gebhart/patrepeval huggingface dataset:
Engineering T Cells Specific for a Dominant Severe Acute Respiratory Syndrome Coronavirus CD8 T Cell Epitope (2011)

Severe acute respiratory syndrome (SARS) is a highly contagious and life threatening disease, with a fatality rate of almost 10%. The etiologic agent is a novel coronavirus, severe acute respiratory syndrome coronavirus (SARS-CoV), with animal reservoirs found in bats and other wild animals and thus the possibility of reemergence. In this study, we first investigated at 6 years postinfection whether SARS-specific memory T cells persist in SARS-recovered individuals, demonstrating that these subjects still possess polyfunctional SARS-specific memory CD4+ and CD8+ T cells. A dominant memory CD8+ T cell response against SARS-CoV nucleocaspid protein (NP; amino acids 216 to 225) was then defined in SARS-recovered individuals carrying HLA-B*40:01, a HLA-B molecule present in approximately one-quarter of subjects of Asian ethnicities. To reconstitute such a CD8+ T cell response, we isolated the alpha and beta T cell receptors of the HLA-B*40:01-restricted SARS-specific CD8+ T cells. Using T cell receptor gene transfer, we generated SARS-specific redirected T cells from the lymphocytes of normal individuals. These engineered CD8+ T cells displayed avidity and functionality similar to that of natural SARS-specific memory CD8+ T cells. They were able to degranulate and produce gamma interferon, tumor necrosis factor alpha, and macrophage inflammatory proteins 1α and 1β after antigenic stimulation. Since there is no effective treatment against SARS, these transduced T cells specific for an immunodominant SARS epitope may provide a new avenue for treatment during a SARS outbreak.
Hormonal and Biochemical Normalization and Tumor Shrinkage Induced by Anti-Parathyroid Hormone Immunotherapy in a Patient with Metastatic Parathyroid Carcinoma (2004)

Parathyroid carcinoma is a rare cause of primary hyperparathyroidism, and the efficacy of medical therapy and chemo- and radiotherapy is poor in recurrent or metastatic disease. We report the first case of PTH immunization in which tumor shrinkage accompanied hormonal, biochemical, and clinical improvements in a patient with metastatic parathyroid carcinoma.A 50-yr-old woman with refractory parathyroid carcinoma and pulmonary metastases was immunized eight times between February 2001 and December 2003 with bovine and modified human PTH fragments and intact human PTH, mixed with Freund's adjuvant. Total and ionized calcium and PTH levels were assayed weekly for 6 months and regularly thereafter. Thoracic computed tomography scans were performed regularly. Antibodies to all PTH fragments were detected after two immunizations. Baseline PTH and total calcium were 213.0 ng/liter and 13.96 mg/dl, respectively, and remained elevated during the first three immunizations. From the fourth immunization onward, PTH and calcium decreased, and the patient's clinical condition improved markedly. PTH and calcium levels have remained controlled for more than 24 months, and the sizes (surface area) of pulmonary metastases decreased from baseline by 39-71%. This is the first evidence that PTH immunization not only can improve clinical, hormonal, and biochemical measures in parathyroid carcinoma but also has an antitumor effect.
Adenoviral production of interleukin‐2 at the tumor site removes the need for systemic postconditioning in adoptive cell therapy (2017)

Systemic high dose interleukin-2 (IL-2) postconditioning has long been utilized in boosting the efficacy of T cells in adoptive cell therapy (ACT) of solid tumors. The resulting severe off-target toxicity of these regimens renders local production at the tumor an attractive concept with possible safety gains. We evaluated the efficacy and safety of intratumorally administered IL-2-coding adenoviruses in combination with tumor-infiltrating lymphocyte therapy in syngeneic Syrian hamsters bearing HapT1 pancreatic tumors and with T cell receptor transgenic ACT in B16.OVA melanoma bearing C57BL/6 mice. The models are complementary: hamsters are semi-permissive for human oncolytic adenovirus, whereas detailed immunological analyses are possible in mice. In both models, local production of IL-2 successfully replaced the need for systemic recombinant IL-2 (rIL-2) administration and increased the efficacy of the cell therapy. Furthermore, vectored delivery of IL-2 significantly enhanced the infiltration of CD8+ T cells, M1-like macrophages, and B-cells while systemic rIL-2 increased CD25 + FoxP3+ T cells at the tumor. In contrast with vectored delivery, histopathological analysis of systemic rIL-2-treated animals revealed significant changes in lungs, livers, hearts, spleens, and kidneys. In summary, local IL-2 production results in efficacy and safety gains in the context of ACT. These preclinical assessments provide the rationale for ongoing clinical translation.
Facile Synthesis of Silver Chloride Nanocubes and Their Derivatives (2010)

We demonstrate a facile route to synthesize silver chloride nanocubes and derivative nanomaterials. For the synthesis of silver chloride nanocubes, silver nitrate and hydrochloric acid were used as precursors in ethylene glycol, and poly (vinyl pyrrolidone) as a surfactant. Molar ratio of the two precursors greatly influenced the morphology and composition of the final products. As-synthesized silver chloride nanocubes showed size-dependent optical properties in the visible region of light, which is likely due to a small amount of silver clusters formed on the surface of silver chloride nanocubes. Moreover, we show for the first time that simple reduction of silver chloride nanocubes with different reducing reagents leads to the formation of delicate nanostructures such as cube-shaped silver-nanoparticle aggregates, and silver chloride nanocubes with truncated corners and with silver-nanograin decorated corners. Additionally, we quantitatively investigated for the first time the evolution of silver chloride nanocubes to silver chloride nanocubes decorated with silver nanoparticles upon exposure to e-beam. Our novel and facile synthesis of silver chloride related nanoparticles with delicately controlled morphologies could be an important basis for fabricating efficient photocatalysts and antibacterial materials.
Early femoral component migration: comparing the anterior and posterior approach to the hip (2019)

There was no association between the AA and any significant increase in femoral component migration. A higher percentage of AA hips exceeded the migration thresholds associated aseptic loosening; however, these stems had no other indications of instability and therefore suggests that this may be a difference in migration pattern.
Complex sphere decoding with a modified tree pruning and successive interference cancellation (2012)

A novel complex sphere decoder is proposed in this paper, which achieves a lower complexity than existing techniques with the aid of successive interference cancellation (SIC), statistical pruning strategy (SPS) and a modified probabilistic tree pruning (MPTP) in the search strategy. In the proposed method, enumeration schemes can be avoided once the best partial path metrics (PPMs) fail to satisfy the constraint obtained by the MPTP for a given layer. In addition, the SIC provides a simple method to obtain the possible best candidate for each layer. This strategy effectively eliminates the extra branches without enumeration, if no candidates are available for each layer. Simulations illustrate that the proposed algorithm can reach near-maximum likelihood (ML) performance with a reduction in computational complexity.
Characterization of ELISA detection of broad‐spectrum anti‐Epstein–Barr virus antibodies associated with nasopharyngeal carcinoma (2012)

Epstein-Barr virus (EBV) infection is associated with undifferentiated nasopharyngeal carcinomas (NPC). A distinct seroreactivity pattern to EBV is predictive of subsequent risk of sporadic and familial nasopharyngeal carcinomas. There are currently no accepted screening tools for guiding the clinical management of individuals at high-risk for nasopharyngeal carcinomas, particularly unaffected relatives from nasopharyngeal carcinoma multiplex families. Therefore, the reproducibility of a panel of largely synthetic peptide-based anti-EBV antibody ELISAs was evaluated and their ability to distinguish nasopharyngeal carcinoma cases from controls was explored. IgG and IgA antibodies against 6 different EBV antigens (10 assays, total) were tested on sera from 97 individuals representing the full spectrum of anti-EBV seroprevalence (i.e., healthy individuals with no known EBV seroreactivity, healthy individuals with known EBV seroreactivity, and nasopharyngeal carcinoma cases). Each specimen was tested in triplicate to assess within-batch and across-batch variation, and the triplicate testing was repeated on two separate days. Reproducibility was assessed by the coefficients of variation (CVs) and intraclass correlation coefficients (ICCs). All markers were detectable in 17% or more of samples. For all but one marker, the overall, within-batch, and across-batch CVs were below 15%, and the ICCs were above 70% for all but three markers. Sensitivity of these markers to detect prevalent nasopharyngeal carcinomas ranged from 22% to 100%, and among unaffected controls, most distinguished those with and without known seropositivity. In conclusion, a large number of EBV markers can be measured reliably in serum samples using peptide-based anti-EBV ELISAs.
ChemInform Abstract: Nitrosyl Complexes of Technetium: Synthesis and Characterization of [Tc(I)(NO)(CNCMe<sub>3</sub>)<sub>5</sub>](PF<sub>6</sub>)<sub>2</sub> and Tc(NO)Br<sub>2</sub>(CNCMe<sub>3</sub>)<sub>3</sub> and the Crystal Structure of Tc(NO)Br<sub>2</sub>(CNCMe<sub>3</sub>)<sub>3</sub>. (1986)

Abstract Reaction of the hexakis(tert‐butyl isocyanide)‐Tc(I) complex cation (I) with HNO 3 in glacial acetic acid or with NOPF 6 leads to the formation of the title complex (II).
Chromatin subunits elicit species-specific antibodies against nucleoprotein antigenic determinants (1980)

Nucleosomes composed of 195 base pairs of DNA associated with histones H2A, H2B, H3, and H4 purified from chicken erythrocyte nuclei were used to elicit antibodies in rabbits. Specific serological reaction between the antisera and the nucleosomes is demonstrated by immunodiffusion, immunofluorescence, microcomplement fixation, solid-phase radioimmunoassay, immunosedimentation, and polyacrylamide gel electrophoresis of 5'-32P end-labeled nucleosomes. The antisera did not react with DNA extracted from these nucleosomes, core histones, or the cross-linked histone octamer from chicken erythocytes, calf thymus total histones, or chromosomal proteins HMG-1 or HMG-17. Nucleosome antigenicity was not affected by redigestion with micrococcal nuclease. Digestion with DNase I brought about 50% loss of reactivity while digestion with trypsin or proteinase K resulted in total loss of activity. The antisera reacted strongly with trimer, dimer, and monomer nucleosomes as well as with the core particle (145 base pairs of DNA) and subnucleosome (greater than 145 base pairs) obtained from chicken. It reacted less well with nucleosomes obtained from HeLa cells and was almost totally devoid of activity against chromatin particles obtained from rat liver or wheat germ. Experiments employing the technique of transferring proteins from a polyacrylamide gel to diazobenzyloxymethyl paper and visualization of antigens by autoradiography excluded the possibility that the serum contains antibodies against tissue-specific antigens which are found in small amounts but are very immunogenic. It is concluded that most of the anitbodies in the sera are directed against nucleoprotein antigenic determinants composed of the N-terminal portion of the histones and segments of DNA. Antibody binding is dependent on contact between the histone and DNA segments and is independent of the integrity of the entire nucleosome. Thus, certain histone DNA contacts remain intact even though the structure of the nucleosome has been disrupted.
Low resistance alloyed NiGeAuAgAu ohmic contacts to modulation-doped Al <sub>0.48</sub> In <sub>0.52</sub> As/Ga <sub>0.47</sub> In <sub>0.53</sub> As (1986)

A low-resistance ohmic-contacts metallurgy has been developed for the modulation-doped Al0.48In0.52As/Ga0.47In0.53As structure for MODFET (HEMT) application. The metallurgy involves we sequentially evaporated NiGeAuAgAu layers followed by transient thermal alloy cycles. This resulted in low transfer resistance ∼ 0.20 ± 0.05 Ω mm to the two dimensional electron gas for alloying temperatures from 410° C to 500°C.
Genome-Wide Association Study in Thai Tsunami Survivors Identified Risk Alleles for Posttraumatic Stress Disorder (2015)

Posttraumatic stress disorder (PTSD) is a psychiatric disorder found in individuals afflicted by a traumatic event. Multiple environmental and genetic factors can contribute to PTSD susceptibility. Since it is rare to find members of the same family afflicted by the same catastrophic event, it is not practical to determine PTSD susceptibility genes by a gene linkage analysis. A natural disaster, such as the 2004 Tsunami, provided us with a rare chance for a genetic analysis of PTSD. To identify SNPs associated with PTSD susceptibility, we conducted a genome-association study (GWAS) in Thai-Tsunami survivors. Initial phase of the study with 396 chronic PTSD patients and 457 controls, we identified top ninety SNPs (P -4), which were further assessed in the second phase with 395 chronic PTSD patients and 798 controls. Two SNPs (rs267950 and rs954406), were identified in the second phase, and subjected to fine mapping using a data set from both phases. SNP rs267943 showed the strongest association with PTSD susceptibility and was in complete linkage disequilibrium with SNP rs267950 with P = 6.15 × 10-8, OR = 1.46 and 95% CI = 1.19 - 1.79, reaching genome-wide significance. SNP rs267943 is located on chromosome 5 in the intron of the death-associated protein 1 (DAP1) gene and, when linked to a synthetic promoter, could regulate transcription. To our knowledge, this is the first GWAS for PTSD susceptibility in an Asian population which could provide an important insight into the genetic contribution of PTSD and may lead to new treatment strategies for PTSD.
Differentially Private Sampling from Rashomon Sets, and the Universality of Langevin Diffusion for Convex Optimization (2022)

In this paper we provide an algorithmic framework based on Langevin diffusion (LD) and its corresponding discretizations that allow us to simultaneously obtain: i) An algorithm for sampling from the exponential mechanism, whose privacy analysis does not depend on convexity and which can be stopped at anytime without compromising privacy, and ii) tight uniform stability guarantees for the exponential mechanism. As a direct consequence, we obtain optimal excess empirical and population risk guarantees for (strongly) convex losses under both pure and approximate differential privacy (DP). The framework allows us to design a DP uniform sampler from the Rashomon set. Rashomon sets are widely used in interpretable and robust machine learning, understanding variable importance, and characterizing fairness.
Straighforward syntheses of deuterated precursors to be used as powerful tracers under fermentative conditions (2010)

J. Pept. Sci. ISI Document Delivery No.: 647IC Times Cited: 0 Cited Reference Count: 6 Cavelier, F. Roland, A. Razungles, A. Schneider, R. John wiley & sons ltd Chichester 1
A Reproductive Study of Weiser-Maples Guinea Pigs (1992)

The Weiser-Maples (WE) guinea pig strain was introduced by Backshire Co., Ltd. (USA) in 1977. We have been breeding WE strain guinea pigs for skin melanization research. The WE guinea pig colony produced 1271 pups in 417 litters from May 1978 through December 1983. Breeding date are shown below. The mean litter size was 3.05, the stillborn rate was 15.2%, the weaning rate for live-born pups was 93.5% and the sex ratio was 1.01. The average age at first vaginal membrane rupture was 31.4 days at which time body weight was 290.5g. The mean length of the first 7 estrous cycles was about 17 days, with no cyclical variation in length. The mean duration of gestation was 67.9 days. Duration of pregnancy varied with litter size. There was an inverse relationship between litter size and duration of pregnancy. Most of the pups were delivered alive in mid-pregnancy with a parturition range of 56 to 76 days. The probability of pup death depends on gestational length: the lowest incidence of mortality was seen in litters born at 70 days. The mortalities were related to litter size but not to parity. There was an inverse relationship between birth weight and litter size. In WE guinea pigs, the mean weight for a litter of 1 was 120 g; for a litter of 5, the mean body weight was 58g. Male body weights were slightly heavier than female at birth and at weaning age. The mean body weights are shown below, date of birth: female 88.3g, male 93.3g, weaning age (2 weeks): female 181.1g, male 198.8g and 30 weeks: female 758.7g, male 1018.0g. These date for WE guinea pigs are comparable to those of other strains.
<sup>1</sup>H and <sup>31</sup>P Spectroscopic Imaging of Epilepsy: Spectroscopic and Histologic Correlations (2004)

Although MRS measurements are useful in assessing the biochemical alterations underlying human epilepsy, to date their use has been limited primarily by three factors: (a) the lack of widespread methods and appropriate hardware for acquiring high-resolution spectroscopic imaging data, (b) difficulties in spectral interpretation associated with metabolic heterogeneity, and (c) difficulties in biological interpretation due to a lack of correlative histologic studies. In this work, we (a) describe approaches to overcome these hurdles, and (b) discuss the biological interpretation of the spectroscopic findings in TLE.
Identification of B Cell and T Cell Epitopes Using Synthetic Peptide Combinatorial Libraries (2012)

This unit presents a combinatorial library method that consists of the synthesis and screening of mixture-based synthetic combinatorial libraries of peptide molecules. The protocols employ peptide libraries to identify peptides recognized by MAbs and T cells. The first protocol uses a positional scanning peptide library made up of hexapeptides to identify antigenic determinants recognized by MAbs. The 120 mixtures in the hexapeptide library are tested for their inhibitory activity in a competitive ELISA. The second protocol uses a decapeptide library to identify T cell peptide ligands. The 200 mixtures of the decapeptide library are tested for their ability to induce T cell activation. Support protocols cover optimization of the assay conditions for each MAb or T cell, to achieve the best level of sensitivity and reproducibility, and preparation of a hexapeptide library, along with deconvolution approaches.
Secrecy Energy Efficiency for MIMO Single- and Multi-Cell Downlink Transmission With Confidential Messages (2019)

This work develops a beamforming framework for energy efficiency optimization in MIMO multi-user systems with confidentiality constraints. Two channel models are considered, namely, a broadcast channel with confidential messages (corresponding to single-cell downlink) and an interference channel with confidential messages (corresponding to multi-cell downlink), in which multiple messages are transmitted, and it must be ensured that only the intended receiver is able to perform data decoding, thus treating non-intended receivers as potential eavesdroppers. In this multi-user scenario, the new metric global secrecy energy efficiency is introduced and optimized. Moreover, the coupling among the secrecy energy efficiencies of different users is analyzed by providing an efficient way of computing the system secrecy energy efficiency Pareto boundary. Both contributions are achieved by developing an optimization framework which suitably combines fractional programming theory and sequential optimization theory. The proposed framework is provably convergent, enjoys affordable complexity, and fulfills first-order optimality properties. Finally, the closed form conditions are provided to support smart user selection algorithms for downlink transmission.
Advances in voxel-based 6-DOF haptic rendering (2005)

An approach is presented for realizing an order-of-magnitude improvement in spatial accuracy for voxel-based 6-DOF haptics. It trades constant-time performance for greater spatial accuracy. This helps to make 6-DOF haptics applicable to extraordinarily complex real-world task simulations, which often admit no other known solution short of physical mockup. A reduction of haptic fidelity is tactically incurred but simultaneously mitigated by augmenting standard voxel-sampling methodology with distance fields, temporal coherence, and culling of redundant polyhedral surface interactions. This is applied to large-scale haptic scenarios involving multiple moving objects and to collaborative virtual environments.
Electromagnetic compatibility in electric power production industry: educational research of isolation transformers in the frequency domain (2020)

The methodology is presented for educational research of wideband single-phase isolation transformer which is designed for circuit's galvanic isolation and protection of signal receiver from the common mode in a form of voltage and utilized in the technique of electromagnetic compatibility of different information-measuring electrical equipment at electric power facilities. The methodology has been introduced to the laboratory-based practical for bachelor`s program in the area of «Electric power industry and electrical engineering» in the discipline «Electromagnetic compatibility».
Radical Departure: Thermally-Triggered Degradation of Azo-Containing Poly(β-thioester)s (2016)

The design and synthesis of a new class of thermally-labile poly(β-thioester)s is reported. Aliphatic azo linkages were incorporated into the main chain of the polymers to allow for degradation to lower molecular weights upon heating. These polymers displayed a temperature-dependent degradation profile with a significant increase in decomposition rate as the temperature was raised from 60 to 95 °C. This approach was further extended to prepare amphiphilic triblock copolymers containing poly(β-thioester)s and poly(ethylene glycol) (PEG). The resulting block copolymers were capable of self-assembly into micelles in water. Moreover, the assembled nanoparticles underwent dissociation as a result of exposure to heat.
Electrospun gelatin–arabinoxylan ferulate composite fibers for diabetic chronic wound dressing application (2018)

Blends of arabinoxylan ferulate (AXF) and gelatin (GEL) at 1:1, 2:1 and 4:1 mass ratios were electrospun into composite fibrous mats as a wound-healing drug delivery platform. The composite fibers were characterized in terms of morphology, tensile properties, pore size, porosity and molecular composition. The composite fibers showed excellent cytocompatibility. Silver was impregnated into GEL-AXF nanofibers, and it was slowly released, resulting in bacterial growth inhibition as confirmed by the Kirby–Bauer disk-diffusion assay. This work establishes an electrospun arabinoxylan fibrous material platform with the potential to treat chronic diabetic wounds.
Tangible Music Interfaces Using Passive Magnetic Tags (2001)

The technologies behind passive resonant magnetically coupled tags are introduced and their application as a musical controller is illustrated for solo or group performances, interactive installations, and music toys.