gebhart/patrepeval huggingface dataset:
Fasting‐Mimicking Diet and Risk Factors for Aging, Diabetes, Cancer and Cardiovascular Disease (2018)

Background Prolonged fasting in which only water is consumed for 2 days or more has been shown to reduce pro‐growth signaling, activate cellular protection mechanisms and promote protection against cancer, diabetes, heart disease and neurodegenerative diseases. Since prolonged fasting is difficult for most human subjects, we developed a Fasting Mimicking Diet (FMD) which is a low calorie, low protein, plant‐based meal plan for 5 continuous days. During periods of low calorie intake, the body enters a protected mode, removes damaged cells and tissues, and undergoes self‐repair. Methods 100 participants without a diagnosed medical condition in the preceding six months were enrolled based on Inclusion criteria (generally healthy adult volunteers, 18–70 years of age, body mass index: 18.5 and up). This study is designed as a randomized cross‐over trial, includes two arms: Control and multi‐cycle special 5‐day dietary regimen (Diet, 3 cycles). We evaluated the effects of the FMD on risk factors and markers for aging, cancer, metabolic syndrome and cardiovascular diseases. Results For all subjects who completed 3 FMD cycles (combining both FMD arms), body weight, BMI, total body fat, trunk fat, absolute lean body mass, waist circumference, IGF‐1, systolic and diastolic blood pressure, total cholesterol and LDL were significantly reduced (P<0.05) and relative lean body mass (p=0.0002) was increased. Conclusions FMD cycles are effective in improving an array of metabolic markers/risk factors associated with poor health and aging and in contributing to the treatment and prevention of multiple age‐related diseases. Support or Funding Information Funding was provided by the USC Edna Jones chair fund. Dr. Mack's contributions were provided through the Southern California Clinical and Translational Science Institute (SCCTSI) supported by NIH ULTR001855
[Development of a purification tag to produce thermostable fused protein]. (2019)

Self-assembling amphipathic peptides (SAPs) have alternating hydrophilic and hydrophobic residues and can affect the thermal stabilities and catalytic properties of the fused enzymes. In this study, a novel multifunctional tag, S1vw (HNANARARHNANARARHNANARARHNARARAR) was developed to modify fused enzymes. After fusing S1vw at the enzymes/proteins N-terminus through a PT-linker, the crude enzymatic activities of polygalacturonate lyase and lipoxygenase were enhanced 3.1- and 1.89-fold, respectively, compared to the wild-type proteins. The relative fluorescence intensity of the green fluorescent protein was enhanced 16.22-fold. All the three S1vw fusions could be purified by nickel column with high purities and acceptable recovery rates. Moreover, S1vw also induced the thermostabilities enhancement of the fusions, with polygalacturonate lyase and lipoxygenase fusions exhibiting 2.16- and 3.2-fold increase compared with the corresponding wild-type, respectively. In addition, S1vw could enhance the production yield of green fluorescent protein in Escherichia coli and Bacillus subtilis while the production of GFP and its S1vw fusion changed slightly in Pichia pastoris. These results indicated that S1vw could be used as a multifunctional tag to benefit the production, thermal stability and purification of the fusion protein in prokaryotic expression system.
Pre-stack separation of PP and split PS waves in HTI media (2017)

Separation of PP and split PS waves in transversely isotropic media with a horizontal axis of symmetry is crucial for imaging subsurface targets and for fracture prediction in a multicomponent seismic survey using P-wave sources. In conventional multicomponent processing, when a low velocity zone is present near the surface, it is often assumed that the vertical Z-component mainly records P modes and that the horizontal X- and Y-components record S modes, including split PS waves. However, this assumption does not hold when the ubiquitous presence of azimuthal anisotropy makes near surface velocity structures more complicated. Seismic wavefields recorded in each component therefore generally represent a complex waveform formed by PP and split PS waves, seriously distorting velocity analysis and seismic imaging. Most previous studies on wave separation have tended to separate P and S modes using pre-stack data and to separate split S modes using post-stack sections, under the assumption of orthogonal polarization. However, split S modes can hardly maintain their original orthogonal polarizations during propagation to the surface due to stratigraphic heterogeneity. Here, without assuming orthogonal polarization, we present a method for pre-stack separation of PP, PS1 and PS2 waves using all three components. The core of our method is the rotation of wave vectors from the Cartesian coordinate system established by Z-, R- and T-axes to a coordinate system established by the true PP-, PS1- and PS2-wave vector directions. Further, we propose a three-component superposition approach to obtain base wave vectors for the coordinate system transformation. Synthetic data testing results confirm that the performance of our wave separation method is stable under different noise levels. Application to field data from Southwest China reveals the potential of our proposed method.
Development in culture of the chick embryo from cleavage to hatch (1989)

1. Early uterine embryos were obtained from hens by induced oviposition 7.5-8.0 h after the preceding egg was laid. They were cultured in vitro and then in recipient shells to hatch. As controls, embryos from freshly laid eggs were cultured in recipient shells to hatch. 2. For embryos cultured from uterine eggs, the hatch rate was 22.5%, and for embryos cultured from laid eggs, the hatch rate was 62.5%. 3. The weight of the chicks hatched from culture was about 60% of the weight of the preceding egg, or donor egg. Male and female chicks reached maturity and have produced viable offsprings. 4. The results show that it is possible to grow chick embryos in culture from the early cleavage stage (stage II) to hatch. They extend earlier findings on the culture of embryos from the blastoderm stage (Stage X) to hatch. The technique provides a basis for investigations on chick embryo cryopreservation.
Generalized multiscale seam carving (2010)

With the abundance and variety of display devices, novel image resizing techniques have become more desirable. Content-aware image resizing (retargeting) techniques have been proposed that show improvement over traditional techniques such as cropping and resampling. In particular, seam carving has gained attention as an effective solution, using simple filters to detect and preserve the high-energy areas of an image. Yet, it stands to be more robust to a variety of image types. To facilitate such improvement, we recast seam carving in a more general framework and in the context of filter banks. This enables improved filter design, and leads to a multiscale model that addresses the problem of scale of image features. We have found our generalized multiscale model to improve on the existing seam carving method for a variety of images.
<title>Pit depth encoded memories</title> (1994)

Modulation of the pit depth of an optical disk can increase its storage density. We measured a linear response to depth over the range of depth of focus using a conoscopic read head.
Novel Mechanical Assistance in the Treatment of Endotoxic and Septicemic Shock (1989)

Systemic sepsis is a frequent and fatal complication of postoperative patients. More recently, therapeutic trials of plasma or blood exchange are performed in septic patients for the purpose of reducing both endotoxins and albumin-bound toxins. As an alternate approach such as this for the removal of endotoxin directly from the blood, the authors recently developed polymyxin B immobilized fiber (PMX-F) as a biomaterial for selectively detoxifying endotoxin. That this newly invented PMX-F neutralizes a sufficient amount of endotoxin in vitro was reported previously. In ex vivo experiments, direct hemoperfusion by PMX-F was performed on purified endotoxin injected canine and on live Escherichia coli induced septic dogs. Only 5% (1/20) survived in the control group, but 75% (30/40) survived in the treated group. Septic dogs died within 18 hours after bacteria infusion in the control group. But all in the treated group survived 3 days. Forty percent of them survived permanently. These observations indicate that PMX-F treatment, namely selective removal of endotoxin in the endotoxic and septicaemic dogs prolongs or increases the chances of survival. Blood compatibility of PMX-F was also evaluated both in vitro and in vivo. With platelets it was shown to be fairly good and with red blood cells, white blood cells, and proteins, extremely good. A preclinical study on the efficacy and safety of PMX-F throughout widespread experiments has just ended.
A real-time garbage collector with low overhead and consistent utilization (2003)

Now that the use of garbage collection in languages like Java is becoming widely accepted due to the safety and software engineering benefits it provides, there is significant interest in applying garbage collection to hard real-time systems. Past approaches have generally suffered from one of two major flaws: either they were not provably real-time, or they imposed large space overheads to meet the real-time bounds. We present a mostly non-moving, dynamically defragmenting collector that overcomes both of these limitations: by avoiding copying in most cases, space requirements are kept low; and by fully incrementalizing the collector we are able to meet real-time bounds. We implemented our algorithm in the Jikes RVM and show that at real-time resolution we are able to obtain mutator utilization rates of 45% with only 1.6--2.5 times the actual space required by the application, a factor of 4 improvement in utilization over the best previously published results. Defragmentation causes no more than 4% of the traced data to be copied.
Filtering coal liquids: influence of particle sedimentation on filtration (1981)

At the National Coal Board, (England) methods of coal liquefaction aimed at the production of transport fuels and feedstocks for the chemical industry are currently under development. In one of the processes, coal is dissolved in a high boiling aromatic solvent to produce a digest from which solids, consisting of undissolved coal fragments and mineral matter, are removed by filtration. The resultant coal extract solution is then hydrocracked to premium liquid products and a fraction suitable for recycling as process solvent. For the process to be economically attractive, it is important to achieve a high rate of filtration. In the reported experiments, a study was made to investigate the effects of particle segregation by size and type upon filtration, in order to achieve the maximum filtration rate. Data are presented which show that higher filtration rates were obtained with coal digest when the filter was used in a media that prevented sedimentation of the entrained solids. 12 refs.
<title>15-um cut-off 128 x 128 quantum well infrared photodetectors (QWIPs) camera</title> (1995)

We discuss the development and the performances of a very long wavelength (13.5 - 15 micrometer) 128 by 128 AlGaAs/GaAs multiquantum well infrared imaging system. A highly uniform, high-yield QWIP focal plane array was hybridized to a CMOS multiplexer operating in a direct injection mode. For efficient light coupling an integral random scattering reflector (random grating) was incorporated. Due to the high uniformity, excellent imagery, low noise as well as a noise equivalent temperature difference (NE(Delta) T) of less than 30 mK were obtained when operating around 45 K. Therefore, high image contrast signal to noise ratio has been achieved.
Sub pixel resolution using spectral-spatial encoding in x-ray imaging (2021)

The concept of encoding object information at a length scale smaller than a single pixel element, and then retrieving that information was introduced. SPE simultaneously allows for an increase in spatial resolution and provides "dual energy" like information about the underlying photon-matter interactions.
Fused-Silica Micro Birdbath Resonator Gyroscope ($\mu$-BRG) (2014)

We present a 3-D fused-silica micro-scale shell gyroscope, called the birdbath resonator gyroscope (BRG). The BRGs axisymmetric geometry leads to a good frequency and Q symmetry. The birdbath resonator can be fabricated with a good structural symmetry because its anchor is self-aligned to the rest of the structure. The BRG has n=2 wine-glass modes at 10.5 kHz and has a large frequency separation between the n=2 wine-glass modes and the closest parasitic mode (|fparasitic-fn=2|/fn=2=0.3), which will potentially lead to a low vibration sensitivity. The equations of motion for 3-D shell gyroscopes are derived and the effective mass and angular gain of the BRG is estimated using finite element method (FEM). The BRG is fabricated using a 3-D micrometer-blow-torching process and assembly on an electrode substrate made with the silicon-on-glass process. The BRG is operated in the force-rebalance mode at vacuum at room temperature and has a scale factor of 27.9 mV/(deg/s), a full-scale range , an angle random walk of 0.106 deg/√h, and a bias stability of 1 deg/h. A large angular gain (0.317) is measured, which is close to the estimated value of 0.25 obtained via FEM.
Developing Ligands for Palladium(II)-Catalyzed C–H Functionalization: Intimate Dialogue between Ligand and Substrate (2013)

Homogeneous transition-metal-catalyzed reactions are indispensable to all facets of modern chemical synthesis. It is thus difficult to imagine that for much of the early 20th century, the reactivity and selectivity of all known homogeneous metal catalysts paled in comparison to their heterogeneous and biological counterparts. In the intervening decades, advances in ligand design bridged this divide, such that today some of the most demanding bond-forming events are mediated by ligand-supported homogeneous metal species. While ligand design has propelled many areas of homogeneous catalysis, in the field of Pd(II)-catalyzed C-H functionalization, suitable ligand scaffolds are lacking, which has hampered the development of broadly practical transformations based on C-H functionalization logic. In this Perspective, we offer an account of our research employing three ligand scaffolds, mono-N-protected amino acids, 2,6-disubstituted pyridines, and 2,2'-bipyridines, to address challenges posed by several synthetically versatile substrate classes. Drawing on this work, we discuss principles of ligand design, such as the need to match a ligand to a particular substrate class, and how ligand traits such as tunability and modularity can be advantageous in reaction discovery.
Explicit congestion notification (ECN) in TCP over wireless network (2002)

Reliable transport protocols like the transmission control protocol (TCP) are tuned to perform well in traditional wireline networks where packet losses occur mostly because of congestion. However, networks with wireless and lossy links also suffer from significant packet losses due to random losses and handoffs. TCP responds to all the packet losses by invoking a congestion control algorithm and this results in degraded end-to-end performance in wireless and lossy links. In this paper, we suggest a strategy to determine the cause of packet drops in a wireless network running the TCP protocol. Our method is based on modification of explicit congestion notification (ECN) in TCP for wireless networks.
Targeting flavin-containing enzymes eliminates cancer stem cells (CSCs), by inhibiting mitochondrial respiration: Vitamin B2 (Riboflavin) in cancer therapy (2017)

Here, we performed high-throughput drug-screening to identify new non-toxic mitochondrial inhibitors. This screening platform was specifically designed to detect compounds that selectively deplete cellular ATP levels, but have little or no toxic side effects on cell viability. Using this approach, we identified DPI (Diphenyleneiodonium chloride) as a new potential therapeutic agent. Mechanistically, DPI potently blocks mitochondrial respiration by inhibiting flavin-containing enzymes (FMN and FAD-dependent), which form part of Complex I and II. Interestingly, DPI induced a chemo-quiescence phenotype that potently inhibited the propagation of CSCs, with an IC-50 of 3.2 nano-molar. Virtually identical results were obtained using CSC markers, such as CD44 and CD24. We further validated the effects of DPI on cellular metabolism. At 10 nM, DPI inhibited oxidative mitochondrial metabolism (OXPHOS), reducing mitochondrial driven ATP production by >90%. This resulted in a purely glycolytic phenotype, with elevated L-lactate production. We show that this metabolic inflexibility could be rapidly-induced, after only 1 hour of DPI treatment. Remarkably, the mitochondrial inhibitory effects of DPI were reversible, and DPI did not induce ROS production. Cells maintained in DPI for 1 month showed little or no mitochondrial activity, but remained viable. Thus, it appears that DPI behaves as a new type of mitochondrial inhibitor, which maintains cells in a state of metabolic-quiescence or "suspended animation".In conclusion, DPI treatment can be used to acutely confer a mitochondrial-deficient phenotype, which we show effectively depletes CSCs from the heterogeneous cancer cell population. These findings have significant therapeutic implications for potently targeting CSCs, while minimizing toxic side effects. We also discuss the possible implications of DPI for the aging process. Interestingly, previous studies in <i>C. elegans</i> have shown that DPI prevents the accumulation of lipofuscin (an aging-associated hallmark), during the response to oxidative stress. Our current results are consistent with data showing that flavins (FAD, FMN and/or Riboflavin) are auto-fluorescent markers of i) increased mitochondrial "power" (OXPHOS) and ii) elevated CSC activity.Finally, we believe that DPI is one of the most potent and highly selective CSC inhibitors discovered to date. Therefore, our current findings suggest a new impetus to create novel analogues of i) DPI (Diphenyleneiodonium chloride) and ii) DPI-related compounds (Diphenyliodonium chloride), using medicinal chemistry, to optimize this very promising and potent anti-CSC activity. We propose to call these new molecules "Mitoflavoscins".For example, DPI is ~30 times more potent than Palbociclib (IC-50 = 100 nM), which is an FDA-approved CDK4/6 inhibitor, that broadly targets proliferation in any cell type, including CSCs.
Fiber Delivered Systems for Laser Ignition of Natural Gas Engines (2006)

Past research has shown that laser ignition is capable of operating high bmep engines at high efficiency and with low emission levels. However, for laser ignition systems to be adopted by industry, one requires a practical (and economical) mode of beam delivery other than the conventional open-path beam delivery that has been used in much of the past research. One potential beam delivery method is via optical fibers capable of handling high peak power. This paper summarizes our recent efforts in this area. Using coated hollow fibers, our research group has demonstrated the delivery of laser pulses to form optical sparks both on the bench-top and for ignition and operation of a single cylinder of an ARES engine. When held relatively straight, the hollow fibers allow transmission of nanosecond pulse energies of 10s of milli-Joules with transmission above 90% and sufficient beam quality for spark formation. We have also been able to deliver optical sparks on the bench-top with high peak power pulsed fiber lasers. Pulse energies in those experiments were approximately 2 mJ. Other recent work has studied the transmission characteristics of recently developed photonic crystal fibers.
ALPS (2015)

The proliferation of Bluetooth Low-Energy (BLE) chipsets on mobile devices has lead to a wide variety of user-installable tags and beacons designed for location-aware applications. In this paper, we present the Acoustic Location Processing System (ALPS), a platform that augments BLE transmitters with ultrasound in a manner that improves ranging accuracy and can help users configure indoor localization systems with minimal effort. A user places three or more beacons in an environment and then walks through a calibration sequence with their mobile device where they touch key points in the environment like the floor and the corners of the room. This process automatically computes the room geometry as well as the precise beacon locations without needing auxiliary measurements. Once configured, the system can track a user's location referenced to a map.
A3 Adenosine Receptor Ligands: History and Perspectives (2000)

Adenosine regulates many physiological functions through specific cell membrane receptors. On the basis of pharmacological studies and molecular cloning, four different adenosine receptors have been identified and classified as A1, A2A, A2B, and A3. These adenosine receptors are members of the G-protein-coupled receptor family. While adenosine A1 and A2A receptor subtypes have been pharmacologically characterized through the use of selective ligands, the A3 adenosine receptor subtype is presently under study in order to better understand its physio-pathological functions. Activation of adenosine A3 receptors has been shown to stimulate phospholipase C and D and to inhibit adenylate cyclase. Activation of A3 adenosine receptors also causes the release of inflammatory mediators such as histamine from mast cells. These mediators are responsible for processes such as inflammation and hypotension. It has also been suggested that the A3 receptor plays an important role in brain ischemia, immunosuppression, and bronchospasm in several animal models. Based on these results, highly selective A3 adenosine receptor agonists and/or antagonists have been indicated as potential drugs for the treatment of asthma and inflammation, while highly selective agonists have been shown to possess cardioprotective effects. The updated material related to this field of research has been rationalized and arranged in order to offer an overview of the topic. © 2000 John Wiley & Sons, Inc. Med Res Rev, 20, No. 2, 103–128, 2000
Fully automated laser ablation liquid capture surface analysis using nanoelectrospray ionization mass spectrometry (2014)

Incorporating the capability for different laser ablation liquid capture spot sampling modes of operation into a LESA(®)-ready Advion TriVersa NanoMate enhanced the spot sampling spatial resolution of this device and broadened the surface types amenable to analysis to include absorbent and solvent-resistant materials.
Memory and Computation Trade-Offs for Efficient I-Vector Extraction (2013)

This work aims at reducing the memory demand of the data structures that are usually pre-computed and stored for fast computation of the i-vectors, a compact representation of spoken utterances that is used by most state-of-the-art speaker recognition systems. We propose two new approaches allowing accurate i-vector extraction but requiring less memory, showing their relations with the standard computation method introduced for eigenvoices, and with the recently proposed fast eigen-decomposition technique. The first approach computes an i-vector in a Variational Bayes (VB) framework by iterating the estimation of one sub-block of i-vector elements at a time, keeping fixed all the others, and can obtain i-vectors as accurate as the ones obtained by the standard technique but requiring only 25% of its memory. The second technique is based on the Conjugate Gradient solution of a linear system, which is accurate and uses even less memory, but is slower than the VB approach. We analyze and compare the time and memory resources required by all these solutions, which are suited to different applications, and we show that it is possible to get accurate results greatly reducing memory demand compared with the standard solution at almost the same speed.