gebhart/patrepeval huggingface dataset:
...and eat it too (2009)

As HPC applications run on increasingly high process counts on larger and larger machines, both the frequency of checkpoints needed for fault tolerance [14] and the resolution and size of Data Analysis Dumps are expected to increase proportionally. In order to maintain an acceptable ratio of time spent performing useful computation work to time spent performing I/O, write bandwidth to the underlying storage system must increase proportionally to this increase in the checkpoint and computation size. Unfortunately, popular scientific self-describing file formats such as netCDF [8] and HDF5 [3] are designed with a focus on portability and flexibility. Extra care and careful crafting of the output structure and API calls is required to optimize for write performance using these APIs. To provide sufficient write bandwidth to continue to support the demands of scientific applications, the HPC community has developed a number of I/O middleware layers, that structure output into write-optimized file formats. However, the obvious concern with any write optimized file format would be a corresponding penalty on reads. In the log-structured filesystem [13], for example, a file generated by random writes could be written efficiently, but reading the file back sequentially later would result in very poor performance. Simulation results require efficient read-back for visualization and analytics, and though most checkpoint files are never used, the efficiency of a restart is very important in the face of inevitable failures. The utility of write speed improving middleware would be greatly diminished if it sacrificed acceptable read performance. In this paper we examine the read performance of two write-optimized middleware layers on large parallel machines and compare it to reading data natively in popular file formats.
Seismic Monitoring and Verification for the CO2CRC Otway Basin Project, Part 2: acquisition and analysis of borehole seismic data (2009)

The Otway Project conducted under the Australian Cooperative Research Centre for Greenhouse Gas Technologies (CO2CRC) is the first of its kind, where CO2 is injected into a depleted gas reservoir. The use of depleted fields for CO2 storage is likely to become widely adopted globally and, therefore, the project will provide important experience for monitoring under these conditions. However, such scenario is not favorable for the application of geophysical techniques for the purpose of CO2 monitoring and verification (M&V) because the injection of CO2 into a CH4 depleted reservoir is modeled to produce very subtle changes in elastic properties of the reservoir rock which may be very difficult to measure. Consequently geophysical program for the Otway site was design according to the expected time-lapse effects. It combines both surface and borehole seismic methods. Surface seismic should provide a global vision of the underground and an indirect confirmation of the CO2 containment by recording no differences between the successive time-lapse experiments. Vertical Seismic Profile (VSP) surveys are expected to provide an improved characterization of the reservoir and hopefully a direct indication of the fluid distribution and/or its potential upward migration along the reservoir bounding fault pattern. Indeed the results of the current analysis of both pre-base line (test) and base-line 2D and 3D VSP data are encouraging. The availability of vector wave field (three-component) data recorded in VSP surveys should significantly improve the outcomes of M&V program at Naylor site.
Strained In0.53Ga0.47As metal-oxide-semiconductor field-effect transistors with epitaxial based biaxial strain (2012)

We have demonstrated epitaxial-based biaxially strained In0.53Ga0.47As metal-oxide-semiconductor field-effect transistors (MOSFETs). Tensile strained In0.53Ga0.47As MOSFETs shows a high peak mobility of 2150 cm2/Vs with the enhancement factor of 3.7 against Si MOSFETs. Furthermore, we have investigated the mobility enhancement mechanisms in the tensile strained In0.53Ga0.47As MOSFETs. It has been found that biaxial tensile strain is effective to enhance the electron mobility in InGaAs MOSFETs by an increase of inversion carrier density, which is caused by the modulation of conduction band minimum.
2. (Nonverbale musikbasierte) Traumapädagogik als Kernkompetenz der stationären Kinder- und Jugendhilfe (2019)

Mit Musik gemeinsam gegen das Trauma: Rhythmisches Musizieren in der Gruppe zielt als nonverbale traumapädagogische Intervention auf die Förderung und Steigerung der (Selbst-)Heilungsressourcen gewalterfahrener und traumatisierter Jugendlicher in der stationären Kinder- und Jugendhilfe.
Two-year follow-up of KTE-X19 in patients with relapsed or refractory adult B-cell acute lymphoblastic leukemia in ZUMA-3 and its contextualization with SCHOLAR-3, an external historical control study (2022)

Abstract Background Brexucabtagene autoleucel (KTE-X19) is an autologous anti-CD19 CAR T-cell therapy approved in the USA to treat adult patients with relapsed or refractory B-precursor acute lymphoblastic leukemia (R/R B-ALL) based on ZUMA-3 study results. We report updated ZUMA-3 outcomes with longer follow-up and an extended data set along with contextualization of outcomes to historical standard of care. Methods Adults with R/R B-ALL received a single infusion of KTE-X19 (1 × 10 6 CAR T cells/kg). Long-term post hoc subgroup assessments of ZUMA-3 were conducted. Outcomes from matched patients between historical clinical trials and ZUMA-3 patients were assessed in the retrospective historical control study SCHOLAR-3. Results After 26.8-months median follow-up, the overall complete remission (CR) rate (CR + CR with incomplete hematological recovery) among treated patients ( N = 55) in phase 2 was 71% (56% CR rate); medians for duration of remission and overall survival (OS) were 14.6 and 25.4 months, respectively. Most patients responded to KTE-X19 regardless of age or baseline bone marrow blast percentage, but less so in patients with &gt; 75% blasts. No new safety signals were observed. Similar outcomes were observed in a pooled analysis of phase 1 and 2 patients ( N = 78). In SCHOLAR-3, the median OS for treated patients from ZUMA-3 ( N = 49) and matched historical controls ( N = 40) was 25.4 and 5.5 months, respectively. Conclusions These data, representing the longest follow-up of CAR T-cell therapy in a multicenter study of adult R/R B-ALL, suggest that KTE-X19 provides a clinically meaningful survival benefit with manageable toxicity in this population. Trial Registration : NCT02614066.
Extraction of leukocyte in a cell image with touching red blood cells (2005)

The main difficulty in segmenting a cell image occurs when there are red blood cells touching the leukocyte. Similar brightness of the touched red blood cells with the leukocytes make the separation of the cytoplasm from the red blood cells quite difficult. Conventional approaches were based on the search of the concavities created by contact of two round boundaries as two points to be connected for the separation. Here, we exploit the fact that the boundary of the leukocytes normally has a round shape and a small portion of it is disconnected due to the touching red blood cells. Specifically, at an initial central point of the nucleus in the leukocyte, we can generate the largest possible circle that covers a circular portion of the composite of nucleus and cytoplasm areas. Then, by perturbing the initial central points and selecting only those central points that do not cross the boundary, we can cover most of interior regions in the nucleus and the cytoplasm, separating the leukocyte from the touching red blood cells.
Electrical Conductivity of Multicomponent Systems During Ohmic Heating (2008)

During ohmic heating, the heating rate of a product depends on its electrical conductivity, a temperature dependent property. The electrical conductivity of the individual components in a multicomponent food system was determined over the entire sterilization temperature range (25−140°C). The product selected was chicken chowmein, composed of chicken, celery, mushrooms, water chestnuts, bean sprouts, and chowmein-style sauce. A device was developed to measure electrical conductivities of the components over the required temperature range. Results showed that the sauce (2.1 S/m at 27°C to 10.8 S/m at 140°C) was much more conductive than the solid components, i.e., celery (0.1 S/m to 3.4 S/m), water chestnut (0.1 S/m to 2.8 S/m), mushrooms (0.2 S/m to 1.4 S/m), bean sprouts (0.2 S/m to 1.5 S/m) and chicken (0.6 S/m to 3.4 S/m). Variation in electrical conductivity was also observed between different samples of the same component.
Hot-Electron-Driven Charge Transfer Processes on Surfaces (2002)

Chemistry driven by intense ultrafast pulses (femtochemistry) is distinguished from conventional phonon-mediated chemical reactions in that the product yield can be greatly enhanced and more importantly, new chemical reaction pathways can be accessed [1]. In a surface-adsorbate system, non-equilibrium or “hot” electrons created by a femtosecond pulse can drive these reactions[2]; however, direct, time-resolved observation of hot-electron-driven reactions has proven to be difficult. Here, we present time-resolved observations of a hot-electron driven change of adsorbate molecules (O 2 ) on a metal surface (Pt) from one chemisorbed species to another. The process of time-resolved ultraviolet photoelectron spectroscopy makes it possible to observe both electronic energy relaxation, and structural changes in the surface/adsorbate, on their fundamental, femtosecond timescales.
Implication of Protein Carboxymethylation in Retinal Pigment Epithelial Cell Chemotaxis (1988)

Two chemoattractants for retinal pigment epithelial (RPE) cells, fibronectin (FN) and platelet-derived growth factor (PDGF) were found to enhance protein carboxymethylation mediated by S-adenosyl-L-methionine in RPE cells measured by [3H]methanol hydrolyzed from TCA precipitable protein methyl esters labelled with [3H]methionine. The effect was rapid, peaking at 2 min when [3H]methanol production was enhanced 120% by FN and 150% by PDGF. Erythro-9-(2-hydroxy-3-nonyl) adenine (EHNA; 10 microM), adenosine (100 microM), and L-homocysteine thiolactone (100 microM) inhibited FN-induced carboxymethylation by 60%, and PDGF-induced carboxymethylation by 59%. In modified Boyden chamber assays, the combination of EHNA (10 microM), adenosine (100 microM), and L-homocysteine thiolactone (100 microM) markedly inhibited FN-induced chemotaxis by 88% and PDGF-induced chemotaxis by 93%). Migration of RPE cells has been implicated in the pathogenesis of proliferative vitreoretinopathy (PVR). Inhibition of protein carboxymethylation may provide a new target in the development of pharmacologic therapy for PVR.
Analysis of Temperature Rise Induced by High-Intensity Focused Ultrasound in Tissue-Mimicking Gel Considering Cavitation Bubbles (2013)

High-intensity focused ultrasound (HIFU) causes a selective temperature rise in tissue and is used as a noninvasive method for tumor treatment. However, there is a problem in that it typically takes several hours to treat a large tumor. The development of a highly efficient method is required to shorten the treatment time. It is known that cavitation bubbles generated by HIFU enhance HIFU heating. In this study, the enhancement of the heating effect by cavitation was estimated in a numerical simulation solving a bio-heat transfer equation (BHTE) by increasing the absorption coefficients in and out of the volume of cavitation bubbles. The absorption coefficients were obtained by a curve fitting the temperature rise near the focal point between experiment and simulation. The results show that cavitation bubbles caused the increase in ultrasonic absorption not only in but also near the volume of cavitation bubbles.
Recent progress in 193-nm antireflective coatings (1999)

This paper presents the chemistries and properties of organic, spin-on, bottom antireflective coatings (BARCs) that are designed for 193 nm lithography. All of the BARCs are thermosetting and use dye-attached/incorporated polymers. A first generation product, NEXT, will soon be commercialized. NEXT is built form i-line and deep-UV chemistries with the polymeric constituent being a substitute novolac. This product provide outstanding resolution of 0.16 micrometers L/S with several 193 nm photoresists. Second generation chemical platforms under study include acrylics, polyesters, and polyethers with the 193 nm absorbing chromophore being an aromatic function. The performance of selected BARCs from the four platforms is described, including: optical properties, 193 nm litho, plasma etch rates, Prolith modeling data, spin-bowl and waste line compatibility, and ambient stability.
AB INITIO MOLECULAR ORBITAL CALCULATION OF THE DIPOLE MOMENT FUNCTION OF OZONE (1975)

Author Institution: Battelle Memorial Institute
<title>High-brightness AlGaInN light-emitting diodes</title> (2000)

Currently, commercial LEDs based on AlGaInN emit light efficiently from the ultraviolet-blue to the green portion of the visible wavelength spectrum. Data are presented on AlGaInN LEDs grown by organometallic vapor phase epitaxy (OMVPE). Designs for high-power AlGaInN LEDs are presented along with their performance in terms of output power and efficiency. Finally, present and potential applications for high-power AlGaInN LEDs, including traffic signals and contour lighting, are discussed.
Gemcitabine and Oxaliplatin in Patients With Pancreatic Adenocarcinoma (2005)

The combination of GEM and OXA was well tolerated and showed a promising activity in patients with advanced pancreatic adenocarcinoma; no sequence-dependent pharmacokinetic interaction occurred when comparing the GEM-OXA versus the OXA-GEM sequence, with a 24-hour interval.
To Market, to Market—2020: Small Molecules (2021)

Medicinal Chemistry Reviews is an outstanding 965 page volume providing timely and critical reviews of important topics in medicinal chemistry. It is provided free of charge to MEDI members in electronic format. Members can also order a print copy, for the cost of printing, shipping and handling
BslA, the S‐layer adhesin of B. anthracis, is a virulence factor for anthrax pathogenesis (2009)

Microbial pathogens use adhesive surface proteins to bind to and interact with host tissues, events that are universal for the pathogenesis of infectious diseases. A surface adhesin of Bacillus anthracis, the causative agent of anthrax, required to mediate these steps has not been discovered. Previous work identified BslA, an S-layer protein, to be necessary and sufficient for adhesion of the anthrax vaccine strain, Bacillus anthracis Sterne, to host cells. Here we asked whether encapsulated bacilli require BslA for anthrax pathogenesis in guinea pigs. Compared with the highly virulent parent strain B. anthracis Ames, bslA mutants displayed a dramatic increase in the lethal dose and in mean time-to-death. Whereas all tissues of animals infected with B. anthracis Ames contained high numbers of bacilli, only few vegetative forms could be recovered from internal organs of animals infected with the bslA mutant. Surface display of BslA occurred at the poles of encapsulated bacilli and enabled the binding of vegetative forms to host cells. Together these results suggest that BslA functions as the surface adhesin of the anthrax pathogen B. anthracis strain Ames.
CT Findings in Cystic Schwannoma of the Pancreas (1992)

Cystic neoplasms of the pancreas are relatively rare, accounting for ∼1% of all pancreatic malignancies and 10-15% of all pancreatic cysts (1,2). We present a case of a cyctic schwannoma of the pancreas, detected by CT
18 3/4" 15000 Psi Shear Anything KBOS for Subsea Well Applications (2021)

Abstract Kinetic Pressure Control has developed the 18 ¾" 15000 psi blowout stopper (KBOS) system for applications on all subsea well activities. The 18 ¾" 15000 psi systems builds upon the successful development of the 5-1/8" 15000 psi KBOS system for surface BOP applications[5]. The system can be configured within the existing subsea BOP, by replacing a casing shear ram or blind shear ram, or can be configured as a shut-in device below the BOP. The KBOS system provides a significant improvement over existing shear ram technology, providing the ability to shear/seal any items in the wellbore, which reduces the likelihood of a blowout, resulting in an improved risk profile. The KBOS is a proprietary design which uses a pyro-technical, electrically initiated process the actuate the shearing process. The system has been designed and tested to actuate and shear/seal in milliseconds, under full wellbore flowing conditions and meets NACE/ISO sour service requirements without exemptions. The control system includes real-time monitoring and function testing capabilities, and requires minimal in-service maintenance, as the working components are isolated from the wellbore fluids. A computational predictive model has been developed, with a test regime conducted to validate the model results. A full qualification program, with 3rd party certification, has been completed to industry standards. Shearing tests have been conducted for a large range of tubulars which have been challenging to shear with existing technology. These include: 9 ½" drill collars, combinations of large OD casing and inner strings, high strength drill pipe and tool joints, wireline, and production tubing. A subsea test of the system was successfully performed in 2019 to shear large OD casing and inner string. The KBOS system utilizes technology from other industries (ballistics, military, automotive) to provide improved shearing and sealing capabilities for all well activities (drilling, completion, intervention). The improved shearing/sealing capacity and reduced time enable a reduced likelihood of a blowout and improved risk profile
Time for an individualized approach to first-line management of follicular lymphoma (2022)

Follicular lymphoma is a heterogeneous B-cell lymphoma both in presentation and at progression. For most patients it is a chronic, relapsing indolent disease with overall survival expectations now potentially beyond 20 years. However, in a significant minority (~20%) who experience early progression or histological transformation after treatment, the disease no longer has an indolent behavior. This review looks at the development of prognostic indices, staging and therapies for follicular lymphoma, identifying where the data can, and cannot, guide the multidisciplinary team to determine an individualized approach to first-line therapy. A nuanced patient- and disease-specific approach is necessary to maximize disease response and survival while minimizing therapeutic toxicity.
Regioselective Preparation of 3‐Alkoxy‐4,5‐difluoroanilines by SNAr (2012)

Abstract A simple and scalable procedure to introduce alcohols selectively at the 3‐position of 3,4,5‐trifluoroaniline is described. The procedure uses powdered NaOH as base and catalytic 15‐crown‐5 in refluxing toluene with a Dean–Stark trap. A short exploration of other nucleophiles and fluoroaryl electrophiles is also described.
Coverage Analysis of Multi-Stream MIMO HetNets With MRC Receivers (2017)

Most of the current research on the coverage performance of multi-stream MIMO heterogeneous networks (HetNets) has focused on a single data-stream. This does not always provide accurate results as our analysis show the cross-stream correlation due to interference can greatly affect the coverage performance. This paper analyzes the coverage probability in such systems, and studies the impact of cross-stream correlation. Specifically, we focus on the max-SIR cell association policy and leverage stochastic geometry to study scenarios, whereby a receiver is considered in the coverage, if all of its data-streams are successfully decodeable. Assuming open-loop maximum ratio combining (MRC) at receivers, we consider the cases where partial channel state information is available at the receiver. We then obtain an upper-bound on the coverage and formulate cross-stream SIR correlation. We further show that approximating such systems based on fully-correlated (non-correlated) data-streams results in a slight underestimation (substantial overestimation) of the coverage performance. Our results provide insights on the multiplexing regimes where densification improves the coverage performance and spectral efficiency. We also compare MRC with more complex zero-forcing receiver and provide quantitative insights on the design tradeoffs. Our analysis is validated via extensive simulations.
Three-dimensional structural characterization of centrosomes from early Drosophila embryos. (1995)

An understanding of the mechanism and structure of microtubule (MT)-nucleating sites within the pericentriolar material (PCM) of the centrosome has been elusive. This is partly due to the difficulty in obtaining large quantities of centrosomes for analysis, as well as to the problem of attaining interpretable structural data with conventional EM techniques. We describe a protocol for isolating a large quantity of functional centrosomes from early Drosophila embryos. Using automated electron tomography, we have begun a three-dimensional structural characterization of these intact centrosomes with and without regrown MTs. Reconstructions of the centrosomes to approximately 6-8 nm resolution revealed no large structures at the minus ends of MTs, suggesting that if MT-nucleating material physically contacts the MTs, it must conform closely to the shape of the minus end. While many MTs originate near the centrioles, MT minus ends were found throughout the PCM, and even close to its outer boundary. The MTs criss-crossed the PCM, suggesting that nucleating sites are oriented in many different directions. Reconstructions of centrosomes without MTs suggest that there is a reorganization of the PCM upon MT regrowth; moreover, ring-like structures that have a similar diameter as MTs are apparent in the PCM of centrosomes without MTs, and may be MT-nucleating sites.
Supplementary Figure 1 from The Nuclear Receptor Coactivator Amplified in Breast Cancer-1 Is Required for <i>Neu</i> (ErbB2/HER2) Activation, Signaling, and Mammary Tumorigenesis in Mice (2023)

Supplementary Figure 1 from The Nuclear Receptor Coactivator Amplified in Breast Cancer-1 Is Required for &lt;i&gt;Neu&lt;/i&gt; (ErbB2/HER2) Activation, Signaling, and Mammary Tumorigenesis in Mice