gebhart/patrepeval huggingface dataset:
An Engineered Split Intein for Photoactivated Protein Trans-Splicing (2015)

Protein splicing is mediated by inteins that auto-catalytically join two separated protein fragments with a peptide bond. Here we engineered a genetically encoded synthetic photoactivatable intein (named LOVInC), by using the light-sensitive LOV2 domain from Avena sativa as a switch to modulate the splicing activity of the split DnaE intein from Nostoc punctiforme. Periodic blue light illumination of LOVInC induced protein splicing activity in mammalian cells. To demonstrate the broad applicability of LOVInC, synthetic protein systems were engineered for the light-induced reassembly of several target proteins such as fluorescent protein markers, a dominant positive mutant of RhoA, caspase-7, and the genetically encoded Ca2+ indicator GCaMP2. Spatial precision of LOVInC was demonstrated by targeting activity to specific mammalian cells. Thus, LOVInC can serve as a general platform for engineering light-based control for modulating the activity of many different proteins.
Biochemical and Molecular Genetic Analysis of Hormone-Sensitive Adenylyl Cyclase (1987)

Over the past two decades, deadly coronaviruses, with the most recent being the severe acute respiratory syndrome-related coronavirus-2 (SARS-CoV-2) 2019 pandemic, have majorly challenged public health. The path for virus invasion into humans and other ...Read More
A study of Bessel Fourier moments invariant for image retrieval and classification (2011)

Various types of orthogonal moments have been widely used for object recognition and classification. This paper presents an effective way of extracting texture features, Bessel Fourier moments, for image retrieval and classification applications. The Bessel Fourier moments are calculated for rotation invariance and perform better in terms of represent global features than orthogonal Fourier-Mellin and Zernike moments. In order to achieve good results in CBIR experiments and image classification experiments using Bessel Fourier moments, we conduct experiments on four databases: the first one is a small 2D texture database formed by 400 images, and the rest are 2D color image databases with different relevant images formed by 1200 from the Amsterdam Library of Object Image (ALOI). The experiments show that the feature descriptors extracting with the proposed algorithm perform better for image retrieval and classification than conventional descriptors by comparing the retrieval accuracy, the same order.
Evolution of MRSA During Hospital Transmission and Intercontinental Spread (2010)

Current methods for differentiating isolates of predominant lineages of pathogenic bacteria often do not provide sufficient resolution to define precise relationships. Here, we describe a high-throughput genomics approach that provides a high-resolution view of the epidemiology and microevolution of a dominant strain of methicillin-resistant Staphylococcus aureus (MRSA). This approach reveals the global geographic structure within the lineage, its intercontinental transmission through four decades, and the potential to trace person-to-person transmission within a hospital environment. The ability to interrogate and resolve bacterial populations is applicable to a range of infectious diseases, as well as microbial ecology.
Maximum walking speeds obtained using treadmill and overground robot system in persons with post-stroke hemiplegia (2012)

With post-stroke hemiplegia, individuals are able to walk at faster speeds than their SMWS overground, when provided with a safe environment that provides external forces that requires them to attempt dynamic stability maintenance at higher gait speeds. Therefore, this study suggests the possibility that, given the appropriate conditions, people post-stroke can be trained at higher speeds than previously attempted.
Abstract P4-21-21: Her2 is not a cancer subtype but rather a driver found in all intrinsic subtypes and highly enriched in molecular apocrine tumors (2017)

Abstract Her2-enriched (Her2E) breast tumors defined by molecular profiling are discrepant from Her2-amplified tumors defined by clinical assessment – over half of all Her2-amplified tumors are not Her2E, while one-third of Her2E tumors are not Her2-amplified. We explored this discordance using genomic profiles of 4,000 breast tumors. We find clear support that Her2 amplification is a discrete cancer driver event and not a subtype, with little genomic impact other than in expression of genes on the amplicon. Many Her2-amplified tumors clearly belong to the basal, luminal A, or luminal B subtypes. After accounting for the Her2 amplicon, most tumors classified as Her2E appear to be molecular apocrine, expressing high levels of androgen receptor and low to moderate levels of ER. The high rate of Her2 amplification in this group (63%) suggests that additional growth drivers are required for molecular apocrine tumors. Her2 amplification is also a driver across subtypes of several non-breast tumor types. Her2 is amplified in 2% of 5,400 non-breast tumors, spanning 23 tumor types. The Her2 region in non-breast cancers shows a similar range of amplification and breadth of the amplicon, and a comparable rate of overexpression of genes within the amplicon for most Her2A tumors. These discoveries reveal therapeutic opportunities for combining anti-Her2 therapy with endocrine or anti-androgen agents for breast cancer, and for expanding anti-Her2 therapy to other tumor types. Citation Format: Daemen A, Manning G. Her2 is not a cancer subtype but rather a driver found in all intrinsic subtypes and highly enriched in molecular apocrine tumors [abstract]. In: Proceedings of the 2016 San Antonio Breast Cancer Symposium; 2016 Dec 6-10; San Antonio, TX. Philadelphia (PA): AACR; Cancer Res 2017;77(4 Suppl):Abstract nr P4-21-21.
The longitudinal relationship between the use of ergonomic measures and the incidence of low back complaints (2010)

This study did not find a statistically significant primary preventive effect of the use of ergonomic measures on low back complaints. Sustained use of effective ergonomic measures among a large group of young construction workers is necessary to provide possible evidence for a significant and relevant primary preventive effect of the use of ergonomic measures on low back complaints in the long term.
Bayesian Inference for Milling Stability Using a Random Walk Approach (2014)

Unstable cutting conditions limit the profitability in milling. While analytical and numerical approaches for estimating the limiting axial depth of cut as a function of spindle speed are available, they are generally deterministic in nature. Because uncertainty inherently exists, a Bayesian approach that uses a random walk strategy for establishing a stability model is implemented in this work. The stability boundary is modeled using random walks. The probability of the random walk being the true stability limit is then updated using experimental results. The stability test points are identified using a value of information method. Bayesian inference offers several advantages including the incorporation of uncertainty in the model using a probability distribution (rather than deterministic value), updating the probability distribution using new experimental results, and selecting the experiments such that the expected value added by performing the experiment is maximized. Validation of the Bayesian approach is presented. The experimental results show a convergence to the optimum machining parameters for milling a pocket without prior knowledge of the system dynamics.
Statistics of oxidation resistance of Ni–(0–15)Co–(8–15)Cr–(0–5)Mo–(0–10)W–(3–8)Al–(0–5)Ti–(0–10)Ta–0.1C–0.01B superalloys at 1000 °C by compositional variations (2018)

Abstract The effects of alloying elements (Co, Cr, Mo, W, Al, Ti, and Ta) on the oxidation resistance of Ni–(0–15)Co–(8–15)Cr–(0–5)Mo–(0–10)W–(3–8)Al–(0–5)Ti–(0–10)Ta–0.1C–0.01B alloys were studied. The sample compositions were designed by the Box–Behnken method of design of experiments (DOE). The alloying elements show complicated effects on the mass gain due to oxidation, depending on the alloy composition. Al reduces the mass gain largely. The other elements except Al do not appear to exert a strong effect on the oxidation rate on average, but their influences are shown clearly in the alloys with a low Al content. Co, W, and Ta reduce the oxidation rate, while Cr, Mo, and Ti promote oxidation. Ta is the most effective element in reducing the oxidation rate of the alloy with a low Al concentration. It is confirmed that a continuous Al 2 O 3 layer is essentially required for high oxidation resistance. The oxide scale of easily oxidized alloys has various oxides such as NiCr 2 O 4 , NiAl 2 O 4 , NiO, Cr 2 O 3 , CrTaO 4 , and TiO 2 .
Recent Studies of RNase P+ (2014)

This chapter is primarily a progress report on work with the enzyme from Escherichia coli. RNase P, the endonuclease responsible for the biosynthesis of the 5' termini of mature tRNA, is a ribonucleoprotein. The chapter primarily focuses on relationships between the structure and function of the subunits of RNase P, as determined from studies with the enzyme from eubacterial sources. Two important goals of current research on RNase P are identification of the active site of the enzyme and elucidation of the details of the chemical reaction governed by it. Several lines of evidence have implicated the region in M1 RNA that contains at least nucleotides 60 to 92, 230 to 260, and 290 to 360 as being essential for catalysis. The evidence comes from analysis of deletion mutants, studies of the binding of both individual tRNA precursors and the protein cofactor to M1 RNA, and studies of the binding of divalent metal ions to M1 RNA. Some point mutations that significantly affect the activity of M1 RNA are also located in these regions. A summary of these results is shown in the chapter. The protein cofactor of RNase P from E. coli (C5 protein) is a highly basic molecule of 119 amino acids, with a molecular mass of 13,800 daltons.
Supplementary Table S4 from Mutant NPM1 Hijacks Transcriptional Hubs to Maintain Pathogenic Gene Programs in Acute Myeloid Leukemia (2023)

&lt;p&gt;Supplemenary Table S4 shows the differential expressed genes in 25nM Selinexorvs DMSO treatment at 24hr in OCI-AML3-NPM1c-degron2 cells.&lt;/p&gt;
Design, Synthesis, and Anticancer Activity of Ruthenium Complexes (2012)

Ruthenium complexes show promise as light activated photodynamic therapy (PDT) prodrugs. Strained octahedral complexes were synthesized that produce a cytotoxic species upon light activation. pUC19 DNA damage in vitro experiments were carried out to determine the type of damage observed. In vivo cell experiments were carried out on the non-small lung cancer A549 cell line to determine the phototherapeutic window of the synthesized complexes. One mechanism of drug resistance via elevated levels of glutathione was addressed through in vitro binding studies carried out with UV-Vis spectroscopy and in vivo glutathione titrations in the A549 cell line. Several complexes were shown to be potential PDT agents with light-activated activities greater than cisplatin and 10-100 fold lower dark toxicities.
Gary L. Stamp (2019)

One of the originators and greatest champions of veterinary emergency and critical care. His impact was global in a way few veterinary surgeons can match.
EUV resist curing technique for LWR reduction and etch selectivity enhancement (2012)

This paper introduces a new technique utilizing a direct current superimposed (DCS) capacitively-coupled plasma (CCP) to enhance the etch selectivity to EUV resist with decreasing line width roughness (LWR). This new technique includes chemical and e-beam curing effects. DCS CCP generates ballistic electrons, which reform the chemical structure of photoresist. This surface modification hardens the photoresist (PR), and enhances the etch selectivity. The PR-hardening technique also improves the tolerance towards stress by polymer. Hence, a polymer becomes applicable to protect photoresist, and the etch selectivity increases even more. As a result, this cure can be processed without consuming the thickness of EUV resist. The mechanism of EUV resist cure is discussed based on the surface analysis. In addition to the basic physics of PR-hardening, this paper shows the benchmark results between DCS CCP and the conventional curing techniques by RIE, such as HBr cure and H<sub>2</sub> cure. Several new chemistries were applied to DCS CCP. In consequence, the PR-hardening by DCS CCP achieved a 33% reduction in LWR at pre-etch treatment, and a 30% reduction during under layer etch simultaneously maintaining enough thickness of EUV resist.
Diversity, interference cancellation and spatial multiplexing in MIMO mobile WiMAX systems (2007)

Multiple input multiple output (MIMO) techniques are an essential part of the IEEE 802.16e-2005 specifications, which form the basis of mobile WiMAX systems. In this paper, we first discuss the tradeoffs between diversity, interference cancellation and spatial multiplexing in MIMO systems, and we compare optimum combining (OC), maximum-ratio combining (MRC) and interference cancellation for different numbers of receive antennas. Then, we focus on the two mandatory MIMO profiles in the IEEE specifications (Alamouti's STC and the 2x2 spatial multiplexing scheme) and compare them when the first is combined with MRC at the receiver. The analysis obtained using the ITU pedestrian B channel in ideal conditions indicates that the two schemes lead to similar performance when they are operated at the same spectral efficiency
Simulations of Credits Concept with User Input for Collaborative Air Traffic Management (2010)

This paper describes the procedure and outcome of a human-in-the-loop simulation experiment. The purpose of the simulation was to study feasibility of incorporating user flight preferences in air traffic demand and capacity management. Five airline dispatchers specified flight priorities for multiple routes. These priorities were used for airspace constraint management by creating a new credit ranked flight departure schedule. One air traffic manager prescribed and managed the airspace constraints. The dispatchers were trained on the system using different traffic scenarios. A realistic data set with convective weather was used for generating final results. Based on the experiment results, the credits concept allowed users to prioritize their flights and to distribute delays as per their preference. It was also observed that the delays could be reduced and better distributed among users with respect to a first-come-first served schedule, without violating airspace constraints. The study elicited several factors for prioritizing flights from the users’ perspective, which could be used in future fast-time simulations.
Mechanisms of anode power deposition in a low pressure free burning arc (1996)

Anode power deposition is a dominant power loss mechanism for arcjets and magnetoplasmadynamic (MPD) thrusters. In this study, a free burning arc experiment was operated at pressures and current densities similar to those in arcjets and MPD thrusters in an attempt to identify the physics controlling this loss mechanism. Use of a free burning arc allowed for the isolation of independent variables controlling anode power deposition and provided a convenient and flexible way to cover a broad range of currents, anode surface pressures, and applied magnetic field strengths and orientations using an argon gas. Test results showed that anode power deposition decreased with increasing anode surface pressure up to 6.7 Pa and then became insensitive to pressure. Anode power increased with increasing arc current, while the electron number density near the anode surface increased linearly. Anode power also increased with increasing applied magnetic field strength due to an increasing anode fall voltage. Applied magnetic field orientation had an effect only at high currents and low anode surface pressures, where anode power decreased when applied-field lines intercepted the anode surface. The results demonstrated that anode power deposition was dominated by the kinetic energy of the current-carrying electrons acquired over the anode fall region. Furthermore, the results showed that anode power deposition can be reduced by operating at increased anode pressures, reduced arc currents, anode current densities, and applied magnetic field strengths, and with magnetic field lines intercepting the anode.
Measuring pH in low ionic strength glacial meltwaters using ion selective field effect transistor (ISFET) technology (2021)

Abstract Measuring pH in glacial meltwaters is challenging, because they are cold, remote, subject to freeze‐thaw cycles and have low ionic strength. Traditional methods often perform poorly there; glass electrodes have high drift and long response times, and spectrophotometric techniques are unpractical in cold, remote environments. Ion selective field effect transistor (ISFET) sensors are a promising alternative, proven in marine and industrial applications. We assess the suitability of two models of ISFET, the Honeywell Durafet and Campbell Scientific Sentron, for use in glacial melt through a series of lab and field experiments. The sensors have excellent tolerance of freeze‐thaw and minimal long‐term drift, with the Durafet experiencing less drift than the Sentron model. They have predictable response to temperature, although the Durafet housing causes some lag during rapid cycling, and the impact of stirring is an order of magnitude less than that of glass electrodes. At low ionic strength (&lt; 1 mmol L −1 ), there is measurable error, but this is quantifiable, and less than glass electrodes. Field tests demonstrated low battery consumption, excellent longevity and resistance to extreme conditions, and revealed biogeochemical processes that were unlikely to be recorded by standard methods. Meltwater pH in two glacial catchments in Greenland remained &gt; 7 with consistent diurnal cycles from the very first meltwater flows. We recommend that ISFET sensors are used to assess the pH of glacial meltwater, since their tolerance is significantly better than alternative methods: the Durafet is accurate to ± 0.2 pH when waters are &gt; 1 mmol L −1 ionic strength, and ± 0.3 pH at &lt; 1 mmol L −1 .
A randomized pilot study comparing safety and efficacy of irinotecan plus S-1 plus bevacizumab (IRIS+BV) and modified FOLFIRI plus BV (mFOLFIRI+BV) in patients (pts) with metastatic colorectal cancer (mCRC): The result of efficacy report of T-CORE0702. (2011)

e14001 Background: We conducted a randomized pilot study to compare the safety and efficacy of IRIS+BV and mFOLFIRI+BV against Japanese mCRC (T-CORE0702) and reported that IRIS+BV is a safe regimen with low hemtotoxicity and GI toxicity compared with mFOLFIRI+BV (ASCO GI 2011, abstract #496, S Kato et al.). This is the efficacy report of T-CORE0702. Methods: From July 2007 to March 2010, 60 pts with mCRC were randomized to compare 30 pts for IRIS+BV (CPT-11 150 mg/m2 infusion on day 1, S-1 80 mg/m2 orally on day 3-16, q3w) with 30 pts for mFOLFIRI+BV (CPT-11 150mg/m2). Tumor assessments were performed by every 6weeks. Tumor responses were assessed using RECIST 1.0 criteria by institutional evaluation and confirmed by blinded central monitoring. Results: Background of pts was well balanced among two arms. Among G3/4 nonhematological AEs, gastrointestinal toxicities were lower in IRIS+BV arm than mFOLFIRI+BV arm (anorexia: 3.5% vs. 17.9%, nausea: 0% vs. 7.1%, diarrhea: 6.9% vs. 14.3%, stomatitis: 0% vs. 3.6%). Nausea, vomiting and hair loss were significantly lower in IRIS+BV arm than mFOLFIRI+BV arm (p<0.05). Fifty-one pts (IRIS arm 25, mFOLFIRI arm 26) had measurable lesion defined by RECIST criteria (ver1.0). Background of pts was well balanced among two arms. RRs (central monitoring) were 72.0 % in IRIS (CR 2, PR 16, SD 5, and PD 2) and 61.5 % in mFOLFIRI arm (CR 0, PR 16, SD 8, and PD 2). Median progression free survival was 345 days versus 324 days with IRIS+BV versus mFOLFIRI+BV, respectively. Conclusions: The efficacy of our IRIS+BV regimen is comparable with mFOLFIRI regimen.
Cerebellar Cysticercosis Caused by LarvalTaenia crassicepsTapeworm in Immunocompetent Woman, Germany (2013)

Human cysticercosis caused by Taenia crassiceps tapeworm larvae involves the muscles and subcutis mostly in immunocompromised patients and the eye in immunocompetent persons. We report a successfully treated cerebellar infection in an immunocompetent woman. We developed serologic tests, and the parasite was identified by histologic examination and 12s rDNA PCR and sequencing.
First 100 segmental labral reconstructions compared to the most recent 100: the role of surgeon experience in decreasing conversion to total hip arthroplasty (2019)

IV.
Challenges in Modelling Optical Fibres for Spatial Division Multiplexing (2020)

We review recent studies of the nonlinear interference in spatial division multiplexing systems. Different solution methods of the multimode Schrödinger equation are compared, highlighting the accuracy of a stochastic solution method including distributed mode coupling.
Development and Performance of a Digital Image Radiometer for Heliostat Evaluation at Solar One (1985)

A review is presented of the development, performance, and operation of a digital image radiometer (DIR) used to evaluate and enhance heliostat optical and tracking performance at the Solar One 10 MWe pilot plant at Daggett, Calif. The system, termed the beam characterization system (BCS), is based on digitizing, calibrating, and computer-processing video images of heliostat-reflected beams displayed on four 30- by 40-ft targets located on the tower beneath the receiver. Additionally, the radiance distribution of the sun is simultaneously recorded by a separate, specially modified solar-tracking video camera. The basic theory and analytical techniques used to determine beam centroid error (i.e., heliostat pointing errors), the actual incident beam power, spillage power off the receiver, and solar radiance distribution are described. The computer system is presented including the automatic data acquisition mode, the interface with the heliostat array controller (HAC), and the data acquisition system (DAS). Data display for plant operator purposes and additional data acquired and stored for more detailed engineering evaluations are discussed. Advanced applications of the DIR such as determination of total incident flux on a receiver from a field of heliostats, reflectance monitoring, and measurement of atmospheric attenuation are presented.
Triangulating Simple Polygons and Equivalent Problems (1984)

It' has long been known that the complexity of triangulation of simple polygons having an upper bound of 0 (n log n) but a lower bound higher than ~(n) has not been proved yet. We propose here an easily implemented route to the triangulation of simple polygons through the trapezoidization of simple polygons, which is currently done in O(n log n). Then the trapezoidized polygons are triangulated in O(n) time. Both of those steps can be performed on polygons with holes with the same complexity.
Ear click in palatal tremor (1991)

We report the successful treatment of a rhythmic, continuing ear click in a patient with palatal tremor with local injections of botulinum toxin into the tensor veli palatini muscle. We could demonstrate that the ear click occurred during contraction of the tensor veli palatini, which opens the eustachian tube. Therefore, we believe that the clicking noise is due to the sudden breakdown of the surface tension within the eustachian tube. Our observations suggest that the ear click is due to rhythmic discharges of the trigeminal nucleus rather than the ambiguous nucleus.