gebhart/patrepeval huggingface dataset:
Development of a Highly Sensitive and Specific Enzyme-Linked Immunosorbent Assay Based on Recombinant Matrix Protein for Detection of Avian Pneumovirus Antibodies (2000)

The matrix (M) protein of avian pneumovirus (APV) was evaluated for its antigenicity and reliability in an enzyme-linked immunosorbent assay (ELISA) for diagnosis of APV infection, a newly emergent disease of turkeys in United States. Sera from APV-infected turkeys consistently contained antibodies to a 30-kDa protein (M protein). An ELISA based on recombinant M protein generated in Escherichia coli was compared with the routine APV ELISA that utilizes inactivated virus as antigen. Of 34 experimentally infected turkeys, 33 (97.1%) were positive by M protein ELISA whereas only 18 (52.9%) were positive by routine APV ELISA 28 days after infection. None of the serum samples from 41 uninfected experimental turkeys were positive by M protein ELISA. Of 184 field sera from turkey flocks suspected of having APV infection, 133 (72.3%) were positive by M protein ELISA whereas only 99 (53.8%) were positive by routine APV ELISA. Twelve serum samples, which were negative by M protein ELISA but positive by routine APV ELISA, were not reactive with either recombinant M protein or denatured purified APV proteins by Western analysis. This indicates that the samples had given false-positive results by routine APV ELISA. The M protein ELISA was over six times more sensitive than virus isolation (11.5%) in detecting infections from samples obtained from birds showing clinical signs of APV infection. Taken together, these results show that ELISA based on recombinant M protein is a highly sensitive and specific test for detecting antibodies to APV.
Relative values: are children more special? (1997)

The protection of the public must be a concern of all registered nurses. However, when one examines procedures designed to protect the vulnerable citizen, it seems that some members of the ‘public’ are more deserving than others.
Antibiotic-impregnated cement and beads for orthopedic infections (1996)

Free access1 December 1996 Share on Antibiotic-impregnated cement and beads for orthopedic infectionsAuthors: D A Wininger, R J FassAuthors Info & AffiliationsDOI: https://doi.org/10.1128/AAC.40.12.2675 PDF/EPUB
[Spiral computed tomography in the diagnosis and staging of bronchopulmonary carcinoma]. (1995)

Spiral or helical technology is a new computed tomographic technique based on the continuous acquisition of volumetric CT data during continuous x-ray beam rotation and continuous patient transportation at constant velocity. It has many advantages over conventional CT: the authors briefly review the basic principles of spiral CT and discuss the applications and the possible advantages in the assessment of lung cancer. The most important characteristics of spiral CT are rapid image acquisition, allowing a single-breath-hold scan of the lung, and the ability to obtain axial image reconstructions at arbitrary and overlapping intervals, thus allowing the detection of small lesions that otherwise would be inconspicuous because of respiratory misregistration or partial volume averaging. This leads to better identification of small pulmonary nodules and to high quality multiplanar reconstructions that can be useful in the study of mediastinal lymph nodes and the vascular and tracheobronchial spreading of lung cancer. Many of the spiral CT scanners allow for 40 sec extended spiral acquisition during a single-breath-hold, permitting the evaluation of the thorax and the upper abdomen. This usually includes the adrenals and the whole liver, thus allowing a rapid staging of thoracic neoplasms, with an accuracy higher than that of conventional CT.
Fast and Robust Method for Dynamic Gesture Recognition Using Hermite Neural Network (2012)

Due to its shortcomings such as slow convergence rate and low recognition accuracy, the traditional BP neural networks perform poorly in dynamic gesture recognition, especially for online gesture training. In this paper, a novel adaptive Hermite neural networks algorithm for dynamic gesture recognition was proposed. At first, a three-layer feed-forward neural network, of which hidden layer neurons are activated by a group of Hermite orthogonal polynomial functions was constructed. Based on its special structure, a method to determine the network weights directly was introduced, and a novel algorithm to determine the optimal number of hidden nodes adaptively was proposed. Then a rapid method of fingertips tracking was put forward to get the trajectory of dynamic gesture. At last, dynamic gesture was recognized through the trained Hermite neural network. Experiment results show that Hermite neural network can enhance the speed and precision of network training, improve the learning speed and recognition accuracy, and has good robustness and generalization ability.
Preparation and properties of monomethoxy poly(ethylene glycol) doxorubicin conjugates linked by an amino acid or a peptide as spacer. (1993)

Polymeric doxorubicin prodrugs were prepared linking monomethoxy poly(ethylene glycol), 5000 D molecular weight, to the doxorubicin amino group, using an amino acid or a peptide as a spacer arm. As spacers glycine, L-phenylalanine, L-tryptophan and glycil-L-valil-L-phenylalanine were used. The conjugates showed enhanced stability to alkaline degradation compared to the free doxorubicin. Towards Ehrlich solid tumor in mice the glycin spaced derivative was devoid of activity, whereas the phenylalanine and tryptophan derivatives were 20% and 16% active and the tripeptide one 50% active with respect to free doxorubicin. On the other hand the derivatization was accompanied by a great decrease of toxicity in mice with respect to the free drug. Doxorubicin was not released from conjugates by chymotrypsin incubation or in plasma.
A2Ablockade enhances anti-metastatic immune responses (2013)

The specific targeting of tumor-elicited immunosuppression is a promising strategy for the treatment of cancer. We have recently demonstrated that targeting the immunosuppressive pathway mediated by CD73-derived adenosine through the blockade of A<sub>2A</sub>/A<sub>2B</sub> adenosine receptors significantly reduced the metastatic potential of CD73<sup>+</sup> breast carcinomas and melanomas via both immunological and non-immunological mechanisms.
HLA-E/Human β2-Microglobulin Transgenic Pigs: Protection Against Xenogeneic Human Anti-Pig Natural Killer Cell Cytotoxicity (2009)

This novel approach against cell-mediated xenogeneic responses has important implications for the generation of multitransgenic pigs as organ donors for clinical xenotransplantation.
Polynucleotides. L. Synthesis and properties of poly (2′ - chloro - 2′ - deoxyadenylic acid) and poly (2′ - bromo - 2′ - deoxyadenylic acid) (1977)

Poly (2'-chloro-2'-deoxyadenylic acid) and poly (2'-bromo-2'-deoxyadenylic acid) were synthesized from the corresponding diphosphates with the aid of polynucleotide phosphorylase from E. coli. UV, CD, acid titration and mixing with poly (U) were investigated. Comparing these properties with those of poly (A) and poly (2'-azido-2'-deoxyadenylic acid), it was found that 2''substituents exert significant effects on the thermal stability of these polynucleotides, though the overall conformational structure was not greatly changed.
CD99 Engagement on Human Peripheral Blood T Cells Results in TCR/CD3-Dependent Cellular Activation and Allows for Th1-Restricted Cytokine Production (1998)

We have assessed the functional effect of CD99 engagement on resting human peripheral blood (PB) T cells. CD99, as detected by the mAb 3B2/TA8, is constitutively expressed on all PB T cells and becomes further up-regulated upon cellular activation. In this study we demonstrate that cross-linking of the CD99 molecule with the agonistic mAb 3B2/TA8 cooperates with suboptimal TCR/CD3 signals, but not with phorbol ester, ionomycin, or CD28 mAb stimulation, to induce proliferation of resting PB T cells. Comparable stimulatory effects were observed with the CD99 mAb 12E7. Characterization of the signaling pathways involved revealed that CD99 engagement leads to the elevation of intracellular Ca2+, which is dependent on the cell surface expression of the TCR/CD3 complex. No CD99 mAb-induced calcium mobilization was observed on TCR/CD3-modulated or TCR/CD3-negative T cells. To examine the impact of CD99 stimulation on subsequent cytokine production by T cells, we cross-linked CD99 molecules in the presence of a suboptimal TCR/CD3 trigger followed by determination of intracellular cytokine levels. Significantly, T cell lines as well as Th1 and Th0 clones synthesized TNF-alpha and IFN-gamma after this treatment. In contrast, Th2 clones were unable to produce IL-4 or IFN-gamma when stimulated in a similar fashion. We conclude that CD99 is a receptor that mediates TCR/CD3-dependent activation of resting PB T cells and specifically induces Th1-type cytokine production in polyclonally activated T cell lines, Th1 and Th0 clones.
Shaping and timing gradient pulses to reduce MRI acoustic noise (2010)

A method to reduce the acoustic noise generated by gradient systems in MRI has been recently proposed; such a method is based on the linear response theory. Since the physical cause of MRI acoustic noise is the time derivative of the gradient current, a common trapezoid current shape produces an acoustic gradient coil response mainly during the rising and falling edge. In the falling edge, the coil acoustic response presents a 180 degrees phase difference compared to the rising edge. Therefore, by varying the width of the trapezoid and keeping the ramps constant, it is possible to suppress one selected frequency and its higher harmonics. This value is matched to one of the prominent resonance frequencies of the gradient coil system. The idea of cancelling a single frequency is extended to a second frequency, using two successive trapezoid-shaped pulses presented at a selected interval. Overall sound pressure level reduction of 6 and 10 dB is found for the two trapezoid shapes and a single pulse shape, respectively. The acoustically optimized pulse shape proposed is additionally tested in a simulated echo planar imaging readout train, obtaining a sound pressure level reduction of 12 dB for the best case.
Boosting Binary Keypoint Descriptors (2013)

Binary key point descriptors provide an efficient alternative to their floating-point competitors as they enable faster processing while requiring less memory. In this paper, we propose a novel framework to learn an extremely compact binary descriptor we call Bin Boost that is very robust to illumination and viewpoint changes. Each bit of our descriptor is computed with a boosted binary hash function, and we show how to efficiently optimize the different hash functions so that they complement each other, which is key to compactness and robustness. The hash functions rely on weak learners that are applied directly to the image patches, which frees us from any intermediate representation and lets us automatically learn the image gradient pooling configuration of the final descriptor. Our resulting descriptor significantly outperforms the state-of-the-art binary descriptors and performs similarly to the best floating-point descriptors at a fraction of the matching time and memory footprint.
Si nanoparticle-decorated Si nanowire networks for Li-ion battery anodes (2010)

We designed and fabricated binder-free, 3D porous silicon nanostructures for Li-ion battery anodes, where Si nanoparticles electrically contact current collectors via vertically grown silicon nanowires. When compared with a Si nanowire anode, the areal capacity was increased by a factor of 4 without having to use long, high temperature steps under vacuum that vapour-liquid-solid Si nanowire growth entails.
A single administration of lentiviral vectors expressing either full-length human immunodeficiency virus 1 (HIV-1)HXB2 Rev/Env or codon-optimized HIV-1JR-FL gp120 generates durable immune responses in mice (2006)

Genetic immunization using viral vectors provides an effective means to elicit antigen-specific cellular immune responses. Several viral vectors have proven efficacious in inducing immune responses after direct injection in vivo. Among them, recombinant, self-inactivating lentiviral vectors are very attractive delivery systems, as they are able to efficiently transduce into and express foreign genes in a wide variety of mammalian cells. A self-inactivating lentiviral vector was evaluated for the delivery of human immunodeficiency virus 1 (HIV-1) envelope sequences in mice in order to elicit specific immune responses. With this aim, BALB/c mice were immunized with a single injection of self-inactivating lentiviral vectors carrying either the full-length HIV-1(HXB2) Rev/Env (TY2-IIIBEnv) or the codon-optimized HIV-1(JR-FL) gp120 (TY2-JREnv) coding sequence. Both vectors were able to elicit specific cellular responses efficiently, as measured by gamma interferon ELISPOT and chromium-release assays, upon in vitro stimulation of splenocytes from BALB/c immunized mice. However, only the TY2-JREnv-immunized mice were able to elicit specific humoral responses, measured as anti-gp120 antibody production. These data provide the first evidence that a single, direct, in vivo administration of a lentiviral vector encoding a viral gene might represent a useful strategy for vaccine development.
Potential pitfalls of CRISPR/Cas9‐mediated genome editing (2015)

Recently, a novel technique named the clustered regularly interspaced short palindromic repeat (CRISPR)/CRISPR-associated protein (Cas)9 system has been rapidly developed. This genome editing tool has improved our ability tremendously with respect to exploring the pathogenesis of diseases and correcting disease mutations, as well as phenotypes. With a short guide RNA, Cas9 can be precisely directed to target sites, and functions as an endonuclease to efficiently produce breaks in DNA double strands. Over the past 30 years, CRISPR has evolved from the 'curious sequences of unknown biological function' into a promising genome editing tool. As a result of the incessant development in the CRISPR/Cas9 system, Cas9 co-expressed with custom guide RNAs has been successfully used in a variety of cells and organisms. This genome editing technology can also be applied to synthetic biology, functional genomic screening, transcriptional modulation and gene therapy. However, although CRISPR/Cas9 has a broad range of action in science, there are several aspects that affect its efficiency and specificity, including Cas9 activity, target site selection and short guide RNA design, delivery methods, off-target effects and the incidence of homology-directed repair. In the present review, we highlight the factors that affect the utilization of CRISPR/Cas9, as well as possible strategies for handling any problems. Addressing these issues will allow us to take better advantage of this technique. In addition, we also review the history and rapid development of the CRISPR/Cas system from the time of its initial discovery in 2012.
A 10 mm3Inductive Coupling Radio for Syringe-Implantable Smart Sensor Nodes (2016)

We present a near-field radio system for a millimeter-scale wireless smart sensor node that is implantable through a 14-gauge syringe needle. The proposed system integrates a radio system on chip and a magnetic antenna on a glass substrate within a total dimension of 1 × 1 × 10 mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sup> . We demonstrate energy-efficient active near-field wireless communication between the millimeter-scale sensor node and a base station device through an RF energy-absorbing tissue. The wireless transceiver, digital baseband controller, wakeup controller, on-chip baseband timer, sleep timer, and MBUS controller are all integrated on the SoC to form a millimeter-scale sensor node, together with a 1 × 8 mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> magnetic antenna fabricated with a 1.5-μm-thickness gold on a 100 μm-thickness glass substrate. An asymmetric link is established pairing the sensor antenna with a codesigned 11 × 11 cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> base station antenna to achieve a link distance of up to 50 cm for sensor transmission and 20 cm for sensor reception. The transmitter consumes a 43.5 μW average power at 2 kb/s, while the receiver power consumption is 36 μW with a -54 dBm sensitivity at 100 kb/s. When powered by a 1×2.2 mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> thin-film battery (2 μAh, 4.1 V), the designed system has a two week expected lifetime without battery recharging when the system wakes up and transmits and receives 16 b data every 10 min.
DeepSimulator: a deep simulator for Nanopore sequencing (2018)

Abstract Motivation Oxford Nanopore sequencing is a rapidly developed sequencing technology in recent years. To keep pace with the explosion of the downstream data analytical tools, a versatile Nanopore sequencing simulator is needed to complement the experimental data as well as to benchmark those newly developed tools. However, all the currently available simulators are based on simple statistics of the produced reads, which have difficulty in capturing the complex nature of the Nanopore sequencing procedure, the main task of which is the generation of raw electrical current signals. Results Here we propose a deep learning based simulator, DeepSimulator, to mimic the entire pipeline of Nanopore sequencing. Starting from a given reference genome or assembled contigs, we simulate the electrical current signals by a context-dependent deep learning model, followed by a base-calling procedure to yield simulated reads. This workflow mimics the sequencing procedure more naturally. The thorough experiments performed across four species show that the signals generated by our context-dependent model are more similar to the experimentally obtained signals than the ones generated by the official context-independent pore model. In terms of the simulated reads, we provide a parameter interface to users so that they can obtain the reads with different accuracies ranging from 83 to 97%. The reads generated by the default parameter have almost the same properties as the real data. Two case studies demonstrate the application of DeepSimulator to benefit the development of tools in de novo assembly and in low coverage SNP detection. Availability and implementation The software can be accessed freely at: https://github.com/lykaust15/DeepSimulator. Supplementary information Supplementary data are available at Bioinformatics online.
Compact On-Chip Three-Dimensional Electromagnetic Bandgap Structure (2006)

In this paper, we present a compact 3-dimensional dimensional on-chip electromagnetic bandgap (EBG) structure with a unit size of 200μm on 400μm-thick silicon making use of a recently developed high aspect-ratio through-wafer vias. The on-chip EBG structure consists of parallel plane capacitance between two overlapped metal plane with PECVD silicon nitride as dielectric and 50μm Cu-filled through-wafer vias as inductors. The novel 3-D on-chip structure exhibits a crosstalk suppression of 30 dB at 8 GHz with a 2-GHz bandgap.
Characterizing patients with psoriasis on injectable biologics adalimumab, etanercept, and ustekinumab: A chart review study (2015)

Among biologics-treated patients with PsO, UST 90 mg appears to be used in patients with greater weight, baseline severity and prior biologics experience than ADA, ETA or UST 45 mg. UST 90 mg is used in patients with more comorbidities than other treatments except ADA.
Dinitrochlorobenzene Contact Hypersensitivity as a Marker Trait for Selection to Improve Disease Resistance in Calves (1989)

Measurements of double skin fold thickness (mm) were used to assess the feasibility of use of cutaneous delayed-type hypersensitivity response as a marker trait to select for genetically improved disease resistance. Data were from a sample of 149 7-wk-old Holstein calves, from 15 sires, that previously had been sensitized to the contact allergen dinitrochlorobenzene. Response was monitored 24 and 48 h postchallenge. Analysis was by least squares according to a model that included fixed managerial effects, disease prevalence, and severity categories and sire of calf. Double skin fold thickness increased about 50% by 24 h, followed by a 4% decrease between 24 and 48 h. Season of birth was the only consistently significant fixed effect. Calves born in fall showed larger skin changes at each stage of response than calves born in spring. Restricted maximum likelihood estimates of paternal half-sib heritability were moderate to high for all stages of response, and phenotypic and genetic correlations between stages were significant and positive. Although the prevalence and severity of naturally occurring pneumonia and diarrhea did not significantly affect quantity of response, there is need to study further this relationship for intracellular pathogens. Delayed-type hypersensitivity response to dinitrochlorobenzene can meet requirements for a successful marker on which to base sire selection for disease resistance, if it is related to economically important, intracellularly characterized, pathogenic bovine diseases.
High level transient gene expression in human lymphoid cells by SV40 large T antigen boost (1992)

High level transient gene expression in lymphoid cells has always been challenging because of the difficulty to efficiently transfect such cells. This has precluded any attempt to clone cDNA encoding proteins by means of their specific biological function in lymphoid cells. We have developed a very efficient transient eukaryotic expression system analogous to the well-known expression system in COS cells. Firefly luciferase and human CD2 genes were used as reporter genes and cloned into the eukaryotic shuttle vector pCDM8 which contains the strong cytomegalovirus promoter and the SV40 origin of replication for autonomous plasmid replication in permissive host cells that express the large SV40 T Antigen. Co-transfection of the reporter plasmids together with an SV40 T Ag expressing plasmid resulted in the several fold amplification of either the Luc activity or the cell surface expression of the CD2 marker in a transient assay. The level of amplification was dependent on the strength of the promoter used to drive the SV40 T Ag expression and was correlated with the extent of autonomous replication of the reporter plasmid in transfected cells. This highly efficient transient gene expression by SV40 T Ag boost was suitable to several human cell lines, making this system of general interest for expression cloning strategies or other gene transfer application that need high level expression.
Stacked Neural Networks Must Emulate Evolution's Hierarchical Complexity (2008)

The missing ingredients in efforts to develop neural networks and artificial intelligence (AI) that can emulate human intelligence have been the evolutionary processes of performing tasks at increased orders of hierarchical complexity. Stacked neural networks based on the Model of Hierarchical Complexity could emulate evolution's actual learning processes and behavioral reinforcement. Theoretically, this should result in stability and reduce certain programming demands. The eventual success of such methods begs questions of humans' survival in the face of androids of superior intelligence and physical composition. These raise future moral questions worthy of speculation.