gebhart/patrepeval huggingface dataset:
A streptavidin mutant with altered ligand-binding specificity (1998)

The biotin-binding site of streptavidin was modified to alter its ligand-binding specificity. In natural streptavidin, the side chains of N23 and S27 make two of the three hydrogen bonds with the ureido oxygen of biotin. These two residues were mutated to severely weaken biotin binding while attempting to maintain the affinity for two biotin analogs, 2-iminobiotin and diaminobiotin. Redesigning of the biotin-binding site used the difference in local electrostatic charge distribution between biotin and these biotin analogs. Free energy calculations predicted that the introduction of a negative charge at the position of S27 plus the mutation N23A should disrupt two of the three hydrogen bonds between natural streptavidin and the ureido oxygen of biotin. In contrast, the imino hydrogen of 2-iminobiotin should form a hydrogen bond with the side chain of an acidic amino acid at position 27. This should reduce the biotin-binding affinity by approximately eight orders of magnitude, while leaving the affinities for these biotin analogs virtually unaffected. In good agreement with these predictions, a streptavidin mutant with the N23A and S27D substitutions binds 2-iminobiotin with an affinity (Ka) of 1 x 10(6) M-1, two orders of magnitude higher than that for biotin (1 x 10(4) M-1). In contrast, the binding affinity of this streptavidin mutant for diaminobiotin (2.7 x 10(4) M-1) was lower than predicted (2.9 x 10(5) M-1), suggesting the position of the diaminobiotin in the biotin-binding site was not accurately determined by modeling.
Printed and Flexible Dual-color polymer light-emitting diodes (PLEDs) for optoelectronic sensors (Conference Presentation) (2017)

Here we demonstrate blade coated polymer light-emitting diodes (PLEDs) with different colors on a flexible substrate for optoelectronic sensor applications. Flexible electronics conform well to human body, which makes them favorable for wearable application. Blade coating is an attractive printing scheme to fabricate electronic devices, in that it is simple to configure and has high throughput. Here, surface energy patterning (SEP) is used to blade coat solution at desired areas. This technique reduces the amount of solution wasted through the sides of the blade, as compared to bladecoating without SEP, which leads to highly homogeneous active layer film and relatively consistent device performance. Using this technique, PLEDs with individual colors, red, green and near infrared (NIR) which are known colors that can be used to detect the condition of haemoglobin, are separately fabricated with blade coating. Luminous Efficacy and EQE of the PLEDs at 1Wsr-1m-2 were 42.7mW/W, 10% for Red, 31.2mW/W, 6.3% for Green, and 8.6mW/W, 3.1% for NIR. Also, SEP is further utilized to bladecoat two PLEDs with different colors on one substrate with no significant changes in the performance of the PLEDs. Before fabricating PLEDs for optoelectronic sensors we assessed design parameters such as minimum required flux and ideal distance between the light source and the detector using solid-state components. Based on the experiment, the PLEDs are fabricated to be used in conjunction with a photodiode to perform pulsating photoplethysmogram (PPG) measurements. Furthermore, with the multicolor PLEDs we successfully demonstrate oxygenation measurement.
A novel [3,3]-rearrangement of 1,2-dihydro-N-(arylamino)pyridines. Formation of unusual fused indolines (1986)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTA novel [3,3]-rearrangement of 1,2-dihydro-N-(arylamino)pyridines. Formation of unusual fused indolinesRudolph A. Abramovitch, Antonio Carlos Siani, Gottfried Huttner, Laszlo Zsolnai, and Joseph MillerCite this: J. Org. Chem. 1986, 51, 24, 4739–4741Publication Date (Print):November 1, 1986Publication History Published online1 May 2002Published inissue 1 November 1986https://pubs.acs.org/doi/10.1021/jo00374a052https://doi.org/10.1021/jo00374a052research-articleACS PublicationsRequest reuse permissionsArticle Views205Altmetric-Citations7LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Room-Temperature Photon-Number-Resolved Detection Using A Two-Mode Squeezer (2018)

We study the average intensity-intensity correlations signal at the output of a two-mode squeezing device with |&#x01d441;⟩ ⊗ |&#x01d6fc;⟩ as the two input modes. We show that the input photon-number can be resolved from the average intensity-intensity correlations. In particular, we show jumps in the average intensity-intensity correlations signal as a function of input photon-number N. Therefore, we propose that such a device may be deployed as photon-number-resolving detector at room temperature with high efficiency.
Sarcoidosis and leprosy--an epidemiological, clinical, pathological and immunological comparison. (1989)

Whilst the close relationship between sarcoidosis and tuberculosis has long been recognized, the similarity of sarcoidosis to leprosy has remained in the background. In most of the developing world sarcoidosis has been apparently eclipsed by the high prevalence of these two common mycobacterial diseases. The relevant epidemiological, clinical, immunological and pathological features of leprosy and sarcoidosis are compared and contrasted.
Crosstalk effects caused by the geometry of piezoelectric elements in matrix ultrasonic transducers (2011)

Crosstalk is a result of the deficiency in the electrical or mechanical isolation between elements. It is a function of the proximity between piezoelectric elements of the transducer or between connections. It can be caused by a series of factors, such as: the deficiency in the electromagnetic shield, the capacitive effect between the elements or the electrical connections, or by the transmission of vibration modes to adjacent elements due to insufficient mechanical isolation. It also depends on the geometry of the elements and the connecting material between elements. The evaluation of the crosstalk effects caused by the geometry of the piezoelectric elements in matrix ultrasonic transducers is presented. Measurement methods of the radiation patterns and vectorial impedance for the identification of crosstalk are described. The procedure of the measurement of crosstalk, done by Sanchez Dominguez and von Kruger (2002), was applied to an eight elements phase onedimension matrix transducer for Doppler ultrasound application. In fact, two cases are presented, in one of them a piezoelectric element of the matrix with initial dimensions of 10.0 × 4.4 × 0.66 mm was used, and in the other case a piezoelectric element with initial dimensions of 10.0 × 0.7 × 0.66 mm was used (element are made of Lead Zirconate Titanate, also called PZT). From the results we deduce that it is possible to reduce the crosstalk effect using insulating material with low electromechanical coupling coefficient between the ceramics of the array or using materials that promote good mechanical insulation between the ceramics.
Road Surface 3D Reconstruction Based on Dense Subpixel Disparity Map Estimation (2018)

Various 3D reconstruction methods have enabled civil engineers to detect damage on a road surface. To achieve the millimetre accuracy required for road condition assessment, a disparity map with subpixel resolution needs to be used. However, none of the existing stereo matching algorithms are specially suitable for the reconstruction of the road surface. Hence in this paper, we propose a novel dense subpixel disparity estimation algorithm with high computational efficiency and robustness. This is achieved by first transforming the perspective view of the target frame into the reference view, which not only increases the accuracy of the block matching for the road surface but also improves the processing speed. The disparities are then estimated iteratively using our previously published algorithm where the search range is propagated from three estimated neighbouring disparities. Since the search range is obtained from the previous iteration, errors may occur when the propagated search range is not sufficient. Therefore, a correlation maxima verification is performed to rectify this issue, and the subpixel resolution is achieved by conducting a parabola interpolation enhancement. Furthermore, a novel disparity global refinement approach developed from the Markov Random Fields and Fast Bilateral Stereo is introduced to further improve the accuracy of the estimated disparity map, where disparities are updated iteratively by minimising the energy function that is related to their interpolated correlation polynomials. The algorithm is implemented in C language with a near real-time performance. The experimental results illustrate that the absolute error of the reconstruction varies from 0.1 mm to 3 mm.
Studies on Respiratory Infections in Primary Care Clinic (V) The Pattern of Distribution on Bacteria, Mycoplasma pneumoniae and Virus Isolated from Patients with Respiratory Infections, Who Were Seen in Six Private Clinics, and Clinical Efficacy of Ciprofloxacin and Roxithromycin (1994)

The pattern of distribution of bacteria, Mycoplasma pneumoniae and virus isolated from the same specimen recovered from the throat swab or the sputum of 479 patients with respiratory infections who were seen in six private clinics in Sendai City of Japan during the period from October to November in 1992 (period I) and from January to February in 1993 (period II) was documented. Of the 479 patients, 234 had acute pharyngitis, 145 had acute bronchitis, 96 had influenza, 21 had acute tonsillitis, 5 had acute pneumonia and 9 had other respiratory infections. One hundred (42.4%) strains of potential pathogen and one strain of M. pneumoniae were recovered from 236 cases in period I, and 66 (27.2%) strains of potential pathogen, one strain of M. pneumonae and 73 strains of Influenza virus (30.0%: 43 of type A Hong-Kong and 30 of type B) from 243 cases in period II. Of the 166 strains, major isolates were Staphylococcus aureus (56 strains), Streptococcus pneumoniae (12 strains), Streptococcus pyogenes (15 strains), Haemophilus influenzae (17 strains), Esherichia coli (4 strains), Klebsiella spp. (35 strains), Pseudomonas aeruginosa (4 strains) and Acinetobacter spp. (23 strains). Only one strain of S. aureus was resistant to methicillin (MIC: 50 micrograms/ml). None of S. pneumoniae was resistant to 1 microgram/ml of ampicillin. Ciprofloxacin was administered to 113 cases and roxythromycin to 220 cases by doctors in charge.(ABSTRACT TRUNCATED AT 250 WORDS)
Evaluating Top-k Selection Queries (1999)

In many applications, users specify target values for certain attributes, without requiring exact matches to these values in return. Instead, the result to such queries is typically a rank of the &amp;quot;top k&amp;quot; tuples that best match the given attribute values. In this paper, we study the advantages and limitations of processing a top-k query by translating it into a single range query that traditional relational DBMSs can process e#ciently. In particular, we study how to determine a range query to evaluate a top-k query by exploiting the statistics available to a relational DBMS, and the impact of the quality of these statistics on the retrieval e#ciency of the resulting scheme. 1 Introduction Internet Search engines rank the objects in the results of selection queries according to how well these objects match the original selection condition. For such engines, query results are not flat sets of objects that match a given condition. Instead, query results are ranked starting ...
Activation of spleen tyrosine kinase is required for TNF‐α‐induced endothelin‐1 upregulation in human aortic endothelial cells (2012)

Endothelin-1 (ET-1) promotes atherosclerosis. We tested whether spleen tyrosine kinase (Syk) mediates tumor necrosis factor-α (TNF-α)-induced ET-1 upregulation in human aortic endothelial cells (HAECs) and sought to identify the signal pathways involved. TNF-α-induced reactive oxygen species (ROS) activated Syk and phosphatidylinositol 3-kinase (PI3K), which was required for the activation of AP-1 and subsequent ET-1 gene transcription. ROS mediated c-Jun NH(2)-terminal kinase (JNK) is also required for AP-1 activation, but Syk and PI3K regulated AP-1 activation independently of JNK. Through regulation of ET-1 production, Syk could be implicated in atherosclerosis.
Safety and Efficacy of Suicide Gene Therapy with Adenosine Deaminase 5-Fluorocytosine Silmutaneously in in Vitro Cultures of Melanoma and Retinal Cell Lines (2014)

Local treatment as a treatment modality is gaining increased general acceptance over time. Novel drugs and methodologies of local administration are being investigated in an effort to achieve disease local control. Suicide gene therapy is a method that has been investigated as a local treatment with simultaneously distant disease control. In our current experiment we purchased HTB-70 (melanoma cell line, derived from metastatic axillary node) and CRL-2302 (human retinal epithelium) were from ATCC LGC Standards and Ancotil(®), 2.5 g/250 ml (1 g/00ml) (5-Flucytosine) MEDA; Pharmaceuticals Ltd. UK. Adenosine Cytosine Deaminase (Ad.CD) was also used in order to convert the pro-drug 5-Flucytosine to the active 5-Fluoracil. Three different concentrations of 5-Flucytosine (5-FC) were administered (0.2ml, 0.8ml and 1.2ml). At indicated time-points (4h, 8h and 24h) cell viability and apoptosis were measured. Our concept was to investigate whether suicide gene therapy with Ad. CD-5-FC could be used with safety and efficiency as a future local treatment for melanoma located in the eye cavity. Indeed, our results indicated that in every 5-FC administration had mild cytotoxicity for the retinal cells, while increased apoptosis was observed for the melanoma cell line.
Ripening of Cheddar Cheese with Added Attenuated Adjunct Cultures of Lactobacilli (2000)

We made Milled curd Cheddar cheese with Lactococcus starter and an adjunct culture of Lactobacillus helveticus I or Lactobacillus casei T subjected to different attenuation treatments: freeze shocking (FS), heat shocking (HS), or spray drying (SD). Proteolysis during cheese ripening (0 to 6 mo), measured by urea-PAGE and water-soluble nitrogen, indicated only minor differences between control and most adjunct-treated cheeses. However, there were significant differences in the effect of Lactobacillus adjuncts on the level of free amino nitrogen in cheese. Cheeses made with FS or HS Lb. helveticus adjunct exhibited significantly greatest rates of free amino group formation. Lipolysis as measured by total free fatty acids was consistently highest in adjunct-treated cheeses, and FS Lb. casei-treated cheeses showed the highest rate of free fatty acid formation followed by FS Lb. helveticus treated cheeses. Mean flavor and aroma scores were significantly higher for cheeses made with Lb. helveticus strain. Freeze-shocked Lb. helveticus-treated cheeses obtained the highest flavor and aroma scores. Sensory evaluation indicated that most of the adjunct-treated cheeses promoted better texture and body quality.
The Effects of Unbroken Fracture Fluid on Gaswell Performance (1996)

Summary Research sponsored by the Gas Research Inst. (GRI) indicates unbroken fracture fluids can lower gas reserves by 30%, reduce initial gas rates by 80%, and delay fracture-fluid cleanup by weeks or months. The unbroken fracture fluids flatten the production profile. In extreme cases, gas production slowly increases for weeks or months despite constant flowing pressures. The fracture fluids must break to a viscosity of 50 cp or less to ensure that gas reserves are maximized.
Synthesis of New Liquid Crystalline Compounds Containing a β‐Hydroxyketone Fragment in the Side Chain. (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
Mental Workload Assessment During Physical Activity Using Non-linear Movement Artefact Robust Electroencephalography Features (2019)

Assessment of mental workload is crucial in safety-critical applications. Often, such applications require the user to be ambulant, such as first responders (e.g., paramedics, firefighters, or police officers). Typically, mental workload models have relied on electroencephalography (EEG) signals. EEGs, however, are known to be highly sensitive to movement artefacts, thus limited applications exist for ambulant users and studies have mostly occurred in controlled laboratory settings. In this paper, we explore the robustness of new non-linear features against movement artefacts and test their effectiveness in monitoring mental workload for ambulant users with the end goal of developing mitigation measures based on mental state of operators. To this end, an EEG experiment was conducted where mental workload and physical activity levels were modulated simultaneously and data was collected from 48 participants. Classical EEG features used for workload assessment, such as spectral power and amplitude/phase coherence, were used as benchmarks and compared against the proposed non-linear multi-scale permutation entropy features. Experimental results show the proposed features consistently outperforming the benchmark ones, thus high-lighting their robustness to movement artefacts.
Reliability of an Industrial Wireless Communication System using Approximate Units (2019)

In the last decade, approximate computing has gained a lot of research attention as one of the most promising energy-efficient computing paradigms. In the meantime, the wireless communication development driven by the ongoing paradigm shift of Industry 4.0 (I40) and Industrial Internet of Things (IIoT) has been growing enormously. This paper presents a use case study of the impact of approximate adders in industrial wireless communication. The results show the uncorrelation between the traditional metrics used to optimize approximate units and the actual impact at the system level.
Zebrafish Cancer Avatars: A Translational Platform for Analyzing Tumor Heterogeneity and Predicting Patient Outcomes (2023)

The increasing number of available anti-cancer drugs presents a challenge for oncologists, who must choose the most effective treatment for the patient. Precision cancer medicine relies on matching a drug with a tumor's molecular profile to optimize the therapeutic benefit. However, current precision medicine approaches do not fully account for intra-tumoral heterogeneity. Different mutation profiles and cell behaviors within a single heterogeneous tumor can significantly impact therapy response and patient outcomes. Patient-derived avatar models recapitulate a patient's tumor in an animal or dish and provide the means to functionally assess heterogeneity's impact on drug response. Mouse xenograft and organoid avatars are well-established, but the time required to generate these models is not practical for clinical decision-making. Zebrafish are emerging as a time-efficient and cost-effective cancer avatar model. In this review, we highlight recent developments in zebrafish cancer avatar models and discuss the unique features of zebrafish that make them ideal for the interrogation of cancer heterogeneity and as part of precision cancer medicine pipelines.
Would Tirofiban Have Been Shown Non‐Inferior to Abciximab Had the TENACITY Trial Not Been Terminated for Financial Reasons? (2013)

TENACITY was well powered to identify non-inferiority with tirofiban versus abciximab, and the patients enrolled strengthened the probability that this would have been the outcome had the trial been completed. When a clinical trial is terminated solely for financial reasons, it is incumbent upon the sponsor to provide proper patient follow-up and publication of the findings.
Supplementary table 3 from Estrogen Receptor α Promotes Breast Cancer by Reprogramming Choline Metabolism (2023)

&lt;p&gt;Changed levels of intracellular metabolites in MCF7 and T47 D cells in response to estrogen&lt;/p&gt;
Effective Prevention of Charge Trapping in Graphitic Carbon Nitride with Nanosized Red Phosphorus Modification for Superior Photo(electro)catalysis (2017)

Abstract The high occurrence of trapped unreactive charges due to chemical defects seriously affects the performance of g‐C 3 N 4 in photocatalytic applications. This problem can be overcome by introducing ultrasmall red phosphorus (red P) crystals on g‐C 3 N 4 sheets. The elemental red P atoms reduce the number of defects in the g‐C 3 N 4 structure by forming new chemical bonds for much more effective charge separation. The product shows significantly enhanced photocatalytic activity toward hydrogen production. To the best of our knowledge, the hydrogen evolution rate obtained on this hybrid should be the highest among all P‐containing g‐C 3 N 4 photocatalysts reported so far. The trapping and detrapping processes in this red P/g‐C 3 N 4 system are thoroughly revealed by using time‐resolved transient absorption spectroscopy.
Identification of Network Dynamics and Disturbance for a Multi-zone Building (2019)

We propose a method that simultaneously identifies a sparse transfer matrix and disturbance for a multi-zone building’s dynamics from input-output measurements. An l1-regularized least-squares optimization problem is solved to obtain a sparse solution, so that only dominant interactions among zones are retained in the model. The disturbance is assumed to be piecewise-constant: the assumption aids identification and is motivated by the nature of occupancy that determines the disturbance. Application of our method on data from a simulation model shows promising results.
Decision tree classification of spatial data streams using Peano Count Trees (2002)

Many organizations have large quantities of spatial data collected in various application areas, including remote sensing, geographical information systems (GIS), astronomy, computer cartography, environmental assessment and planning, etc. These data collections are growing rapidly and can therefore be considered as spatial data streams. For data stream classification, time is a major issue. However, these spatial data sets are too large to be classified effectively in a reasonable amount of time using existing methods. In this paper, we developed a new method for decision tree classification on spatial data streams using a data structure called Peano Count Tree (P-tree). The Peano Count Tree is a spatial data organization that provides a lossless compressed representation of a spatial data set and facilitates efficient classification and other data mining techniques. Using P-tree structure, fast calculation of measurements, such as information gain, can be achieved. We compare P-tree based decision tree induction classification and a classical decision tree induction method with respect to the speed at which the classifier can be built (and rebuilt when substantial amounts of new data arrive). Experimental results show that the P-tree method is significantly faster than existing classification methods, making it the preferred method for mining on spatial data streams.