gebhart/patrepeval huggingface dataset:
Cytotoxic T lymphocyte responses to wild‐type and mutant mouse p53 peptides (1997)

Cytotoxic T lymphocytes (CTL) recognize peptides presented at the cell surface in association with major histocompatibility complex (MHC) class I molecules. The finding that peptides binding to MHC class I molecules share common amino acid motifs renders feasible the selection of antigenic peptides by simply scanning protein sequences, and thus, provides the possibility of inducing CTL to pre-defined specificities. Tumor cells possess antigens known to generate MHC class I-restricted CD8+ CTL responses. Thus, these antigens represent good targets to induce tumor-specific immunity. Among these antigens, the p53 tumor suppressor gene product is an attractive candidate for cancer immunotherapy. Mutations in the p53 gene have been found to be very frequently associated with a malignant transformation and often lead to p53 protein overexpression. Thus, we investigated the possibility of inducing CTL to wild-type or mutant p53 peptides in a BALB/c (H-2d) mouse model. Peptides possessing the H2-Kd binding motif were selected and tested for binding to the H-2Kd molecules in vitro. Synthetic peptides p53(122-130) wild-type or "mutant" (Lys --> Glu substitution at position 129) were shown to be the best binder peptides and were tested for their immunogenicity in mice. H-2Kd-restricted p53-specific CD8+ CTL were generated following immunization of mice with either wild-type (wt) p53(122-130) or mutant (mut) p53(122-130) (E129) peptides. Only low-affinity CTL can be obtained by immunization with the wt sequence. In contrast, CTL elicited with the mut peptide recognized the mut sequence at a 10-100-fold lower concentration. This indicates that CTL elicited with the mut peptide recognized the mut sequence very efficiently, whereas the wt sequence is poorly recognized, if at all. Taken together, these results thus suggest that p53-specific tumor immunotherapy may be successful only if the mutated protein is taken into consideration.
Modeling of cylindrical dielectric resonators in rectangular waveguides and cavities (2002)

Two methods for the accurate modeling of cylindrical dielectric resonators in rectangular waveguides and cavities are presented. The dielectric resonators can be general. The first method uses the mode matching technique with two derived series for analytical integrations of the inner products at the boundary between cylindrical and waveguide regions. The only requirement for this method concerning the dielectric resonator is that all its boundaries by cylindrical. The second method slices the configuration to small sections and treats each section as a uniform waveguide. It approximates the cylindrical regions by slices of rectangular dielectric loaded waveguides, and computes the generalized scattering matrix of the total structure by cascading the generalized scattering matrices of the individual slices and junctions. Using these accurate models, planar dielectric resonators can be analyzed.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Variability Assessment of Aromatic Rice Germplasm by Pheno-Genomic traits and Population Structure Analysis (2018)

While the pleasant scent of aromatic rice is making it more popular, with demand for aromatic rice expected to rise in future, varieties of this have low yield potential. Genetic diversity and population structure of aromatic germplasm provide valuable information for yield improvement which has potential market value and farm profit. Here, we show diversity and population structure of 113 rice germplasm based on phenotypic and genotypic traits. Phenotypic traits showed that considerable variation existed across the germplasm. Based on Shannon-Weaver index, the most variable phenotypic trait was lemma-palea color. Detecting 140 alleles, 11 were unique and suitable as a germplasm diagnostic tool. Phylogenetic cluster analysis using genotypic traits classified germplasm into three major groups. Moreover, model-based population structure analysis divided all germplasm into three groups, confirmed by principal component and neighbors joining tree analyses. An analysis of molecular variance (AMOVA) and pairwise FST test showed significant differentiation among all population pairs, ranging from 0.023 to 0.068, suggesting that all three groups differed. Significant correlation coefficient was detected between phenotypic and genotypic traits which could be valuable to select further improvement of germplasm. Findings from this study have the potential for future use in aromatic rice molecular breeding programs.
Tits and bits of HIV Tat protein (2011)

Perturbation in expression of many cytokines and chemokines by HIV-Tat protein exhibits downstream immune suppressive function as well as activation of several apoptotic genes. This explains the massive death of immune cells due to bystander effect of HIV Tat protein among HIV-infected patients.
Joint Source-Channel Adaptation for Perceptually Optimized Scalable Video Transmission (2011)

Providing perceptual quality guarantees for video transmission over wireless channels is important for the end-user experience. The paper proposes an algorithm for perceptual quality optimization of scalable H.264 video with temporal and quality scalability. The algorithm supports adaptive unequal error protection so that different video layers are protected according to their relevance to video quality. For each video layer, a target packet error rate (PER) is selected such that a perceptual quality guarantee, measured using the multi-scale structural similarity (MS-SSIM) index, is satisfied. Given the target PER per video layer, the algorithm selects the modulation and coding scheme and the number of temporal and quality layers to transmit adaptively based on the channel state information (CSI) and source rates per video layer. Results show that the algorithm provides immunity against short term channel fluctuations, balances reliability and perceptual quality, reduces playback buffer starvation probability, and provides a convenient buffer management policy.
Theoretical study of the spatial distribution of atoms surrounding an individual solute particle vaporizing in an analytical flame (1979)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTheoretical study of the spatial distribution of atoms surrounding an individual solute particle vaporizing in an analytical flameCharles B. Boss and Gary M. HieftjeCite this: Anal. Chem. 1979, 51, 7, 895–901Publication Date (Print):June 1, 1979Publication History Published online1 May 2002Published inissue 1 June 1979https://doi.org/10.1021/ac50043a027RIGHTS & PERMISSIONSArticle Views48Altmetric-Citations24LEARN 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 InReddit PDF (906 KB) Get e-Alerts Get e-Alerts
Robust In-Fiber Electric Field Sensors Using AJL8/APC Electro-Optic Polymer (2011)

We report the development of a temporally stable in-fiber electric field sensor using electro-optic (EO) polymer. The design consists of partially replacing the core of a D-fiber with AJL8/APC EO polymer resulting in a device insertion loss less than 2 dB. The design method is presented for the optimization of the hybrid waveguide. The resulting design is demonstrated to have an Epi of 134.6 MV/m at a modulation frequency of 990 MHz, which exhibited no appreciable temporal decay over a time span of over 200 hours and a sensitivity of 7.76 V/(m sqrt(Hz)). The design of the sensor packaging is also presented, which has an outer diameter of 1.5 mm. Mechanical tests demonstrate that the sensor withstands 17 rotations, a bending radius of 0.11 cm, and a tensile force of 4.5 N, confirming that the sensors are mechanically robust.
Paper 280: Reconstruction of the Posterior Oblique Ligament (POL) and the PCL in Knees with Posteromedial Instability (2012)

Posterior Cruciate Ligament (PCL) injuries are often associated with injuries to other structures. The role of the posteromedial structures of the knee in these injuries has received little attention. Reconstruction of the posterior oblique ligament (POL) and the PCL can restore posterior tibial translation in knees with posteromedial instabilities. Controlled laboratory study. Kinematic studies were carried out on ten cadaveric knees exposed to a 134-N posterior tibial load and 5 Nm internal torque at 0°, 30°, 60° and 90° of flexion. Resulting posterior tibial translation (PTT) was determined by using a robotic/universal force-moment sensor testing system for 1) intact, 2) PCL deficient, 3) deficiency of the PCL and the posteromedial structures) PCL reconstructed, 4) PCL/MCL/POL reconstructed, and 5) PCL/POL reconstructed. When both the PCL and the posteromedial structures were cut, PTT did increase significantly at any flexion grade under a posterior tibial load (p>0.05). Reconstruction of only the PCL could not restore PTT in 0°, 30°, 60 and 90° of flexion under both loading conditions in a knee with combined injury of the PCL and the posteromedial structures (p<0.05). Additional reconstruction of the POL significantly improved PTT at all flexion angles in comparison to the PCL reconstructed knee (p<0.05). Reconstruction of the MCL had no significant effect on posterior tibial translation. Reconstruction of the POL has a significant role in prevention of posterior tibial translation in the knee with PCL injury and associated injures to the posteromedial corner.
AZ-130 Strain from Oil-Contaminated Soil of Azerbaijan: Isolation, Antibacterial Screening, and Optimization of Cultivation Conditions (2021)

The goal of the presented work was to isolate bacteria from oil-contaminated soils of Azerbaijan, screen them for their antibacterial activity, and determine the optimal conditions for production of the antibacterial compounds of interest, since unusual and previously unanalyzed sources are of significant interest for the isolation of bacterial strains with novel properties. This work resulted in isolation of 44 bacterial strains from an oil-contaminated soil sample collected in the Lokbatan settlement, which were analyzed for the presence of antibacterial activity against two gram-positive and one gram-negative opportunistic pathogenic strains using the growth inhibition assay. After initial screening, 3 strains showed an antibacterial activity against at least one test organism. Supernatant screening of strain AZ-130 revealed its strong anti-gram-positive activity. The isolate was identified as a Bacillus vallismortis strain (99%) by 16S rRNA gene sequencing. A search in APD3 showed that currently there are no known antibiotics produced by B. vallismortis. To further purify and characterize the antimicrobial compound produced by this strain, the growth conditions (medium, incubation temperature, and cultivation time) at which production of the antimicrobial compound reached the highest values were optimized. The effect of the components of four media at four different temperatures on the production of the AZ-130 biologically active molecule was investigated. The supernatants collected from AZ-130 cultures grown under appropriate conditions were purified and assayed for antibacterial activity against S. aureus by the growth inhibition and broth microdilution methods. Production of the AZ-130 active molecule reached its highest level when the strain was cultivated in a TB + 2% glucose medium for 2 days at a temperature of 32°C.
The etiology of "nitrate poisoning" in sheep (1957)

A report on Department of Animal Husbandry Research Project 251 and Department of Agricultural Chemistry Research Project 247 on Forage Poisoning--P. [2].
Dye leakage and SEM study of roots obturated with Thermafill and dentin bonding agent (1999)

The apical seal of roots obturated with a dentin bonding agent and Thermafill with and without the use of sodium hypochlorite as an irrigating solution was compared by a dye leakage test. Roots obturated with Thermafill and a zinc oxide eugenol sealer were used as controls. Thirty-eight roots were prepared chemomechanically and divided into three experimental groups. The teeth of group 1 were filled with Thermafill and the dentin bonding agent using sodium hypochlorite as the irrigant. The teeth of group 2 were filled in the same way, but saline solution was used as the irrigant. Before the root canal was filled the smear layer was removed from the root canal walls of both groups by rinsing the root canal with a 17% EDTA solution. The teeth of group 3 were filled with Thermafill and a zinc oxide eugenol sealer. The teeth were immersed in 2% methylene blue solution. The root fillings of groups 1 and 2 leaked significantly more than those of group 3. The resin-dentin-guttapercha interface of group 1 was observed by scanning electron microscopy and showed a typical hybrid layer. An intimate contact between resin and dentin was present in group 2, but a resin-dentin interdiffusion zone was only occasionally observed. The use of dental adhesives and the hybrid layer formation did not improve the seal of Thermafill root canal fillings.
Modification of the Dissolution Behaviour of a Water-insoluble Drug, Naftazone, for Zero-order Release Matrix Preparation (1994)

The preparation of hydrophilic matrix tablets able to release naftazone, a water-insoluble drug, into an aqueous medium at a constant rate (zero-order dissolution) is described. Enhancement of dissolution rate of the drug was achieved using cross-linked carmellose sodium, beta-cyclodextrin or hydroxypropyl-beta-cyclodextrin. Hypromellose was used as a water-gelling polymer. Tablets could be prepared that released naftazone at a constant rate over 16 h.
Spatio-Time-Resolved Cathodoluminescence Spectroscopy Imaging: Microscopic Recombination Kinetics in Semi-Polar InGaN Quantum Wells (2010)

Extended abstract of a paper presented at Microscopy and Microanalysis 2010 in Portland, Oregon, USA, August 1 – August 5, 2010.
Topic- and Time-Oriented Visual Text Analysis (2016)

In this article, we first present the benefit of combing text analysis (topic models in particular) with interactive visualization. We then highlight examples from prior work on topic and time-oriented visual text analysis. Lastly, we present four challenges that warrant additional future research in the field of visual text analysis.
Immunohistochemical localisation of d- -aspartic acid-containing proteins in climatic droplet keratopathy (2009)

CDK was regarded as aggregations of D-beta-Asp-containing proteins. The formation of D-amino acids in protein causes the different side chain orientations and beta-linkage of Asp residues elongates the main chain of proteins. Therefore, D-beta-Asp formation will result in a partial unfolding of proteins leading to the aggregation of proteins seen in CDK.
<scp>T</scp>‐cell replete fludarabine/cyclophosphamide reduced intensity allogeneic stem cell transplantation for lymphoid malignancies (2012)

The relative merits of reduced-intensity allogeneic stem cell transplantation (RISCT) for high-risk indolent lymphoid malignancies are emerging, although the preferred conditioning regimen to manage the risks of graft-versus-host disease (GVHD) is not clearly defined. Here we report the outcome of 73 patients with lymphoid malignancies who received RISCT with a fludarabine/cyclophosphosphamide conditioning regimen and a median follow-up of 3 years. Median age was 54 years. Forty-eight per cent of patients had previously undergone autologous stem cell transplantation with a median of three prior therapies. Non-relapse mortality at 3 years was 19% but only 5% for patients with multiple myeloma (MM). Three-year overall survival and current progression-free survival was 67% and 63% respectively. Grade 2-4 acute GVHD occurred in 14% of patients while 49% had chronic GVHD requiring systemic immunosuppression. The preparatory regimen in this study has the advantage of reduced acute GVHD and low mortality, notably in patients with MM. In addition, this strategy provides long-term disease control in a significant proportion of patients with particular benefit in those with high-risk follicular lymphoma.
Two-Color Monitoring Method for Reproducing Thin Film Thicknesses (1956)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text Alan C. Traub, "Two-Color Monitoring Method for Reproducing Thin Film Thicknesses," J. Opt. Soc. Am. 46, 999_1-1000 (1956) Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
A Study on the Performances of White Organic Light-Emitting Diodes and the Morphologies of Their Hole-Blocking Layers (2005)

White organic light-emitting diodes (WOLEDs) with improved stability and efficiency based on an aluminum (III)bis(2-methyl-8-quinolinato)4-phenylphenolate (BAlq)-doped 4,7-diphenyl-1,10-phenanthroline (BPhen) hole-blocking layer (HBL) have been fabricated. Compared with the WOLEDs with BPhen hole-blocking layer, approximately 2.6 times the lifetime and 1.4 times the efficiency have been achieved in the WOLEDs adopting the 10 wt% BAlq-doped BPhen layer. Atomic force microscope (AFM) has been used to study the morphologies of BPhen, BAlq and BAlq-doped BPhen layers, which shows that the dopant of BAlq improves the stability of BPhen layer significantly. It is suggested that the improved performance of the WOLEDs is attributed to the stable hole-blocking layer in morphology.
Studies on the Canning of Mandarin Oranges. Part IV (1962)

[in Japanese]
50-mJ, Q-switched, 209-µm holmium laser resonantly pumped by a diode-pumped 19-µm thulium laser (2003)

We report >50-mJ Q-switched energy output from a 2.09-microm Ho:YAG oscillator, resonantly pumped at 1.9-microm by a diode-pumped Tm:YLF laser. We demonstrate a Q-switched-to-normal-mode extraction efficiency of 100% at an output energy of 30 mJ and over 64% at the 50-mJ output level. Operating at 50 mJ (60 Hz) of output, a pulse width of 14 ns is achieved from the holmium oscillator, which corresponds to approximately 3.6 MW of peak power. At the 50-mJ output level, a beam-propagation factor M2 approximately 1.2 is achieved.
Reading PDB: Perception of Molecules from 3D Atomic Coordinates (2012)

The analysis of small molecule crystal structures is a common way to gather valuable information for drug development. The necessary structural data is usually provided in specific file formats containing only element identities and three-dimensional atomic coordinates as reliable chemical information. Consequently, the automated perception of molecular structures from atomic coordinates has become a standard task in cheminformatics. The molecules generated by such methods must be both chemically valid and reasonable to provide a reliable basis for subsequent calculations. This can be a difficult task since the provided coordinates may deviate from ideal molecular geometries due to experimental uncertainties or low resolution. Additionally, the quality of the input data often differs significantly thus making it difficult to distinguish between actual structural features and mere geometric distortions. We present a method for the generation of molecular structures from atomic coordinates based on the recently published NAOMI model. By making use of this consistent chemical description, our method is able to generate reliable results even with input data of low quality. Molecules from 363 Protein Data Bank (PDB) entries could be perceived with a success rate of 98%, a result which could not be achieved with previously described methods. The robustness of our approach has been assessed by processing all small molecules from the PDB and comparing them to reference structures. The complete data set can be processed in less than 3 min, thus showing that our approach is suitable for large scale applications.
Parameter Estimates For Free Space Optical Communications (2011)

We have developed a methodology that has been successful at predicting key parameters in propagating 1.55 micron laser beams over distances from 10 km to 200 km, including estimating the effectiveness of adaptive optics systems at both end of these links. Key points include use of the different Fried coherence length for both the transmitter and the receiver, increases in those coherence lengths available by adaptive optics and use of the Strehl Ratio to calculate reductions in intensity to be expected. These techniques have been successful in predicting intensities measured in a many experiments, including those where turbulence conditions are well into the saturation regime.
Crystallization and preliminary X-ray diffraction analysis of human seminal plasma protein PSP94 (2009)

The human seminal plasma protein PSP94 is a small protein of 94 residues that contains ten cysteines. Since its discovery about 25 years ago, several potential biological functions have been reported for this protein. Many PSP94 homologues have also been identified since then from various species, but no crystal structure has been determined to date. PSP94 has been purified from human seminal plasma and crystallized. These crystals diffracted to approximately 2.3 A resolution and belonged to space group P4(1)2(1)2, with unit-cell parameters a = 107.9, b = 107.9, c = 92.1 A. There are four molecules in the asymmetric unit. Structure solution by the heavy-atom method is currently in progress.
Diagnosis of Niemann-Pick disease by analysis of hair-roots. (1979)

A micromethod for the measurement of sphingomyelinase in hair root lysates was described. With this method, 22 normal individuals, 3 children affected with Niemann-Pick disease and 2 carriers have been studied. It seems clear that Niemann-Pick homozygotes can be diagnosed definitively, but more extensive studies arenecessary to decide if carrier detection with hair-roots is possible. The particular interest of using hair roots is that the material can be sampled easily and mailed without special precautions.