gebhart/patrepeval huggingface dataset:
Potential biocide roles of violacein (2023)

Violacein is a pigment produced by Gram-negative bacteria, which has shown several beneficial biological activities. The most relevant activities of violacein include the interference in the physiological activities of biological membranes, inhibition of cell proliferation, antioxidant, and anti-inflammatory activities. Moreover, the antiviral activities of violacein against some enveloped and non-enveloped viruses have also been reported. Violacein showed a wide spectrum of protease inhibition, both experimentally and in silico. Other in silico studies have suggested that violacein binds to the SARS-CoV-2 spike. Empirical physicochemical studies indicate that violacein (or, occasionally, its derivatives) may be administered orally to treat different disorders. In addition, different alternatives to product violacein, and molecular devices for delivery of this pigment are reviewed.
Design Considerations for Information Planes. (2004)

Abstract — The concept of an information plane has emerged recently as an important part of large, decentralized systems that aspire to be self-managing, ranging from PlanetLab to the Internet itself. In this paper we describe what an information plane is, and report our experiences in developing and deploying an information plane for the PlanetLab platform using the PIER distributed relational query processor. We recount the lessons we have learned from the experience, and the additional directions we intend to explore in the PHI project, which aims at providing an information plane that can grow to serve a significant portion of the Internet. 1.
Hypoxia inducible factor (HIF) as a model for studying inhibition of protein–protein interactions (2017)

The modulation of protein-protein interactions (PPIs) represents a major challenge in modern chemical biology. Current approaches (<i>e.g.</i> high-throughput screening, computer aided ligand design) are recognised as having limitations in terms of identification of hit matter. Considerable success has been achieved in terms of developing new approaches to PPI modulator discovery using the p53/<i>h</i>DM2 and Bcl-2 family of PPIs. However these important targets in oncology might be considered as "low-hanging-fruit". Hypoxia inducible factor (HIF) is an emerging, but not yet fully validated target for cancer chemotherapy. Its role is to regulate the hypoxic response and it does so through a plethora of protein-protein interactions of varying topology, topography and complexity: its modulation represents an attractive approach to prevent development of new vasculature by hypoxic tumours.
Study of Tsunami Force acting on Buildings behind the Seawalls with CADMAS-SURF/3D (2014)

After 2011 Tohoku-Oki Earthquake, construction of seawalls with tenacious structure is needed, but there are few studies about change of tsunami force acting on buildings behind the seawalls according to construction of them. So in this study, we looked into the applicability of CADMAS-SURF/3D to calculate tsunami force through reproduction calculation of physical model experiment which was conducted by Arikawa and Oie (2014), and consider about change of tsunami force according to seawalls condition. The results of this study are as follows; 1) The tsunami force acting on buildings behind the seawalls is well reproduced with CADMAS-SURF/3D, 2) Depending on the distance from seawalls, some cases with seawalls have bigger coefficient of pressure α than the cases with no seawalls.
Correlated susceptibility between interferon-beta and UV in human cell lines, F-IFr and RSa (1996)

The human cell line F-IFr is a variant with an increased resistance to cell proliferation inhibition (CPI) by human interferon (HuLFN)-beta, established from RSa cells with high sensitivity to CPI. The parent RSa cells were recently found to be unusually hypermutable after irradiation with far-ultraviolet light (UV), as assessed by two different methods; estimation of the cloning efficiency of ouabain-resistant (Oua(R)) mutants and detection of K-ras codon 12 mutation in genomic DNA identified by polymerase chain reaction following differential dot blot hybridization. In the present study, F-IFr cells were found to be hypomutable; less than one Oua(R) mutant per 10(4) survival cells after UV (0-12 J/m(2)), in contrast to 0.51-85 Oua(R) mutants per 10(4) survivors in RSa cells, and no detectable K-ras codon 12 mutation at any UV dose tested. However, F-IFr cells, when cultured with medium containing the protease inhibitor antipain immediately and transiently after UV irradiation displayed hypermutability to almost the same extent as RSa cells by both phenotypic and genetic mutation analyses. The refractoriness of F-IFr cells to HuIFN-beta CPI was also suppressed by culture with medium containing antipain during HuIFN-beta exposure. Moreover, F-IFr cells irradiated with UV or treated with HuIFN-beta showed elevation of antipain-sensitive protease activity, but not the irradiated or treated RSa cells. UV- and HuIFN-beta-susceptibility were not modulated by antipain in RSa cells. These antipodal characteristics between the two cell lines suggested that antipain-sensitive proteases and/or cellular functions may be involved in increased resistance of F-IFr cells to both Wand HuIFN-beta refractoriness.
An Antigen Reacting with Das-1 Monoclonal Antibody Is Ontogenically Regulated in Diverse Organs Including Liver and Indicates Sharing of Developmental Mechanisms Among Cell Lineages (2000)

The monoclonal antibody designated mAb Das-1, which was generated against a colon epithelial protein, reacts with the normal biliary epithelium and keratinocytes, which are among targets of tissue injury in ulcerative colitis. Moreover, mAb Das-1 reacts with abnormal cells in Barrett's esophagus and chronic cystitis profunda, as well as so-called 'oval cells' in the adult liver, which are considered oncogenic progenitor cells. To establish ontogenic regulation of mAb Das-1 reactivity, we studied 7- to 24-week-old human fetuses by immunohistochemistry. In liver, mAb Das-1 reactivity was further correlated with glycogen, dipeptidyl peptidase IV, glucose-6-phosphatase and gamma-glutamyl transpeptidase expression. mAb Das-1 reacted with cells in organs arising from the pharyngeal cleft (thymus), primitive gut (oral cavity, pharynx, lung, esophagus, stomach, biliary tree, pancreas, liver, colon), ureteric bud (renal tubules, collecting duct), mesonephros (kidney, testis), mesoderm (muscle) and elsewhere (skin, adrenal cortex). In distinction from the adult liver, mAb Das-1 staining was more pronounced in hepatoblasts compared with biliary cells. In adult tissues, however, mAb Das-1 reactivity was restricted to the colon, biliary epithelium, keratinocytes, and ciliary body. These data indicated that the mAb Das-1 recognized epitopes in fetal cells of diverse ectodermal, mesodermal and endodermal origin, compatible with sharing of lineage mechanisms in tissues. Reactivation of mAb Das-1 staining in epithelial precancerous conditions, including carcinomas arising in these organs, is compatible with oncofetal regulation of the antigen, which will facilitate analysis of cell subpopulations during organ development, regeneration and oncogenesis.
An In-Networking Double-Layered Data Reduction for Internet of Things (IoT) (2019)

Due to the ever-increasing number and diversity of data sources, and the continuous flow of data that are inevitably redundant and unused to the cloud, the Internet of Things (IoT) brings several problems including network bandwidth, the consumption of network energy, cloud storage, especially for paid volume, and I/O throughput as well as handling huge amount of stored data in the cloud. These call for data pre-processing at the network edge before data transmission over the network takes place. Data reduction is a method for mitigating such problems. Most state-of-the-art data reduction approaches employ a single tier, such as gateways, or two tiers, such gateways and the cloud data center or sensor nodes and base station. In this paper, an approach for IoT data reduction is proposed using in-networking data filtering and fusion. The proposed approach consists of two layers that can be adapted at either a single tier or two tiers. The first layer of the proposed approach is the data filtering layer that is based on two techniques, namely data change detection and the deviation of real observations from their estimated values. The second layer is the data fusion layer. It is based on a minimum square error criterion and fuses the data of the same time domain for specific sensors deployed in a specific area. The proposed approach was implemented using Python and the evaluation of the approach was conducted based on a real-world dataset. The obtained results demonstrate that the proposed approach is efficient in terms of data reduction in comparison with Least Mean Squares filter and Papageorgiou's (CLONE) method.
Development and validation of the COVID-19 severity index (CSI): a prognostic tool for early respiratory decompensation (2020)

Abstract Objective The goal of this study was to create a predictive model of early hospital respiratory decompensation among patients with COVID-19. Design Observational, retrospective cohort study. Setting Nine-hospital health system within the Northeastern United States. Populations Adult patients (≥ 18 years) admitted from the emergency department who tested positive for SARS-CoV-2 (COVID-19) up to 24 hours after initial presentation. Patients meeting criteria for respiratory critical illness within 4 hours of arrival were excluded. Main outcome and performance measures We used a composite endpoint of critical illness as defined by oxygen requirement (greater than 10 L/min by low-flow device, high-flow device, non-invasive, or invasive ventilation) or death within the first 24 hours of hospitalization. We developed models predicting our composite endpoint using patient demographic and clinical data available within the first four hours of arrival. Eight hospitals ( n = 932) were used for model development and one hospital ( n = 240) was held out for external validation. Area under receiver operating characteristic (AU-ROC), precision-recall curves (AU-PRC), and calibration metrics were used to compare predictive models to three illness scoring systems: Elixhauser comorbidity index, qSOFA, and CURB-65. Results During the study period from March 1, 2020 to April 27,2020, 1,792 patients were admitted with COVID-19. Six-hundred and twenty patients were excluded based on age or critical illness within the first 4 hours, yielding 1,172 patients in the final cohort. Of these patients, 144 (12.3%) met the composite endpoint within the first 24 hours. We first developed a bedside quick COVID-19 severity index (qCSI), a twelve-point scale using nasal cannula flow rate, respiratory rate, and minimum documented pulse oximetry. We then created a machine-learning gradient boosting model, the COVID-19 severity index (CSI), using twelve additional variables including inflammatory markers and liver chemistries. Both the qCSI (AU-ROC mean [95% CI]: 0.90 [0.85-0.96]) and CSI (AU-ROC: 0.91 [0.86-0.97]) outperformed the comparator models (qSOFA: 0.76 [0.69-0.85]; Elixhauser: 0.70 [0.62-0.80]; CURB-65: AU-ROC 0.66 [0.58-0.77]) on cross-validation and performed well on external validation (qCSI: 0.82, CSI: 0.76, CURB-65: 0.50, qSOFA: 0.59, Elixhauser: 0.61). We find that a qCSI score of 0-3 is associated with a less than 5% risk of critical respiratory illness, while a score of 9-12 is associated with a 57% risk of progression to critical illness. Conclusions A significant proportion of admitted COVID-19 patients decompensate within 24 hours of hospital presentation and these events are accurately predicted using bedside respiratory exam findings within a simple scoring system.
Visualizing the Role of Bi 6s “Lone Pairs” in the Off-Center Distortion in Ferromagnetic BiMnO3 (2001)

Results of first-principles electronic structure calculations on the low-temperature monoclinic phase of the ferromagnetic perovskite BiMnO3 [Atou et al. J. Solid State Chem. 1999, 145, 639] are presented. In agreement with experiments, the calculations obtain an insulating ferromagnetic ground state for this material. The role of Bi 6s “lone pairs” in stabilizing the highly distorted perovskite structure is examined using real-space visualization of the electronic structure. Comparisons are drawn with the electronic structures of hypothetical cubic BiMnO3 and with the electronic structure of the prototypical perovskite manganite, LaMnO3. The exploitation of s electron lone pairs in the design of new ferroic materials is suggested.
<title>Video-Gadget: MPEG-7-based audio-visual content indexing and browsing engine</title> (2001)

MPEG-7 is a standard to provide a standardized way of describing contents of multimedia information. The development of technologies related to the MPEG-7 and exploiting MPEG-7 applications have been a main research interest of us for the last two years. TV broadcasting is one specific area of interest among various applications to which MPEG-7 can be of benefit. The VideoGadgetTM, which is an indexing and retrieval engine of multimedia data, is designed to aid user friendly environment of Digital TV as well as conventional analogue TV. By enabling automatic feature extraction and indexing of received TV program with help of low-cost random access storage device, a dull and conventional TV can turn into an interactive personalized entertainment center. With various user-friendly functionalities such as non-linear browsing of received programs, structure-based navigation, and searching/filtering of programs, the user can view the received program anytime the user prefers in the way the user prefers. Even though the Video-GadgetTM project, which is currently in progress, aims an environment of the Digital TV broadcast with MPEG-7 descriptions, a version of the Video-GadgetTM is under development to actually generate MPEG-7-like descriptions while the analogue stream is received. The real-time generation of the content description in detail brings many problems to solve such as limited I/O bandwidth and computing power and extensive sharing of the system resources. Due to the limited resource, some features are impossible to be extract in the real time, the functionality using those features should be redesigned to use simpler features. Once the Digital TV broadcast with MPEG-7 descriptions become available, the feature extraction part of the Video-GadgetTM will be employed by the MPEG7 description generation server or the service provider and only the retrieval engine including search, browsing, and filtering functionality will remain in the client part.
Biochemical and Morphologic Evidence for the Presence of an RNA Tumor Virus in Pulmonary Carcinoma of Sheep (Jaagsiekte) 2 (1974)

Journal Article Biochemical and Morphologic Evidence for the Presence of an RNA Tumor Virus in Pulmonary Carcinoma of Sheep (Jaagsiekte) Get access K. Perk, K. Perk 4National Cancer Institute, National Institutes of Health, Public Health Service, U.S. Department of Health, Education, and Welfare, Bethesda, Md. 20014. Search for other works by this author on: Oxford Academic PubMed Google Scholar R. Michalides, R. Michalides Search for other works by this author on: Oxford Academic PubMed Google Scholar S. Spiegelman, S. Spiegelman 6Institute of Cancer Research, Columbia University, University College of Physicians and Surgeons, New York, N.Y. 10032. Search for other works by this author on: Oxford Academic PubMed Google Scholar J. Schlom J. Schlom 4National Cancer Institute, National Institutes of Health, Public Health Service, U.S. Department of Health, Education, and Welfare, Bethesda, Md. 20014. Search for other works by this author on: Oxford Academic PubMed Google Scholar JNCI: Journal of the National Cancer Institute, Volume 53, Issue 1, July 1974, Pages 131–135, https://doi.org/10.1093/jnci/53.1.131 Published: 01 July 1974 Article history Received: 18 September 1973 Revision received: 08 March 1974 Accepted: 19 March 1974 Published: 01 July 1974
On closed-loop liveness of discrete-event systems under maximally permissive control (1992)

A class of controlled discrete-event systems modeled as controlled marked graphs (CMGs), a special case of controlled Petri nets, is considered. Liveness of controlled systems under maximally permissive feedback control policies is investigated. In the CMG context, closed-loop liveness implies that from any reachable marking (state) any transition can be enabled to fire. The concept of synchronic distances in Petri nets is used to prove sufficient conditions under which the maximally permissive control results in a live closed-loop system.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Protecting Folklore Under Modern Intellectual Property Regimes: A Reappraisal of the Tensions Between Individual and Communal Rights in Africa and the United States (1999)

materials to be used to emulate the original idea).3.
Lifetime analyses of error-control coded semiconductor RAM systems (1982)

The paper is concerned with developing quantitative results on the lifetime of coded random-access semiconductor memory systems. Although individual RAM chips are highly reliable, when large numbers of chips are combined to form a large memory system, the reliability may not be sufficiently high for the given application. In this case, error-correction coding is used to improve the reliability and hence the lifetime of the system. Formulas are developed which will enable the system designer to calculate the improvement in lifetime (over an uncoded system) for any particular coding scheme and size of memory. This will enable the designer to see if a particular memory system gives the required reliability, in terms of hours of lifetime, for the particular application. In addition, the designer will be able to calculate the percentage of identical systems that will, on average, last a given length of time.
Standardization of Near-Infrared Spectrometric Instruments (1996)

In this paper, two different approaches are studied for the standardization of near-infrared spectrometric instruments. The first is a simple method based on a univariate slope/bias correction of the predicted values. The second approach proposed is the much more sophisticated piecewise direct standardization (PDS) based on a multivariate correction of spectra. Both standardization methods are applied to three different data sets, and the results obtained are compared. In certain cases, the simple slope/bias correction approach yields results at least as good as those obtained by the PDS procedure. In other cases, the complex PDS procedure is required to obtain acceptable results. A diagnostic tool is developed in order to decide whether the simple slope/bias correction approach can be applied instead of PDS.
Structures of Ag2X+ and Cu2X+ ions: comparison of theoretical predictions with experimental results from mass spectrometry/mass spectrometry (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStructures of Ag2X+ and Cu2X+ ions: comparison of theoretical predictions with experimental results from mass spectrometry/mass spectrometryR. A. Flurer and K. L. BuschCite this: J. Am. Chem. Soc. 1991, 113, 10, 3656–3663Publication Date (Print):May 1, 1991Publication History Published online1 May 2002Published inissue 1 May 1991https://pubs.acs.org/doi/10.1021/ja00010a004https://doi.org/10.1021/ja00010a004research-articleACS PublicationsRequest reuse permissionsArticle Views116Altmetric-Citations19LEARN 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
Chronic lung lymph fistula that only drains the left lung (1995)

We developed a chronic lung fistula that drains only the left lung, allowing for evaluation of injury in a single lung. To remove lymph drainage from the right lung into the caudal mediastinal lymph node, the right lower pulmonary ligament was severed. Pneumatic occluders were placed on the left pulmonary arteries and veins. To ensure that lymph drained from only the left lung, we increased the right pulmonary arterial pressure (RPAP) from 21.2 +/- 0.5 to 36.5 +/- 0.6 mmHg. The left pulmonary arterial pressure (LPAP) was kept at wedge pressure level for 1 h by inflating pneumatic occluders. Lymph flow from the left lung fistula was stable during this occlusion. Six hours after recovery was increased the LPAP from a baseline level of 19.1 +/- 1.0 to 36.4 +/- 0.9 mmHg and the RPAP from 21.2 +/- 0.5 to 38.0 +/- 0.8 mmHg for 2 h by inflating the pneumatic occluders on the left and right pulmonary veins. Lymph flow increased from 5.3 +/- 1.0 to 28.0 +/- 2.9 ml/h. Reflection coefficient was calculated at 0.80 +/- 0.02.
Conformation change of DNA induced by 6-oxybenzo[a]pyrene radical. (1982)

The interaction of 6-oxybenzo[a]pyrene radical with DNA in 50% methanol solution was studied in order to determine whether the radical molecule influences DNA conformation. The mode of the interaction of 6-oxybenzo[a]pyrene radical with DNA differed from that of other benzo[a]pyrene derivatives such as 6-hydroxybenzo[a]pyrene, diol-epoxides, etc. The physical binding of the radical molecule to DNA seemed to be transient. This physical binding is most likely due to adsorption at the external surface of DNA, i.e., simply contact in character. It is likely that the local base-pairs are tilted by the contact due to hydrophobic interactions. Furthermore, it is concluded that the covalently bound radical molecule, which is mainly introduced on guanine base, induces a twist of the base plane with respect to other base planes.