gebhart/patrepeval huggingface dataset:
Assessment of the Effects of Double-Stranded RNAs Corresponding to Multiple Vitellogenesis-Inhibiting Hormone Subtype I Peptides in Subadult Female Whiteleg Shrimp, Litopenaeus vannamei (2021)

Vitellogenesis-inhibiting hormone (VIH) negatively regulates reproduction in shrimp and other decapod crustaceans. In order to assess the effects of transcriptional silencing by multiple VIH subtype I sinus gland peptides (SGPs) on ovarian maturation in female whiteleg shrimp, <i>Litopenaeus vannamei</i>, we synthesized five dsRNAs targeting <i>Liv-SGP-A</i>, -<i>B</i>, -<i>C</i>, -<i>F</i>, and -<i>G</i> and injected them into subadults. The following treatments were employed: sgpG-dsRNA (targeting <i>Liv-SGP-G</i>), sgpC-dsRNA (targeting <i>Liv-SGP-C</i>), and mixed-dsRNA (targeting <i>Liv-SGP-A</i>, <i>-B</i>, and <i>-F</i>). The expression of <i>Liv-SGP-G</i> in eyestalks was significantly decreased at 10, 20, and 30 days after the injection of sgpG-dsRNA In addition, it was significantly decreased at 10 and 30 days after the injection of mixed-dsRNA. The expression of vitellogenin (Vg) gene expression in the ovaries, and concentrations of Vg protein in the hemolymph, were not changed by the administration of any dsRNA treatment (the ovaries remained immature in all treated individuals and contained mostly oogonia and previtellogenic oocytes). Although the administration of dsRNAs corresponding to multiple VIHs did not promote ovarian maturation, this is the first report of the co-transcriptional repression of <i>Liv-SGP-G</i> by the injection of dsRNA for homologous genes (<i>Liv-SGP-A</i>, -<i>B</i>, and <i>-F</i>). These results indicate that subadults can respond to the techniques of transcriptional silencing.
Pharmacological chaperone for the structured domain of human prion protein (2010)

In prion diseases, the misfolded protein aggregates are derived from cellular prion protein (PrP(C)). Numerous ligands have been reported to bind to human PrP(C) (huPrP), but none to the structured region with the affinity required for a pharmacological chaperone. Using equilibrium dialysis, we screened molecules previously suggested to interact with PrP to discriminate between those which did not interact with PrP, behaved as nonspecific polyionic aggregates or formed a genuine interaction. Those that bind could potentially act as pharmacological chaperones. Here we report that a cationic tetrapyrrole [Fe(III)-TMPyP], which displays potent antiprion activity, binds to the structured region of huPrP. Using a battery of biophysical techniques, we demonstrate that Fe(III)-TMPyP forms a 11 complex via the structured C terminus of huPrP with a K(d) of 4.5 ± 2 μM, which is in the range of its IC(50) for curing prion-infected cells of 1.6 ± 0.4 μM and the concentration required to inhibit protein-misfolding cyclic amplification. Therefore, this molecule tests the hypothesis that stabilization of huPrP(C), as a principle, could be used in the treatment of human prion disease. The identification of a binding site with a defined 3D structure opens up the possibility of designing small molecules that stabilize huPrP and prevent its conversion into the disease-associated form.
A 600 GHz Imaging Radar for Contraband Detection (2008)

We have developed and demonstrated 3D imaging for contraband detection using a submillimeter-wave frequency modulated continuous wave (FMCW) radar with a fast microwave chirp and phase coherent detection. The technique provides an important advantage over more traditional CW RF imaging because of the ability to time-gate the return signals. This can be used to discern specific objects by greatly reducing clutter from unwanted targets or specular reflections. The prototype system uses a 600 GHz RF signal with a 28.8 GHz chirp producing a 2.3 MHz/μsec sweep yielding a range resolution of approximately 0.6 cm or less. Lateral resolution on the scene is set by a 40 cm diameter reflector producing approximately 0.5 cm at 4 m distance. I. INTRODUCTION
[Serum GP73 were increased in patients with fatty liver disease]. (2013)

Serum GP73 levels were increased in patients with different liver diseases, but its concentrations were seems not related with degree of fatty injury.
Passive (self-pumped) phase conjugate mirror: Theoretical and experimental investigation (1982)

We report the results of a theoretical and experimental investigation of a passive (self-pumped) phase conjugate mirror. This device is based on real time holography in materials which allow a spatial phase shift between the refractive index grating and the light interference pattern. An imaging experiment is reported showing the phase conjugating nature of the device. The holographic medium used was a single crystal of barium titanate.
Profile-based global live-range splitting (2006)

Live-range splitting is a technique to split the live range of a given variable into multiple subranges, each of which can be assigned to a different register or spilled out to memory in order to improve results of coloring register allocation. Previous techniques, such as aggressive live-range splitting, tend to produce extra spill code in the frequently executed (called hot) regions of the code, since they don't distinguish hot regions from others. We propose a new live-range splitting algorithm, which can reduce the amount of spill code in hot regions by coalescing the live ranges based on profile information after splitting the live ranges at every join and fork point in the control-flow graph. Our experimental results have shown that our new algorithm improved the performance of SPECjvm98 by up to 33% over aggressive live-range splitting and 7% over the base coloring algorithm without any live-range splitting.
Postharvest Accumulation of Resveratrol and Piceatannol in Sugarcane with Enhanced Antioxidant Activity (2013)

A new plant source, sugarcane, was used to produce the stilbenes piceatannol and resveratrol. Both stilbenes were identified in sugarcane billet stalks (12 mm) after incubation at room temperature for 3 days. Low concentrations of piceatannol (30.6 μg/g) and resveratrol (12.3 μg/g) were detected at day 3. At day 7 of incubation higher concentrations of piceatannol (1659 μg/g) and resveratrol (73 μg/g) were produced. Sugarcane juice obtained from billets that were incubated for 7 days contained high levels of piceatannol (8.5 mg/L) and resveratrol (1.2 mg/L). Although high stilbene concentrations were determined in the sugarcane variety L 97-128, two other varieties (Ho 95-988 and LCP 85-384) displayed lower stilbene concentrations after incubation for 7 days. The total phenolic content (TPC) and antioxidant activities of incubated sugarcane extracts were determined by 2,2-diphenyl-1-picrylhydrazyl (DPPH) radical scavenging and ferric reducing antioxidant power (FRAP). The TPC and antioxidant activities were highest in sugarcane extracts that were incubated for 7 days. This study details a postharvest method to produce stilbene-enriched sugarcane with increased levels of piceatannol and resveratrol.
Automatic Synchronization between Lyrics and Music CD Recordings Based on Viterbi Alignment of Segregated Vocal Signals (2006)

This paper describes a system that can automatically synchronize between polyphonic musical audio signals and corresponding lyrics. Although there were methods that can synchronize between monophonic speech signals and corresponding text transcriptions by using Viterbi alignment techniques, they cannot be applied to vocals in CD recordings because accompaniment sounds often overlap with vocals. To align lyrics with such vocals, we therefore developed three methods: a method for segregating vocals from polyphonic sound mixtures, a method for detecting vocal sections, and a method for adapting a speech-recognizer phone model to segregated vocal signals. Experimental results for 10 Japanese popular-music songs showed that our system can synchronize between music and lyrics with satisfactory accuracy for 8 songs
A Probabilistic Model for Binaural Sound Localization (2006)

This paper proposes a biologically inspired and technically implemented sound localization system to robustly estimate the position of a sound source in the frontal azimuthal half-plane. For localization, binaural cues are extracted using cochleagrams generated by a cochlear model that serve as input to the system. The basic idea of the model is to separately measure interaural time differences and interaural level differences for a number of frequencies and process these measurements as a whole. This leads to two-dimensional frequency versus time-delay representations of binaural cues, so-called activity maps. A probabilistic evaluation is presented to estimate the position of a sound source over time based on these activity maps. Learned reference maps for different azimuthal positions are integrated into the computation to gain time-dependent discrete conditional probabilities. At every timestep these probabilities are combined over frequencies and binaural cues to estimate the sound source position. In addition, they are propagated over time to improve position estimation. This leads to a system that is able to localize audible signals, for example human speech signals, even in reverberating environments.
Breaking the scaling relationship via thermally stable Pt/Cu single atom alloys for catalytic dehydrogenation (2018)

Noble-metal alloys are widely used as heterogeneous catalysts. However, due to the existence of scaling properties of adsorption energies on transition metal surfaces, the enhancement of catalytic activity is frequently accompanied by side reactions leading to a reduction in selectivity for the target product. Herein, we describe an approach to breaking the scaling relationship for propane dehydrogenation, an industrially important reaction, by assembling single atom alloys (SAAs), to achieve simultaneous enhancement of propylene selectivity and propane conversion. We synthesize γ-alumina-supported platinum/copper SAA catalysts by incipient wetness co-impregnation method with a high copper to platinum ratio. Single platinum atoms dispersed on copper nanoparticles dramatically enhance the desorption of surface-bounded propylene and prohibit its further dehydrogenation, resulting in high propylene selectivity (~90%). Unlike previous reported SAA applications at low temperatures (<400 °C), Pt/Cu SAA shows excellent stability of more than 120 h of operation under atmospheric pressure at 520 °C.
Strong Enhancement of Light–Matter Interaction in Graphene Coupled to a Photonic Crystal Nanocavity (2012)

We demonstrate a large enhancement in the interaction of light with graphene through coupling with localized modes in a photonic crystal nanocavity. Spectroscopic studies show that a single atomic layer of graphene reduces the cavity reflection by more than a factor of one hundred, while also sharply reducing the cavity quality factor. The strong interaction allows for cavity-enhanced Raman spectroscopy on subwavelength regions of a graphene sample. A coupled-mode theory model matches experimental observations and indicates significantly increased light absorption in the graphene layer. The coupled graphene–cavity system also enables precise measurements of graphene’s complex refractive index.
Gain mismatch effect of cascaded sigma delta modulator reduced by serial technique (2003)

Based on the MASH (multistage noise shaping) architecture, an improved architecture-uni-MASH which employs the time-division concept for architecture and circuit reuse is proposed. Uni-MASH retains robust stability and high-ordered noise shaping factor of MASH's virtues. Besides, the following additional advantages of uni-MASH are verified by computer simulation: (1) Uni-MASH has smaller chip area than MASH. (2) Uni-MASH reduces the gain mismatch effects between each SDM stage.
An Intraoperative Visualization System Using Hyperspectral Imaging to Aid in Brain Tumor Delineation (2018)

Hyperspectral imaging (HSI) allows for the acquisition of large numbers of spectral bands throughout the electromagnetic spectrum (within and beyond the visual range) with respect to the surface of scenes captured by sensors. Using this information and a set of complex classification algorithms, it is possible to determine which material or substance is located in each pixel. The work presented in this paper aims to exploit the characteristics of HSI to develop a demonstrator capable of delineating tumor tissue from brain tissue during neurosurgical operations. Improved delineation of tumor boundaries is expected to improve the results of surgery. The developed demonstrator is composed of two hyperspectral cameras covering a spectral range of 400-1700 nm. Furthermore, a hardware accelerator connected to a control unit is used to speed up the hyperspectral brain cancer detection algorithm to achieve processing during the time of surgery. A labeled dataset comprised of more than 300,000 spectral signatures is used as the training dataset for the supervised stage of the classification algorithm. In this preliminary study, thematic maps obtained from a validation database of seven hyperspectral images of in vivo brain tissue captured and processed during neurosurgical operations demonstrate that the system is able to discriminate between normal and tumor tissue in the brain. The results can be provided during the surgical procedure (~1 min), making it a practical system for neurosurgeons to use in the near future to improve excision and potentially improve patient outcomes.
Nickel doping of boron–carbon alloy films and corresponding Fermi level shifts (1997)

We have grown nickel doped boron–carbon alloy films by the technique of plasma enhanced chemical vapor deposition. The source gas closo-1,2-dicarbadodecaborane (orthocarborane) was used to grow the boron–carbon alloy, while nickelocene [Ni(C5H5)2] was used as the dopant source for nickel. With sufficient levels of Ni doping, diodes with characteristic tunnel diode behavior can be fabricated. The doping of nickel transformed a B5C p-type material, relative to lightly doped n-type silicon, to a strongly n-type material. In order to gain insight into the shift of the Fermi level of the Ni-doped material, we have examined the changes in the electronic structure of sodium doped films of the precursor molecule orthocarborane which has an icosahedral structure similar to that of boron–carbon materials. The establishment of unoccupied states at the Fermi level with Na doping of the orthocarborane films is consistent with the transformation of the p-type B5C to an n-type material with Ni doping.
<title>Thermal ink jet: a review</title> (1992)

The first public demonstration of thermal ink jet printing was done by Canon in 1981 and the first thermal ink jet product, ThinkJet, was introduced by the Hewlett-Packard Company in 1984. Since then, this powerful printing technology has assumed a strong presence in the market. In this discussion, we will first briefly review the printer market, the increasing role thermal ink jet is playing in this arena, as well as the reasons for its success. The technology discussion will follow, and will focus on several highlights in thermal ink jet physics, materials, and printing. We will conclude with our comments on future thermal ink jet developments.© (1992) COPYRIGHT SPIE--The International Society for Optical Engineering. Downloading of the abstract is permitted for personal use only.
A calcium-stimulated serine protease from monkey brain degrades the β-amyloid precursor protein (1992)

Amyloid deposition, a histopathological feature of Alzheimer's disease brain, may be the underlying cause of this disease. The isolation of enzymes involved in both the normal and aberrant or alternative processing of the beta-amyloid precursor protein may lead to an understanding of how beta-protein, the major component of amyloid deposits, is formed in the brain parenchyma and vasculature of Alzheimer's disease patients and aged humans. As the same kind of deposits is also found in aged primates, the use of primates will undoubtedly help to understand the mechanisms of amyloid deposition, both spatially and temporally. Here we report the partial purification from adult monkey brain of a calcium-activated serine protease that is immunoreactive with antibodies against cathepsin G and is potentially involved in the abnormal degradation of the beta-amyloid precursor protein. Moreover, immunoreactivity with cathepsin G antibodies was localised to astrocytes in both adult and aged monkey cortex, suggesting that our protease may be expressed in astrocytes.
4′-<i>C</i>-Methyl-2′-Deoxyadenosine and 4′-<i>C</i>-Ethyl-2′-Deoxyadenosine Inhibit HIV-1 Replication (2011)

It is important to develop new anti-HIV drugs that are effective against the existing drug-resistant mutants. Because the excision mechanism is an important pathway for resistance to nucleoside analogs, we are preparing analogs that retain a 3'-OH and can be extended after they are incorporated by the viral reverse transcriptase. We show that 4'-C-alkyl-deoxyadenosine (4'-C-alkyl-dA) compounds can be phosphorylated in cultured cells and can inhibit the replication of HIV-1 vectors: 4'-C-methyl- and 4'-C-ethyl-dA show both efficacy and selectivity against HIV-1. The compounds are also effective against viruses that replicate using reverse transcriptases (RTs) that carry nucleoside reverse transcriptase inhibitor resistance mutations, with the exception of the M184V mutant. Analysis of viral DNA synthesis in infected cells showed that viral DNA synthesis is blocked by the incorporation of either 4'-C-methyl- or 4'-C-ethyl-2'-deoxyadenosine. In vitro experiments with purified HIV-1 RT showed that 4'-C-methyl-2'-dATP can compete with dATP and that incorporation of the analog causes pausing in DNA synthesis. The 4'-C-ethyl compound also competes with dATP and shows a differential ability to block DNA synthesis on RNA and DNA templates. Experiments that measure the ability of the compounds to block DNA synthesis in infected cells suggest that this differential block to DNA synthesis also occurs in infected cells.
3D inkjet printed disposable environmental monitoring wireless sensor node (2017)

We propose a disposable, miniaturized, moveable, fully integrated 3D inkjet-printed wireless sensor node for large area environmental monitoring applications. As a proof of concept, we show the wireless sensing of temperature, humidity and H <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> S levels which are important for early warnings of two critical environmental conditions namely forest fires and industrial gas leaks. The temperature sensor has TCR of -0.018/°, the highest of any inkjet-printed sensor and the H <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> S sensor can detect as low as 3 ppm of gas. These sensors and an antenna have been realized on the walls of a 3D-printed cubic package which encloses the microelectronics developed on a 3D-printed circuit board. Hence, 3D printing and inkjet printing have been combined in order to realize a unique low-cost, fully integrated wireless sensor node. Field tests show that these sensor nodes can wirelessly communicate up to a distance of over 100m. Our proposed sensor node can be a part of internet of things with the aim of providing a better and safe living.
Using high-sensitivity sequencing for the detection of mutations in BTK and PLCγ2 genes in cellular and cell-free DNA and correlation with progression in patients treated with BTK inhibitors (2017)

Patients with chronic lymphocytic leukemia (CLL) that develop resistance to Bruton tyrosine kinase (BTK) inhibitors are typically positive for mutations in BTK or phospholipase c gamma 2 (PLCγ2). We developed a high sensitivity (HS) assay utilizing wild-type blocking polymerase chain reaction achieved via bridged and locked nucleic acids. We used this high sensitivity assay in combination with Sanger sequencing and next generation sequencing (NGS) and tested cellular DNA and cell-free DNA (cfDNA) from patients with CLL treated with the BTK inhibitor, ibrutinib. We also tested ibrutinib-naïve patients with CLL. HS testing achieved 100x greater sensitivity than Sanger. HS Sanger sequencing was capable of detecting < 1 mutant allele in background of 1000 wild-type alleles (1:1000). Similar sensitivity was achieved with HS NGS. No BTK or PLCγ2 mutations were detected in any of the 44 ibrutinib-naïve CLL patients. We demonstrate that without the HS testing 56% of positive samples would have been missed for BTK and 85% of PLCγ2 would have been missed. With the use of HS, we were able to detect multiple mutant clones in the same sample in 37.5% of patients; most would have been missed without HS testing. We also demonstrate that with HS sequencing, plasma cfDNA is more reliable than cellular DNA in detecting mutations. Our studies indicate that wild-type blocking and HS sequencing is necessary for proper and early detection of BTK or PLCγ2 mutations in monitoring patients treated with BTK inhibitors. Furthermore, cfDNA from plasma is very reliable sample-type for testing.
MIMO radar: time division multiplexing vs. code division multiplexing (2017)

Multiple-Input-Multiple-Output (MIMO) radar systems with colocated transmit (Tx) and receive (Rx) antennas can achieve a high performance in direction of arrival (DOA) estimation due to their larger virtual aperture compared to a corresponding Single-Input-Multiple-Output (SIMO) radar. A MIMO radar needs the use of a multiplexing technique. We consider code division multiplexing (CDM) and time division multiplexing (TDM) MIMO radars. CDM offers more degrees of freedom than TDM, which results in a more flexible design of the transmission sequences. On the other hand, a TDM MIMO radar requires less complex hardware. This is especially important for radars applied to automobiles, since they have to be produced at low cost. We compare the performance of DOA estimation of TDM MIMO radars to CDM MIMO radars. We show that for a limited total transmission power the TDM MIMO radar can achieve the same performance in DOA estimation as a CDM MIMO radar.
Conservation of the low density lipoprotein receptor-binding domain of apoprotein B. Demonstration by a new monoclonal antibody, MB47. (1986)

The fact that low density lipoprotein (LDL) from multiple animal species binds to the human LDL receptor suggested that the LDL-receptor binding domain of apoprotein (apo)B must be evolutionarily conserved. To determine if a common receptor domain epitope existed on apo B, we generated a monoclonal antibody that was specific for the LDL-receptor domain of apo B. This was accomplished by using a screening procedure that selected for a hybridoma supernatant that could block specific cellular uptake and degradation of LDL. Western blots showed that this antibody, termed MB47, was specific for apo B-100. Fluid phase assays indicated a high binding affinity (Ka = 4 X 10(9) M-1) and demonstrated that all human LDL particles expressed the MB47 epitope. Scatchard analysis indicated that a maximum of one MB47 molecule bound to each LDL particle. In solid phase assays, antibody MB47 bound to plasma or LDL of multiple mammalian species, including guinea pig, rabbit, pig, dog, cat, seal, whale, bear, and lion, but it did not bind to mouse or rat LDL. In contrast, a rabbit antiserum to LDL and two other anti-apo B monoclonal antibodies, MB3 and MB19, which do not bind to the receptor domain, were specific only for human LDL. LDL from multiple species, including mouse LDL, competed effectively with 125I-human LDL for binding to human fibroblasts. MB47 effectively inhibited uptake and degradation of labeled human, guinea pig, and rabbit LDL by both human and guinea pig fibroblasts. We conclude that antibody MB47 binds to a single receptor domain on LDL and identifies a vital region conserved through mammalian evolution.