gebhart/patrepeval huggingface dataset:
Disparate Host Immunity to Mycobacterium avium subsp.<i>paratuberculosis</i>Antigens in Calves Inoculated with M. avium subsp.<i>paratuberculosis</i>, M. avium subsp.<i>avium</i>, M. kansasii, and M. bovis (2013)

The cross-reactivity of mycobacterial antigens in immune-based diagnostic assays has been a major concern and a criticism of the current tests that are used for the detection of paratuberculosis. In the present study, Mycobacterium avium subsp. paratuberculosis recombinant proteins were evaluated for antigenic specificity compared to a whole-cell sonicate preparation (MPS). Measures of cell-mediated immunity to M. avium subsp. paratuberculosis antigens were compared in calves inoculated with live M. avium subsp. paratuberculosis, M. avium subsp. avium (M. avium), Mycobacterium kansasii, or Mycobacterium bovis. Gamma interferon (IFN-γ) responses to MPS were observed in all calves that were exposed to mycobacteria compared to control calves at 4 months postinfection. Pooled recombinant M. avium subsp. paratuberculosis proteins also elicited nonspecific IFN-γ responses in inoculated calves, with the exception of calves infected with M. bovis. M. avium subsp. paratuberculosis proteins failed to elicit antigen-specific responses for the majority of immune measures; however, the expression of CD25 and CD26 was upregulated on CD4, CD8, gamma/delta (γδ) T, and B cells for the calves that were inoculated with either M. avium subsp. paratuberculosis or M. avium after antigen stimulation of the cells. Stimulation with MPS also resulted in the increased expression of CD26 on CD45RO(+) CD25(+) T cells from calves inoculated with M. avium subsp. paratuberculosis and M. avium. Although recombinant proteins failed to elicit specific responses for the calves inoculated with M. avium subsp. paratuberculosis, the differences in immune responses to M. avium subsp. paratuberculosis antigens were dependent upon mycobacterial exposure. The results demonstrated a close alignment in immune responses between calves inoculated with M. avium subsp. paratuberculosis and those inoculated with M. avium that were somewhat disparate from the responses in calves infected with M. bovis, suggesting that the biology of mycobacterial infection plays an important role in diagnosis.
Characterization of a common antigen of colorectal and mucinous ovarian tumors, COTA. (1984)

A new colon cancer antigen is reported. It is designated as COTA, Colon-Ovarian Tumor Antigen, because it is found in mucins produced by both tissues during malignancy. The new antigen was identified by making antibodies against human colon cancer tissue in goats. The antisera were exhaustively absorbed with lyophilized extracts of normal colon, lung, liver, spleen, kidney, plasma, and the well-known colon tumor antigen, carcinoembryonic antigen (CEA). The new antigen was identified by immunodiffusion. Studies of 28 malignant tissue extracts, 10 ovarian adenocarcinoma cyst fluids, 43 normal tissues, and 5 plasma samples revealed that this antigen is found only in colon tumors and mucinous ovarian adenocarcinomas. The antigen was not detected in serous adenocarcinoma of the ovaries, extracts of adenocarcinoma of lung, breast, kidney or stomach nor in the extracts of normal tissues. Other tests show that this antigen is not CEA, Ca 19-9, or CSAp. It is stable to heating at 65 degrees for 5 minutes; it elutes from an ion exchange matrix (DEAE) with 0.3-0.5M NaCl; it migrates to the alpha-2 region on immunoelectrophoresis; and its size, by exclusion chromatography on Sepharose 4B, is 3-15 million daltons. Anti-COTA stains colon cancer tissue sections indicating that COTA is present in goblet-cell mucin.
<title>Tandem betatron accelerator</title> (1991)

1407_50The tandem betatron is a compact, high-current induction accelerator that has the capability to accelerate electrons to an energy of order one gigavolt. Based upon the operating principle of a conventional betatron, the tandem betatron employs two synchronized induction cores operating 180 degrees out of phase. Embedded within the cores are the vacuum chambers, and these are connected by linear transport sections to allow for moving the beam back and forth between the two betatrons. The 180 degree phase shift between the core fluxes permits the circumvention of the flux swing constraint that limits the maximum energy gain of a conventional betatron. By transporting the beam between the synchronized cores, an electron can access more than one acceleration cycle, and thereby continue to gain energy. This added degree of freedom also permits a significant decrease in the size of the magnet system. Biasing coils provide independent control of the confining magnetic field. Provided that efficient beam switching can be performed, it appears feasible that a one gigavolt electron beam can be generated and confined. At this energy, a high current electron beam circulating in a one meter radius orbit could provide a very intense source of short wavelength ((lambda) < 10 nm) synchrotron radiation. This has direct application to the emerging field of x-ray lithography. At more modest energies (10 MeV-30 MeV) a compact tandem betatron could be employed in the fields of medical radiation therapy, industrial radiography, and materials processing.
The impact of MRE11 in nuclear to cytoplasmic ratio on outcomes in muscle invasive bladder cancer an analysis of NRG/RTOG 8802, 8903, 9506, 9706, 9906, and 0233. (2017)

343 Background: Biomarkers are needed to help select patients (pts) with muscle invading bladder cancer (MIBC) for bladder sparing chemotherapy and radiation treatment (CRT). Higher MRE11 expression has been identified as a potential RT response marker in MIBC. MRE11 protein is involved in the DNA double strand break repair mechanism. This analysis evaluates associations between MRE11 expression and outcome in pts from 6 NRG/RTOG bladder-sparing RT protocols. Methods: Archival tissue via TMA or unstained slides was used. Cases were stained with anti MRE11 antibody Rabbit mAb, clone EPR3471 (Epitomics at 1:1500 dilution). Slides were scanned on an Aperio FL instrument and analyzed via Automated Quantitative Image analysis (AQUA). MRE11 scores were determined within the nucleus and cytoplasm of urothelial cells and a ratio of nuclear to cytoplasmic (N/C) score calculated. A ratio was used to normalize scores and overcome pre-analytical variation. MRE11 N/C was analyzed by quartile cut points. Cumulative incidence was used to estimate disease-specific mortality (DSM; failure=bladder cancer death) and Fine-Gray models were used to evaluate associations between MRE11 and DSM. Cox models were used for overall survival (OS; death) and bladder-intact survival (BIS; cystectomy/death). Results: Out of 465 eligible pts, tissue was available and MRE11 N/C determined for 135. Analyzable pts were less likely to be white (p=0.0001) and more likely to be T2 (p=0.0003). Median MRE11 N/C was 2.41 (min-max: 0.69-6.03). Pts with MRE11 N/C ≤ 1.49 (lower quartile) were associated with significantly higher DSM (HR= 2, 95% CI: 1.1, 3.8, p=0.03). The 4-year DSM was 41% for pts with MER11 N/C ≤ 1.49 vs. 21% for pts with MER11 N/C was >1.49. MRE11 N/C was not associated with OS or BIS. Conclusions: AQUA analysis allows precise measurement of this marker in tissue samples. Low expression of MRE11 N/C (≤1.49) is associated with significantly higher DSM. This adds further evidence of MRE11 as a potential RT response biomarker for selection of pts most likely to respond to bladder-sparing CRT. Supported by NCI grants U10CA180868, U10CA180822, UG1CA189867,U24CA196067.
Nanopores of a Covalent Organic Framework: A Customizable Vessel for Organocatalysis (2022)

Covalent organic frameworks (COFs) as crystalline polymers possess ordered nanochannels. When their channels are adorned with catalytically active functional groups, their highly insoluble and fluffy powder texture makes them apt heterogeneous catalysts that can be dispersed in a range of solvents and heated to high temperatures (80-180 °C). This would mean very high catalyst density, facile active-site access, and easy separation leading to high isolated yields. Different approaches have been devised to anchor or disperse the catalytic sites into the nanospaces offered by the COF pores. Such engineered COFs have been investigated as catalysts for many organic transformation reactions. These range from Suzuki-Miyaura coupling, Heck coupling, Knoevenagel condensation, Michael addition, alkene epoxidation, CO<sub>2</sub> utilization, and more complex biomimetic catalysis. Such catalysts employ COF as a "passive" support that merely docks catalytically active inorganic clusters, or in other cases, the COF itself participates as an "active" support by altering the electronics of the inorganic catalytic sites through the redox activity of its framework. Even more, catalytic organic pockets or metal complexes have been directly tethered to COF walls to make them behave like single-site organocatalysts. Here, we have listed most COF-based organic transformations by categorizing them as metal-free non-noble-metal@COF and noble-metal@COF. The initial part of this review highlights the advantages of COFs as a component of a heterogeneous catalyst, while the latter part discusses all of the current literature on this topic.
Information Value-Driven Near Real-Time Decision Support Systems (2009)

In this paper, we focus on challenges of supporting a decision support system (DSS) based on a hybrid approach (i.e. a federation system with data placement) for agile business intelligence applications. A DSS needs to be designed to handle a workload of potentially complex queries for important decision-making processes. The response time requirement (and a realistic goal) for such a DSS is near real time. The users of a DSS care about not only the response time but also the time stamp of the business operation report since both of them introduce uncertainty and risks to business decision-making. In our proposed DSS, each report is assigned with a business value; denoting its importance to business decision-making. An Information Value (IV) is a business value of a report discounted by time to reflex the uncertainty and risks associated with the computational latency and synchronization latency. We propose a novel Information Value-driven Query Processing (IVQP) framework specific for near real time DSS applications. The framework enables dynamic query plan selection by taking into account of information value and adaptation for online-arrival ad hoc queries. The framework works with single query as well as a workload of queries. The experimental results based on synthetic data and TPC-H show the effectiveness of our approach in achieving optimal information values for the workloads.
All-Optical Computation of an Arbitrary Linear Transform Using Diffractive Networks (2022)

We show that an arbitrary complex-valued linear transform can be performed all-optically using diffractive neural networks that are trained using deep learning.
Genomic Sequence of an Otitis Media Isolate of Nontypeable <i>Haemophilus influenzae</i> : Comparative Study with <i>H. influenzae</i> Serotype d, Strain KW20 (2005)

In 1995, the Institute for Genomic Research completed the genome sequence of a rough derivative of Haemophilus influenzae serotype d, strain KW20. Although extremely useful in understanding the basic biology of H. influenzae, these data have not provided significant insight into disease caused by nontypeable H. influenzae, as serotype d strains are not pathogens. In contrast, strains of nontypeable H. influenzae are the primary pathogens of chronic and recurrent otitis media in children. In addition, these organisms have an important role in acute otitis media in children as well as other respiratory diseases. Such strains must therefore contain a gene repertoire that differs from that of strain Rd. Elucidation of the differences between these genomes will thus provide insight into the pathogenic mechanisms of nontypeable H. influenzae. The genome of a representative nontypeable H. influenzae strain, 86-028NP, isolated from a patient with chronic otitis media was therefore sequenced and annotated. Despite large regions of synteny with the strain Rd genome, there are large rearrangements in strain 86-028NP's genome architecture relative to the strain Rd genome. A genomic island similar to an island originally identified in H. influenzae type b is present in the strain 86-028NP genome, while the mu-like phage present in the strain Rd genome is absent from the strain 86-028NP genome. Two hundred eighty open reading frames were identified in the strain 86-028NP genome that were absent from the strain Rd genome. These data provide new insight that complements and extends the ongoing analysis of nontypeable H. influenzae virulence determinants.
Analysis of Corrosion Areas in Pipelines Using Guided Wave Propagation: Numerical Simulations and Experimental Tests (2013)

Guided Waves (GW) have become widely used for the inspection of unpiggable and inaccessible pipelines because of the presence of coating, because of their position or because they are buried. Among the possible anomalies, corrosion is the main integrity issue affecting pipelines. The effect that corrosion has on guided wave propagation is attenuation and increased coherent noise when it is generalized or reflection when corrosion is localized. In this paper, the possibility to characterize corrosion areas affecting pipelines through long range guided wave inspection or monitoring is investigated. With this purpose field testing was performed and the results were used for the validation of numerical methods able to simulate the phenomenon.
<title>Silver masters for high-quality electrostatic printing</title> (1990)

Du Pont has developed new silver electrostatic master technology suitable for making multiple copies of high quality prints. A digital laser image is captured by a multilayered silver halide film and diffusion transfer chemistry is used to form a unique conducting silver image in a polymeric insulating layer. For prints the silver master is corona charged; where there is a silver image, charge is bled off to an underlying ground plane and where there is no silver, charge is retained by the insulator. The charged master is then developed with high resolution liquid toners and the toner image transferred to paper. The charging, toning, and transfer steps are repeated for multiple copies. Quality is maintained at printing rates exceeding 8 inches per second. The silver master looks like a normal photographic film and is processed like one but has dual functionality; it can be used as an electrostatic printing master and as a normal photographic film, i.e., as a graphic arts intermediate. The master will be described in more detail and examples shown.
A novel noncontacting waveguide backshort for millimeter and submillimeter wave frequencies (1991)

A new noncontacting waveguide backshort was developed for millimeter and submillimeter wave frequencies. It employs a metallic bar with rectangular or circular holes. The size and spacing of the holes are adjusted to provide a periodic variation of the guide impedance on the correct length scale to give a large reflection of RF frequency power. This design is mechanically rugged and can be easily fabricated for millimeter wave frequencies above 300 GHz where conventional backshorts are difficult to fabricate. Model experiments were performed at 4 to 6 GHz to optimize the design. Values of reflected power greater than 95 percent over a 30 percent bandwidth were achieved. The design was scaled to WR-10 band (75 to 110 GHz) with comparably good results.
A frequency selective acoustic transducer for directional Lamb wave Sensing (2011)

A frequency selective acoustic transducer (FSAT) is proposed for directional sensing of guided waves. The considered FSAT design is characterized by a spiral configuration in wavenumber domain, which leads to a spatial arrangement of the sensing material producing output signals whose dominant frequency component is uniquely associated with the direction of incoming waves. The resulting spiral FSAT can be employed both for directional sensing and generation of guided waves, without relying on phasing and control of a large number of channels. The analytical expression of the shape of the spiral FSAT is obtained through the theoretical formulation for continuously distributed active material as part of a shaped piezoelectric device. Testing is performed by forming a discrete array through the points of the measurement grid of a scanning laser Doppler vibrometer. The discrete array approximates the continuous spiral FSAT geometry, and provides the flexibility to test several configurations. The experimental results demonstrate the strong frequency dependent directionality of the spiral FSAT and suggest its application for frequency selective acoustic sensors, to be employed for the localization of broadband acoustic events, or for the directional generation of Lamb waves for active interrogation of structural health.
Reverse Genetics and Cystic Fibrosis (1990)

The protein responsible for cystic fibrosis has been identified using an approach called "reverse" genetics. This approach relies on the chromosomal map position to direct the search for a disease gene, several novel cloning strategies to isolate the gene, and the gene's sequence to define the abnormal protein. Reverse genetics, because it does not require prior knowledge of the protein's biochemical function, has wide utility and is being used to define the defects in many single-gene disorders. This update presents the reverse genetics approach and uses cystic fibrosis to illustrate the principles involved.
Identification based on fusion of cardiovascular function measurements (2008)

Recent investigations indicate cardiovascular function is a viable biometric. This paper explores biometric techniques based on multiple modalities for sensing cardiovascular function. Analysis of data acquired with an electrocardiogram (ECG) combined with corresponding data from pulse oximetry and blood pressure indicates that features can be extracted from the signals, which correspond to individuals. While a person's heart rate can vary with mental and emotional state, certain features corresponding to the heartbeat appear to be unique to the individual. Our protocol induced a range of mental and emotional states in the subject and the analysis identifies features of the cardiovascular signals that are invariant to mental and emotional state. Furthermore, the three measures of cardiovascular function provide independent information, which can be fused to achieve robust performance compared to a single modality.
Hidden images in halftone pictures (2001)

A method of concealing an image in a different halftone image is proposed. Continuous-tone levels of the visible images are represented by the area of the halftone dots. However, the hidden image is encoded by the dots' positions inside their cells. Only a spatial correlator with a unique filter function can reveal the hidden image from the halftone picture. The technique and its robustness to noise and distortions are demonstrated.
Electronic musical instrument capable of producing ’’chord pyramid’’ arpeggio effects (1980)

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Evaluation of atomization by the rapidly spinning cup process (1994)

Due to vehicular transport of species like H+, OH−, NH+4 etc., in some proton conductors under dc field, gases H2, NH3 etc. are discharged at the electrodes resulting in a change of mass. The technique of monitoring this change in mass as a function of applied field and time has been named by us as electrogravimetric analysis (EGA). The electrodissociation kinetics can be further studied by noting the differential change in mass; it is called differential electrogravimetric analysis (DEGA). Typical EGA and DEGA results on ammonium paratungstate pentahydrate (APT·5H2O) are reported in this paper.
Templating and structural engineering in organic–inorganic perovskites (2001)

Hybrid perovskites provide the possibility of integrating useful organic and inorganic characteristics within a single crystalline molecular-scale composite, enabling unique electronic, magnetic and optical properties. The ability to understand and control the organic and inorganic structural attributes of these hybrids is important for being able to engineer the physical characteristics, both for fundamental studies as well as potential applications. Recently, a number of new and interesting perovskite structures have been reported and a better understanding has begun to emerge with respect to crystal design considerations. This contribution will review several of these new developments and will provide a more general discussion of structural engineering within this diverse family of compounds.
Anaplasma phagocytophilum Asp14 Is an Invasin That Interacts with Mammalian Host Cells via Its C Terminus To Facilitate Infection (2012)

Anaplasma phagocytophilum, a member of the family Anaplasmataceae, is the tick-transmitted obligate intracellular bacterium that causes human granulocytic anaplasmosis. The life cycle of A. phagocytophilum is biphasic, transitioning between the noninfectious reticulate cell (RC) and infectious dense-cored (DC) forms. We analyzed the bacterium's DC surface proteome by selective biotinylation of surface proteins, NeutrAvidin affinity purification, and mass spectrometry. Transcriptional profiling of selected outer membrane protein candidates over the course of infection revealed that aph_0248 (designated asp14 [14-kDa A. phagocytophilum surface protein]) expression was upregulated the most during A. phagocytophilum cellular invasion. asp14 transcription was induced during transmission feeding of A. phagocytophilum-infected ticks on mice and was upregulated when the bacterium engaged its receptor, P-selectin glycoprotein ligand 1. Asp14 localized to the A. phagocytophilum surface and was expressed during in vivo infection. Treating DC organisms with Asp14 antiserum or preincubating mammalian host cells with glutathione S-transferase (GST)-Asp14 significantly inhibited infection of host cells. Moreover, preincubating host cells with GST-tagged forms of both Asp14 and outer membrane protein A, another A. phagocytophilum invasin, pronouncedly reduced infection relative to treatment with either protein alone. The Asp14 domain that is sufficient for cellular adherence and invasion lies within the C-terminal 12 to 24 amino acids and is conserved among other Anaplasma and Ehrlichia species. These results identify Asp14 as an A. phagocytophilum surface protein that is critical for infection, delineate its invasion domain, and demonstrate the potential of targeting Asp14 in concert with OmpA for protecting against infection by A. phagocytophilum and other Anaplasmataceae pathogens.