We next showed IFN-γ production by the CTLs after exposure to CD19+/HLA-A2.1+ or CD20+/HLA-A2.1+ MM cells. Moreover, we have demonstrated the ability to expand CD20-CTLs under serum-free culture conditions while maintaining their cytotoxic activity (28–49%). In ongoing studies, we are evaluating the ability of CD19- and CD20-specific CTLs to eliminate clonogenic myeloma cells in vitro and in vivo in a SCID mouse model of myeloma. These preclinical studies strongly suggest that immunogenic CD19 and CD20 peptide-based vaccines represent a promising immunotherapeutic approach in myeloma.
Evaluation of Thermal Strain Caused by Nb<sub>3</sub>Sn Reaction Heat Treatment for the ITER Cable-in-conduit Conductors (2007)

Cable-in-conduit (CIC) conductors using Nb3Sn strands will be used in ITER toroidal field (TF) coils. Heat treatment generates thermal strain in CIC conductors because of the difference of the thermal expansion between the Nb3Sn strands and the stainless steal jacket. The TF coil winding fabrication method and design of the conductor joint should be determined while taking into account the elongation/shrinkage of the CIC conductor and its residual force as the result of thermal strain. The authors developed a new apparatus to evaluate these factors, and the conductors for the TF coils were measured. The maximum elongation/shrinkage of the conductors was 0.03%, and the maximum residual force was 35 kN. A winding method for the TF coil is proposed based on these results.
Pulmonary Diffusing Capacity is Unaltered in Elite Swimmers after Restricted Breathing Training (2015)

PURPOSE:To examine the effects of contolled frequency breathing (CFB) training on pulmonary diffusing capacity in an elite swimming population. METHODS:Twenty-five elite swimmers (14 males) from the University of Louisville (mean ± SD, age = 20 ± 1 yrs; body fat = 16 ± 5%, body mass index = 23 ± 2 kg/m2) were recruited to participate and were randomly divided into either the CFB group (2 breaths per 50-m, experimental) or the stroke-matched group (8 breaths per 50-m, control). At baseline, subjects, upright, inspired to TLC a test gas mixture (0.28% CO, 9.7% He, 18.8% O2, 49 ppm NO, balance N2) for 5 s before exhaling into a commercialized system to obtain pulmonary diffusing capacity for carbon monoxide (DLCO) and nitric oxide (DLNO). After the 4 week training intervention, DLCO and DLNO were measured again within 2 ± 8 hrs of the same time of day as the pre-test. The training intervention included sixteen sessions of training where each group completed 12x50-m repetitions with their prescribed breathing patterns. RESULTS: Baseline data showed that 52% (n=13) of the subjects were above the upper limits of normal (ULN, above the 95th percentile) for % predicted DLNO (71% of men) while 52% of subjects (n=13) were above ULN for % predicted DLCO (79% of men). After 35 ± 5 days of training, both groups had a non-significant increase in DLNO (95% confidence interval, −3 to +20 mL/min/mmHg, p=0.13) and DLCO (95% CI, −0.4 to +2.4 mL/min/mmHg, p=0.68). There were no significant differences between the experimental and control groups for DLNO or DLCO following the intervention compared to baseline. CONCLUSIONS: CFB training did not significantly alter diffusing capacity in elite level swimmers.
HPV E6 and E7 Mediated Regulation of HPV(–) HNSCC Cell Lines (2012)

Objective 1) Determine the capacity of HPV16 E6 and E7 viral oncoproteins to regulate cellular levels of p53 and Rb in the absence of the complete viral genome. 2) Understand the interaction between viral E6 and endogenous p53 by observing the effect of E6 on mutant p53. Method Two HPV negative HNSCC cell lines with DNA binding domain mutations of p53 were infected with lentiviral vectors containing either HPV16 E6, E7, and luciferase or luciferase alone. Naturally infected HPV16 and18 positive cell lines were evaluated as controls. Expression of p53 and Rb was evaluated with PCR and immunohistochemistry. Cell proliferation was monitored by time to confluence. Results PCR analysis of cDNA confirmed expression of E6 and E7 in the transduced and naturally infected cell populations and the absence of E6 and E7 expression in the HPV negative cell lines. E6 and E7 transduced cell lines demonstrated reduced staining intensity for p53 and Rb compared to the HPV negative parental cells. Naturally infected HPV positive cell line controls stained weakly for Rb and p53 as expected. Cell proliferation was modestly decreased in E6 and E7 transduced cell lines compared to the parental controls. Conclusion E6 and E7 viral oncoproteins affect cellular levels of p53 and Rb in the absence of a complete HPV genome. Viral E6 maintains the capacity to target p53 for degradation in HPV negative HNSCC cell lines with mutant p53. Individual oncoproteins can modify the behavior of HPV negative cell lines.
Structural basis of enzyme activity regulation by the propeptide of l-lysine α-oxidase precursor from Trichoderma viride. (2021)

Harmuful proteins are usually synthesized as inactive precursors and are activated by proteolytic processing. l-Amino acid oxidase (LAAO) is a flavoenzyme that catalyzes the oxidative deamination of l-amino acid to produce a 2-oxo acid with ammonia and highly toxic hydrogen peroxide and, therefore, is expressed as a precursor. The LAAO precursor shows significant variation in size and the cleavage pattern for activation. However, the molecular mechanism of how the propeptide suppresses the enzyme activity remains unclear except for deaminating/decarboxylating <i>Pseudomonas</i>l-phenylalanine oxidase (PAO), which has a short N-terminal propeptide composed of 14 residues. Here we show the inactivation mechanism of the l-lysine oxidase (LysOX) precursor (prLysOX), which has a long N-terminal propeptide composed of 77 residues, based on the crystal structure at 1.97 Å resolution. The propeptide of prLysOX indirectly changes the active site structure to inhibit the enzyme activity. prLysOX retains weak enzymatic activity with strict specificity for l-lysine and shows raised activity in acidic conditions. The structures of prLysOX crystals that soaked in a solution with various concentrations of l-lysine have revealed that prLysOX can adopt two conformations; one is the inhibitory form, and the other is very similar to mature LysOX. The propeptide region of the latter form is disordered, and l-lysine is bound to the latter form. These results indicate that prLysOX uses a different strategy from PAO to suppress the enzyme activity and suggest that prLysOX can be activated quickly in response to the environmental change without proteolytic processing.
Graphics Object Management in The X Window System (1990)

Abstract This paper describes a library for the creation and manipulation of geometrically defined graphical objects in The X Window System Objects are arranged in a 2.5D space, and can be transformed, made invisible or visible, or have their priority changed. Transformation of objects occurs immediately and with full damage repair, thus providing an essential requirement for the support of interactive graphics. The paper reports on an experimental implementation of the library and also discusses the implications of graphical objects in the X environment.
Toward Better Understanding of Insulin Therapy by Translation of a PK‐PD Model to Visualize Insulin and Glucose Action Profiles (2018)

Insulin replacement therapy is a fundamental treatment for glycemic control for managing diabetes. The engineering of insulin analogues has focused on providing formulations with action profiles that mimic as closely as possible the pattern of physiological insulin secretion that normally occurs in healthy individuals without diabetes. Hence, it may be helpful to practitioners to visualize insulin concentration profiles and associated glucose action profiles. Expanding on a previous analysis that established a pharmacokinetic (PK) model to describe typical profiles of insulin concentration over time following subcutaneous administration of various insulin formulations, the goal of the current analysis was to link the PK model to an integrated glucose-insulin (IGI) systems pharmacology model. After the pharmacokinetic-pharmacodynamic (PK-PD) model was qualified by comparing model predictions with clinical observations, it was used to project insulin (PK) and glucose (PD) profiles of common insulin regimens and dosing scenarios. The application of the PK-PD model to clinical scenarios was further explored by incorporating the impact of several hypothetical factors together, such as changing the timing or frequency of administration in a multiple-dosing regimen over the course of a day, administration of more than 1 insulin formulation, or insulin dosing adjusted for carbohydrates in meals. Visualizations of insulin and glucose profiles for commonly prescribed regimens could be rapidly generated by implementing the linked subcutaneous insulin PK-IGI model using the R statistical program (version 3.4.4) and a contemporary web-based interface, which could enhance clinical education on glycemic control with insulin therapy.
Cross-Linked Crystals of Candida rugosa Lipase: Highly Efficient Catalysts for the Resolution of Chiral Esters (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCross-Linked Crystals of Candida rugosa Lipase: Highly Efficient Catalysts for the Resolution of Chiral EstersJim J. Lalonde, Chandrika Govardhan, Nazer Khalaf, Aldo G. Martinez, Kalevi Visuri, and Alexey L. MargolinCite this: J. Am. Chem. Soc. 1995, 117, 26, 6845–6852Publication Date (Print):July 1, 1995Publication History Published online1 May 2002Published inissue 1 July 1995https://pubs.acs.org/doi/10.1021/ja00131a006https://doi.org/10.1021/ja00131a006research-articleACS PublicationsRequest reuse permissionsArticle Views1065Altmetric-Citations147LEARN 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
Software environments for cluster-based display systems (2002)

An inexpensive way to construct a scalable display wall system is to use a cluster of PCs with commodity graphics accelerators to drive an array of projectors. A challenge is to bring off-the-shelf sequential applications to run on such a display wall efficiently without using expensive, high-performance interconnects. We study two execution models for a scalable display wall system: master-slave and synchronized execution models. We have designed and implemented four software tools, two for each execution model, including VDD (Virtual Display Driver), GLP (GL-DLL Replacement), SSE (System-level Synchronized Execution), and ASE (Application-level Synchronized Execution). In order to support the synchronized execution model, we have also designed a broadcast, speculative file cache to provide scalable I/O performance. We report our experimental results with several 3D applications on the display wall to understand the performance implications and tradeoffs of these methods.
Entangling an arbitrary pair of qubits in a long ion crystal (2018)

It is well established that the collective motion of ion crystals can be used as a quantum bus for multiqubit entanglement. However, as the number of ions increases, it becomes difficult to directly entangle ions far apart and resolve all motional modes of the ion crystal. We introduce a scalable and flexible scheme for efficient entanglement between any pair of ions within a large ion chain, using an evenly distributed 50-ion crystal as an example. By performing amplitude and frequency modulation, we find high-fidelity pulse sequences that primarily drive a transverse motional mode with a wavelength of four ion spacings. We present two $500\phantom{\rule{0.28em}{0ex}}\ensuremath{\mu}\mathrm{s}$ pulses that can in theory suppress gate errors due to residual motion to below ${10}^{\ensuremath{-}4}$, and observe a trade-off between gate power and robustness against unwanted frequency offsets.
Pairwise data clustering by deterministic annealing (1997)

Partitioning a data set and extracting hidden structure from the data arises in different application areas of pattern recognition, speech and image processing. Pairwise data clustering is a combinatorial optimization method for data grouping which extracts hidden structure from proximity data. We describe a deterministic annealing approach to pairwise clustering which shares the robustness properties of maximum entropy inference. The resulting Gibbs probability distributions are estimated by mean-field approximation. A new structure-preserving algorithm to cluster dissimilarity data and to simultaneously embed these data in a Euclidian vector space is discussed which can be used for dimensionality reduction and data visualization. The suggested embedding algorithm which outperforms conventional approaches has been implemented to analyze dissimilarity data from protein analysis and from linguistics. The algorithm for pairwise data clustering is used to segment textured images.
Supplemental Figure 4 from PARP Inhibitor Activity Correlates with <i>SLFN11</i> Expression and Demonstrates Synergy with Temozolomide in Small Cell Lung Cancer (2023)

&lt;p&gt;Animal weights from dose finding toxicity study of talazoparib and temozolomide; and SLFN11 protein expression in patient-derived xenografts.&lt;/p&gt;
Supplementary Figure from Stress Granules Determine the Development of Obesity-Associated Pancreatic Cancer (2023)

Supplementary Figure from Stress Granules Determine the Development of Obesity-Associated Pancreatic Cancer
Smart integration and packaging of 2D VCSEL's for high-speed parallel links (1999)

This paper reviews recent progress in the integration and packaging of two-dimensional (2D) vertical-cavity surface-emitting laser (VCSEL) arrays being developed for the use in high-speed parallel optical interconnections. It reviews the smart integration of VCSEL's with detecting, switching and latching functions through the integration of a VCSEL-thyristor and double-cavity phototransistor. It also describes self-alignment-packaging technologies for 2D VCSEL module that can be used in high-density parallel links. Various system applications, such as a distributed fiber switch used to enable crossbar interconnections with address switching functions and hyper-parallel transmission using an image fiber, are also examined.
A preliminary study on a new lightweight and flexible sensing sock for gait analysis (2020)

Early diagnosis and the possibility of effective monitoring during therapy are the keys to better treat patients and reduce healthcare costs in many pathologies such as neurodegen-erative or musculoskeletal disorders. Gait analysis represents a useful and minimally invasive way to detect these diseases and to control the progress of pathologies. Current systems, however, are obtrusive, not usable in daily context, expensive and often require an expert operator. For these reasons, we developed Ephi SPA, a sock for gait analysis sensorized through textile pressure sensors. The developed prototype is described and preliminarily tested on a healthy subject to demonstrate the capability to detect signals related to the subject's gait cycle.
A graphical user interface toolkit approach to thin-client computing (2002)

Network and server-centric computing paradigms are quickly returning to being the dominant methods by which we use computers. Web applications are so prevalent that the role of a PC today has been largely reduced to a terminal for running a client or viewer such as a Web browser. Implementers of network-centric applications typically rely on the limited capabilities of HTML, employing proprietary "plug ins" or transmitting the binary image of an entire application that will be executed on the client. Alternatively, implementers can develop without regard for remote use, requiring users who wish to run such applications on a remote server to rely on a system that creates a virtual frame buffer on the server, and transmits a copy of its raster image to the local client.We review some of the problems that these current approaches pose, and show how they can be solved by developing a distributed user interface toolkit. A distributed user interface toolkit applies techniques to the high level components of a toolkit that are similar to those used at a low level in the X Window System. As an example of this approach, we present RemoteJFC, a working distributed user interface toolkit that makes it possible to develop thin-client applications using a distributed version of the Java Foundation Classes.
Two pathways of p27 Kip1 degradation are required for murine lymphoma driven by Myc and EBV latent membrane protein 2A (2019)

Abstract Epstein-Barr virus (EBV) latent membrane protein 2A (LMP2A), expressed in EBV latency, contributes to Burkitt Lymphoma (BL) development in a murine model by acting as a constitutively active B cell receptor (BCR) mimic. Mice expressing both LMP2A and MYC transgenes (LMP2A/λ- MYC ) develop tumors significantly faster than mice only expressing MYC (λ- MYC ). Previously, we demonstrated the cell cycle inhibitor p27 Kip1 is present at significantly lower levels in LMP2A/λ- MYC mice due to increased post-translational degradation. P27 Kip1 degradation can occur in the cytoplasm following phosphorylation on serine 10 (S10), or in the nucleus via the SCF Skp2 complex, which depends on Cks1. We previously demonstrated a S10A knock-in of p27 Kip1 (p27 S10A/S10A ), which prevented S10 phosphorylation, failed to significantly delay tumor onset in LMP2A/λ- MYC mice. We also previously demonstrated that a Cks1 knockout partially delayed tumor onset in LMP2A/λ- MYC mice, but onset was still significantly faster than in λ- MYC mice. Here, we have combined both genetic manipulations in what we call p27 Super mice. LMP2A/λ- MYC /p27 Super mice and λ- MYC /p27 Super mice both displayed dramatic delays in tumor onset. Strikingly, tumor development in LMP2A/λ- MYC /p27 Super mice was later than in λ- MYC mice and not significantly different from λ- MYC /p27 Super mice. The p27 Super genotype also normalized G 1 -S phase cell cycle progression, spleen size, and splenic architecture in LMP2A/λ- MYC mice. Our results reveal both major pathways of p27 Kip1 degradation are required for the accelerated BL development driven by LMP2A in our BL model and that blocking both degradation pathways is sufficient to delay Myc-driven tumor development with or without LMP2A. Importance Burkitt lymphoma (BL) is a cancer that primarily affects children. The side effects of chemotherapy highlight the need for better BL treatments. Many BL tumors contain Epstein-Barr virus (EBV) and our goal is to determine what makes EBV-positive BL different from EBV-negative BL. This may lead to more specific treatments for both types. All cases of BL require overexpression of MYC . Mice engineered to express an EBV LMP2A along with MYC (LMP2A/λ- MYC mice) develop tumors much more quickly than mice only expressing MYC (λ- MYC mice). Blocking degradation of the cell cycle inhibitor protein p27 Kip1 in LMP2A/λ- MYC mice causes tumors to develop later than in λ- MYC mice, showing that p27 Kip1 degradation may play a larger role in EBV-positive BL than EBV-negative. Furthermore, our studies suggest the cell cycle may be an attractive target as a treatment option for LMP2A positive cancers in humans.