gebhart/patrepeval huggingface dataset:
Supplementary Figure S4 from Preclinical Evidence That 3′-Deoxy-3′-[<sup>18</sup>F]Fluorothymidine PET Can Visualize Recovery of Hematopoiesis after Gemcitabine Chemotherapy (2023)

&lt;p&gt;Preliminary analysis of other thymidine metabolism proteins did not indicate their involvement in changes in [18F]FLT in hematopoietic compartments after gemcitabine therapy.&lt;/p&gt;
Refractive-Index Tuning of Highly Fluorescent Carbon Dots (2017)

In this manuscript, we report the refractive-index (RI) modulation of various concentrations of nitrogen-doped carbon dots (N@C-dots) embedded in poly(vinyl alcohol) (PVA) polymer. The dispersion and size distribution of N@C-dots embedded within PVA have been investigated using electron microscopy. The RI of PVA-N@C-dots can be enhanced by increasing the doping concentration of highly fluorescent C-dots (quantum yield 44%). This is demonstrated using ultraviolet-visible (UV-visible), photoluminscence, Raman, and Fourier transform infrared (FTIR) spectroscopy measurements. The Mie scattering of light on N@C-dots was applied for developing the relationship between RI tuning and absorption cross section of N@C-dots. The extinction cross section of N@C-dot thin films can be rapidly enhanced by either tuning the RI or increasing the concentration of N@C-dots. The developed method can be used as effective RI contrast for various applications such as holography creation and bioimaging.
Small-molecule Binding to the DNA Minor Groove Is Mediated by a Conserved Water Cluster (2012)

High-resolution crystal structures of the DNA duplex sequence d(CGCGAATTCGCG)(2) complexed with three minor-groove ligands are reported. A highly conserved cluster of 11 linked water molecules has been found in the native and all 3 ligand-bound structures, positioned at the boundary of the A/T and G/C regions where the minor groove widens. This cluster appears to play a key structural role in stabilizing noncovalently binding small molecules in the AT region of the B-DNA minor groove. The cluster extends from the backbone phosphate groups along the mouth of the groove and links to DNA and ligands by a network of hydrogen bonds that help to maintain the ligands in position. This arrangement of water molecules is distinct from, but linked by, hydrogen bonding to the well-established spine of hydration, which is displaced by bound ligands. Features of the water cluster and observed differences in binding modes help to explain the measured binding affinities and thermodynamic characteristics of these ligands on binding to AT sites in DNA.
The tactile contact lens (2006)

This paper introduces a device for enhancing tactile perception of surface undulation. This device, which we call a "tactile contact lens," is composed of a sheet and numerous pins arranged on one side of the sheet. Our experimental results show that a small bump on a surface can be detected more accurately through this device than by bare finger and than through a flat sheet. A mathematical analysis of this phenomenon suggests two causes of this phenomenon. One cause is a lever-like behavior of the pins, which converts the local inclination of the object surface into the tangential displacement on the skin surface. The second cause is the spatial aliasing effect resulting from the discrete contact, by which the temporal change in the skin surface displacement is efficiently transduced into the temporal change in the skin tissue strain. The result of the analysis is discussed in relation to other sensitivity-enhancing materials, tactile sensing mechanisms, and tactile/haptic display devices.
Spectroscopic Evidence of Pairing Gaps to 60 Kelvin or Above in Surface-Doped p-Terphenyl Crystals (2017)

The possibility of high temperature superconductivity in organic compounds has been discussed since the pioneering work of Little in 1964, with minimal progress until the recent reports of a weak Meissner shielding effect to 43 Kelvin and then 120 Kelvin in potassium-doped para-terphenyl samples. To date however, no other signals of the superconductivity have been shown, including the zero resistance state or evidence for the formation of the Cooper pairs that are inherent to the superconducting state. Here, using high resolution photoemission spectroscopy on potassium surface-doped p-terphenyl crystals, we show spectroscopic evidence for pairing gaps at the surfaces of these materials, with the gaps persisting to 60 K or above. Together with the Meissner signal reported in ref. 3, this greatly increases the likelihood of high temperature superconductivity in organics, opening the field up for future study of the mechanism of this pairing as well as for the possible application of earth-abundant plastic superconducting devices.
Dominant negative effect of polyglutamine expansion perturbs normal function of ataxin-3 in neuronal cells (2014)

The physiological function of Ataxin-3 (ATXN3), a deubiquitylase (DUB) involved in Machado-Joseph Disease (MJD), remains elusive. In this study, we demonstrate that ATXN3 is required for neuronal differentiation and for normal cell morphology, cytoskeletal organization, proliferation and survival of SH-SY5Y and PC12 cells. This cellular phenotype is associated with increased proteasomal degradation of α5 integrin subunit (ITGA5) and reduced activation of integrin signalling and is rescued by ITGA5 overexpression. Interestingly, silencing of ATXN3, overexpression of mutant versions of ATXN3 lacking catalytic activity or bearing an expanded polyglutamine (polyQ) tract led to partially overlapping phenotypes. In vivo analysis showed that both Atxn3 knockout and MJD transgenic mice had decreased levels of ITGA5 in the brain. Furthermore, abnormal morphology and reduced branching were observed both in cultured neurons expressing shRNA for ATXN3 and in those obtained from MJD mice. Our results show that ATXN3 rescues ITGA5 from proteasomal degradation in neurons and that polyQ expansion causes a partial loss of this cellular function, resulting in reduced integrin signalling and neuronal cytoskeleton modifications, which may be contributing to neurodegeneration.
Hardware Verification of an Ultra-miniature Computational Diffractive Imager (2014)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text P. R. Gill and D. G. Stork, "Hardware Verification of an Ultra-miniature Computational Diffractive Imager," in Classical Optics 2014, OSA Technical Digest (online) (Optical Society of America, 2014), paper CTu3C.4. Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
eNOVATION AT UI HEALTH CARE. (2018)

The mission of University of Iowa Health Care, simply stated, is: Changing Medicine. Changing Lives.@ And in Iowa - a predominantly rural state with an aging population - changing medicine to improve the lives of all Iowans means identifying new opportunities for the delivery of world-class medical care beyond our Iowa City campus. Enter Ul Health Care's eHealth and eNovation Center@ - a pioneering telemedicine initiative founded in 2013 that links rural hospitals and physicians in Iowa with specialists at University of Iowa Hospitals and Clinics (UIHC) in real time.
Stress in undoped LPCVD polycrystalline silicon (2002)

The effect of processing conditions on stress in undoped LPCVD polycrystalline silicon films was investigated. Films were deposited at temperatures between 605 and 700 degrees C and pressures from 300 to 550 mtorr, with varying silane flow rate and deposition time. Low temperatures produced tensile films, while temperatures greater than about 620 degrees C resulted in compressive stress. Film thickness and deposition pressure also affect the stress rate. By removing film layers with a plasma etch, the stress profile through the film thickness was determined. Tension results when silicon atoms deposit in the amorphous state and subsequently crystallize, but thermal stress, due to differences in expansion coefficient between the film and substrate, is ruled out as significant contributor to the film stress. By superposing the crystallization stress and a compressive intrinsic stress component that decreases with temperature, the observed stress trend is obtained.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Na+/myo-inositol symporters and Na+/H+-antiport in Mesembryanthemum crystallinum (2000)

Mitr1 and Mitr2 from Mesembryanthemum crystallinum (common ice plant) are members of a family of genes homologous to H+[or Na+]/myo-inositol symporters (ITRs), not previously studied in plants. MITR1 complemented an Itr1-deficient yeast strain. Mitr1 is strongly expressed in roots, moderately in stems, and weakly in leaves. Its transcripts increased in all organs, most dramatically in roots, under salinity stress. Mitr2 constitutes a rare transcript, slightly upregulated by salt stress in leaves only. Mitr1 transcripts are present in all cells in the root tip, but become restricted to phloem-associated cells in mature roots. Peptide antibodies against the two proteins indicated the presence of MITR1 in all organs and of MITR2 in leaves. Both are located in the tonoplast. MITR1 acts in removing sodium from root vacuoles, correlated with findings of low root sodium, while leaf vacuoles accumulate sodium in the ice plant. Up-regulation in leaves and stems is also found for Na+/H+-antiporter (Nhx-type) transcripts. Under comparable stress conditions, Nhx-and Itr-like transcripts in Arabidopsis were regulated differently. In the ice plant, co-ordinate induction of Na+/H+-antiporters and Na+/myo-inositol symporters transfers sodium from vacuoles in root cells into the leaf mesophyll as a halophytic strategy that lowers the osmotic potential. The tissue-specific differential expression of Itr- and Nhx-type transcripts suggests that the vacuolar sodium/inositol symporters function to reduce sodium amounts in cells of the root and vascular tissue, while sodium/proton antiporters in leaf tissues function to partition sodium into vacuoles for storage.
Ion Current Measurements as a Method for the Detection of the Reaction Rate in Combustion With Swirl Stabilized Airblast Injection Systems (2015)

Due to strict emission legislation, the trend in the development of aero-engine gas turbine combustion is heading towards lean burning approaches. Lean combustion reduces the combustion temperatures and therefore also the nitrogen oxides emissions. Unfortunately, lean combustion suffers from instabilities and the operation close to the point of lean blowout increases the risk of imminent blowoff. Active stability control is therefore inevitable. The objective of this work is to evaluate the signal obtained from an ion current measurement technique to enable combustion control for aircraft propulsion applications in the near future. In the past ion current measurements have been used in several studies as flame turbulence analyzer and to detect the reaction rate. However, investigations in lean burning and swirl stabilized airblast injection combustors for future propulsion concepts are rare. The signal obtained from an ion current detector inside a combustor depends strongly on the measurement position. In this experimental investigation field measurements at atmospheric conditions of the ion concentration in a tubular combustor with a sampling rate of 8 kHz are compared with 4 kHz time resolved temperature and OH* chemiluminescence measurements in order to determine the position of the reaction inside the combustor. Variations were performed of the air to fuel ratio (AFR), the air preheating temperature and the pressure drop across the injection system to clarify the interpretation of the ion current signal. The results indicate a strong dependence of the ion current signal on the AFR and that the technique has distinct advantages compared to OH* chemiluminescence measurements: The measurement equipment is comparable non-expensive and the results reveal that the reaction rate is measured directly and are not interpreted from a 3D image. A transition in flame shape from a compact to a tornado flame can be clearly identified with the applied probe. Furthermore, regions with high temperature fluctuations do not necessarily reveal the reaction zone in a recirculating flow field.
Structure of the Human 3α-Hydroxysteroid Dehydrogenase Type 3 in Complex with Testosterone and NADP at 1.25-Å Resolution (2001)

The first crystallographic structure of human type 3 3alpha-hydroxysteroid dehydrogenase (3alpha-HSD3, AKR1C2), an enzyme playing a critical role in steroid hormone metabolism, has been determined in complex with testosterone and NADP at 1.25-A resolution. The enzyme's 17beta-HSD activity was studied in comparison with its 3alpha-HSD activity. The enzyme catalyzes the inactivation of dihydrotestosterone into 5alpha-androstane-3alpha,17beta-diol (3alpha-diol) as well as the transformation of androstenedione into testosterone. Using our homogeneous and highly active enzyme preparation, we have obtained 150-fold higher 3alpha-HSD specificity as compared with the former reports in the literature. Although the rat and the human 3alpha-HSDs share 81% sequence homology, our structure reveals significantly different geometries of the active sites. Substitution of the Ser(222) by a histidine in the human enzyme may compel the steroid to adopt a different binding to that previously described for the rat (Bennett, M. J., Albert, R. H., Jez, J. M., Ma, H., Penning, T. M., and Lewis, M. (1997) Structure 5, 799-T812). Furthermore, we showed that the affinity for the cofactor is higher in the human 3alpha-HSD3 than the rat enzyme due to the presence of additional hydrogen bonds on the adenine moiety and that the cofactor is present under its reduced form in the active site in our preparation.
Efficient barrier synchronization mechanism for emulated shared memory NOCs (2005)

Explicit synchronization mechanisms capable of arbitrary simultaneous barriers are needed to support parallely recursive synchronous MIMD programming, even in step synchronous emulated shared memory machines (ESMM) because control of threads may privately depend on input values. Current synchronization mechanisms fail to support arbitrary simultaneous barriers or are not scalable with future silicon technologies. In this paper, we propose a novel constant execution time barrier synchronization mechanism for scalable ESMMs using active memory. The mechanism is applied to our Eclipse network-on-chip architecture and evaluated briefly.
Effect of systemic hormonal cyclicity on skin (2006)

Fluctuations in estrogen and progesterone during the menstrual cycle can cause changes in body systems other than the reproductive system. We conducted several studies to determine a possible correlation between phases of the menstrual cycle and specific skin properties. Healthy Caucasian women (ages 21-48), who had a typical 26-29 day menstrual cycle, participated in the studies. Measurements of skin barrier strength, dryness, response to lactic acid stinging, skin surface lipids, and microflora were obtained every week for two to three months. Ultraviolet B susceptibility in terms of minimal erythemal dose was also studied. The skin barrier was the weakest between days 22 and 26 of the cycle. Elevated neuronal response (lactic acid sting) was not observed to vary much with the cycle. Skin was driest between day 1 and day 6, while skin surface lipid secretion appeared to be highest on days 16-20 of the hormonal cycle. The highest microbial count was around days 16-22, and there was a high UV-B susceptibility between days 20 and 28 of the menstrual cycle.
Development of a Robot Suit with Mechanical Safety Devices (2016)

We have proposed a robot suit with two hardware-based safety devices - the “velocity-based safety device” and the “torque-based safety device”. The robot suit assists a patient's knee joint. The torque-based safety device stops the robot suit if it detects an unexpected high joint torque. Similarly, the velocity-based safety device stops the robot suit if it detects an unexpected high joint angular velocity. The safety devices work even when the robot suit's computer breaks down, because they consist of only passive mechanical components without actuators, controllers, or batteries. The transient responses of the velocity-based safety device to some ramp inputs have been analyzed. In this paper, we verify the effectiveness of the analysis of the velocity-based safety device by experiments.
Calibrating Anisotropic, Anelastic Models for Converted Wave Simulation (1999)

Converted wave sea bed seismic data exhibit wave propagation phenomena that are sometimes difficult to process and interpret without the aid of simulations for guidance. Likewise, simulations are important pre-survey to make sure the objectives will be met by the acquisition geometry.
Morphometric Analysis of Cytolysis in Cultured Cell Monolayers: A Simple and Versatile Method for the Evaluation of the Cytotoxic Activity and the Fate of LAK Cells (2002)

In vitro techniques for the evaluation of the cytotoxicity of immune cells are important both for the routine assessment of the cytolytic activity in samples for clinical or experimental use and for basic studies of the interaction between killer and target cells. Especially in the latter case, it is important not only to quantify target cell death as an endpoint, but also to observe the interaction and to recover effectors and targets for further analysis. We present a new method that offers considerable improvements for both types of applications, in comparison with the standard radioactivity release assays used today. The morphometric cytotoxicity assay (Mo.C.A.) estimates the extent of target cell lysis by measuring the openings that appear in a confluent monolayer of adherent cells as killed cells detach from the plastic on which they were spread. Two hours after the inoculation of the effector cells, nonadherent killer and dead target cells are washed off and the remaining monolayer is fixed and stained with Coomassie blue. Elementary computer-assisted image analysis allows then to calculate the percentage of open space, which is a parameter for the extent of lysis. As the Mo.C.A. is easy, and does not rely on the use of radioactive compounds or sophisticated equipment, we provide evidence that it should be valuable for the routine analysis of cytotoxicity in various cell samples. In addition, the method offers great flexibility in the choice of target cells and allows for continuous microscopic observation of the live cultures. The interaction can also be stopped at any time, and the effector and (unlabeled) target cells can be recovered separately. Therefore, the method should also offer new possibilities for the basic study of killer cell biology.
Combined subcoracoid and subacromial impingement in association with anterosuperior rotator cuff tears: an arthroscopic approach (2003)

Arthroscopic treatment of combined subcoracoid and subacromial impingement can lead to good results in this patient population. A high index of suspicion for these combined lesions, along with adequate surgical decompression and rotator cuff repair, is essential in providing pain relief and improved function.
Data from Decreased levels of UMP kinase as a mechanism of fluoropyrimidine resistance (2023)

&lt;div&gt;Abstract&lt;p&gt;5-Fluorouracil (5-FU) continues to be widely used for treatment of gastrointestinal cancers. Because many tumors show primary or acquired resistance, it is important to understand the molecular basis underlying the mechanism of resistance to 5-FU. In addition to its effect on thymidylate synthase inhibition and DNA synthesis, 5-FU may also influence RNA metabolism. Our previous studies revealed that colorectal cancer cells resistant to bolus 5-FU (HCT-8/4hFU) showed significantly decreased incorporation of the drug into RNA. Resistance to bolus 5-FU was associated with lower expression of UMP kinase (UMPK), an enzyme that plays an important role in the activation of 5-FU to 5-FUTP and its incorporation into RNA. Activities of other 5-FU–metabolizing enzymes (e.g., thymidine kinase, uridine phosphorylase, thymidine phosphorylase, and orotate phosphoribosyltransferase) remained unchanged between sensitive and resistant cell lines. Herein, we show that UMPK down-regulation in 5-FU–sensitive cells (HCT-8/P) induces resistance to bolus 5-FU treatment. Moreover, HCT-8/4hFU cells are even more cross-resistant to treatment with 5-fluorouridine, consistent with the current understanding of 5-fluorouridine as a RNA-directed drug. Importantly, colorectal cancer hepatic metastases isolated from patients clinically resistant to weekly bolus 5-FU/leucovorin treatment exhibited decreased mRNA expression of UMPK but not thymidylate synthase or dihydropyrimidine dehydrogenase compared with tumor samples of patients not previously exposed to 5-FU. Our findings provide new insights into the mechanisms of acquired resistance to 5-FU in colorectal cancer and implicate UMPK as an important mechanism of clinical resistance to pulse 5-FU treatment in some patients.[Mol Cancer Ther 2009;8(4):OF1–8]&lt;/p&gt;&lt;/div&gt;
Kinetic parameters of kicking (1974)

A concern of many investigators in biomechanics has been obtaining accurate information on the kinetics of rapid human motion. The history of forces and moments at the joints of accelerating limb segments undoubtedly will tell us something about the muscular forces involved and also about the neural control. Technically, however, it has proven very difficult to quantify both the magnitude and time course of limb segment accelerations with reasonable confidence.
Design Space Exploration for Orlando Ultra Low-Power Convolutional Neural Network SoC (2018)

With the recent advances in machine learning, Deep Convolutional Neural Networks (DCNNs) represent state-of-the-art solutions especially in image and speech recognition and classification. The most important enabler factor of deep learning consists of the massive computing power offered by programmable GPUs for training DCNNs on large amounts of data. Even the complexity of DCNN deployment scenarios, where trained models are used for inference, have started to require powerful computing systems. Especially in the embedded systems domain, the computational requirements along with ultra low-power and memory constraints exacerbate the situation even further. The STM Orlando ultra low-power processor architecture with convolutional neural network acceleration targets exactly this class of problems. Orlando SoC integrates HW-accelerated blocks together with DSPs and on-chip memory resources to enable energy-efficient convolutions for future generations of DCNNs. Although Orlando platform provides flexibility with programmable DSPs, the large variety of DCNN applications make it challenging the design space exploration of the next generations of Orlando architecture. Many hardware design parameters affect the performance and energy-efficiency of the Orlando SoC. Given the huge size of the design space, design space exploration (DSE) and cost-performance tradeoff analysis is needed to select the best set of parameters for the target DCNN application. In this work, we present the exploration results and the tradeoff analysis carried out for the Orlando architecture on the vee - 16 case study.