gebhart/patrepeval huggingface dataset:
Investigation of framework and cation substitutions in Keggin-type heteropoly acids probed by scanning tunneling microscopy and tunneling spectroscopy (1997)

Scanning tunneling microscopy (STM) and spatially resolved tunneling spectroscopy were used to characterize surface arrays of heteropoly acids (HPAs) of the Keggin structural class. STM images revealed that these discrete oxide anions formed single, ordered monolayers on inert graphite surfaces, with lattice spacings of ∼11 Å, which is the characteristic dimension of the Keggin anion. However, increases in the lattice constants were observed in the STM images upon the substitution of the protons in H3PMo12O40 with larger counter cations such as Cs and K. This finding is consistent with those observed for bulk crystals of these salts. Substitution of metal ions in the Keggin ion framework (such as the replacement of Mo with W, or vice versa), led to insignificant variations in the lattice constants of the surface arrays. Tunneling spectroscopy measurements on discrete polyanions in the STM images revealed that the HPAs (both cation-exchanged and framework-substituted) exhibited current peaks in their respective current-voltage spectra, but at different applied potentials. The location of the current peak, or negative differential resistance (NDR) feature, was characteristic of the reducibility of the Keggin-type HPA in each case—the more reducible the HPA, the smaller the magnitude of the NDR peak voltage.
Speech recognition using segmental neural nets (1992)

The authors present the concept of a segmental neural net (SNN) for phonetic modeling in continuous speech recognition (CSR) and demonstrate how this can be used with a multiple hypothesis (or N-Best) paradigm to combine different CSR systems. In particular, the authors developed a system that combines the SNN with a hidden Markov model (HMM) system. In a speaker-independent, 1000-word CSR test using a word-pair grammar, the error rate for the hybrid system dropped 25% from that of a state-of-the-art HMM system alone. By taking into account all the frames of a phonetic segment simultaneously, the SNN overcomes the well-known conditional-independence limitation of HMMs. The hybrid SNN/HMM system generates likely phonetic segmentations from the HMM N-best list, which are scored by the SNN. The HMM and SNN scores are then combined to optimize performance.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
CRISPR/Cas9-Mediated Genome Editing of Herpesviruses Limits Productive and Latent Infections (2016)

Herpesviruses infect the majority of the human population and can cause significant morbidity and mortality. Herpes simplex virus (HSV) type 1 causes cold sores and herpes simplex keratitis, whereas HSV-2 is responsible for genital herpes. Human cytomegalovirus (HCMV) is the most common viral cause of congenital defects and is responsible for serious disease in immuno-compromised individuals. Epstein-Barr virus (EBV) is associated with infectious mononucleosis and a broad range of malignancies, including Burkitt's lymphoma, nasopharyngeal carcinoma, Hodgkin's disease, and post-transplant lymphomas. Herpesviruses persist in their host for life by establishing a latent infection that is interrupted by periodic reactivation events during which replication occurs. Current antiviral drug treatments target the clinical manifestations of this productive stage, but they are ineffective at eliminating these viruses from the infected host. Here, we set out to combat both productive and latent herpesvirus infections by exploiting the CRISPR/Cas9 system to target viral genetic elements important for virus fitness. We show effective abrogation of HCMV and HSV-1 replication by targeting gRNAs to essential viral genes. Simultaneous targeting of HSV-1 with multiple gRNAs completely abolished the production of infectious particles from human cells. Using the same approach, EBV can be almost completely cleared from latently infected EBV-transformed human tumor cells. Our studies indicate that the CRISPR/Cas9 system can be effectively targeted to herpesvirus genomes as a potent prophylactic and therapeutic anti-viral strategy that may be used to impair viral replication and clear latent virus infection.
Cell recycling during repeated very high gravity bio-ethanol fermentations using the industrial Saccharomyces cerevisiae strain PE-2 (2011)

A very high gravity (VHG) repeated-batch fermentation system using an industrial strain of Saccharomyces cerevisiae PE-2 (isolated from sugarcane-to-ethanol distillery in Brazil) and mimicking industrially relevant conditions (high inoculation rates and low O(2) availability) was successfully operated during fifteen consecutive fermentation cycles, attaining ethanol at 17.1 ± 0.2% (v/v) with a batch productivity of 3.5 ± 0.04 g l(-1) h(-1). Moreover, this innovative operational strategy (biomass refreshing step) prevented critical decreases on yeast viability levels and promoted high accumulation of intracellular glycerol and trehalose, which can provide an adaptive advantage to yeast cells under harsh industrial environments. This study contributes to the improvement of VHG fermentation processes by exploring an innovative operational strategy that allows attaining very high ethanol titres without a critical decrease of the viability level thus minimizing the production costs due to energy savings during the distillation process.
Detection of Hepatitis B and C Viruses in Almost All Hepatocytes by Modified PCR-Based<i>In Situ</i>Hybridization (2010)

Although PCR-based in situ hybridization (PCR-ISH) can be used to determine the distribution and localization of pathogens in tissues, this approach is hampered by its low specificity. Therefore, we used a highly specific and sensitive PCR-ISH method to reveal the lobular distribution and intracellular localization of hepatitis B virus (HBV) and HCV in chronic liver disease and to clarify the state of persistent HBV and HCV infection in the liver. HBV genomic DNA was detected in almost all hepatocytes, whereas HBV RNA or protein was differentially distributed only in a subset of the HBV DNA-positive region. Further, HCV genomic RNA was detected in almost all hepatocytes and was localized to the cytoplasm. HCV RNA was also detected in the epithelium of the large bile duct but not in endothelial cells, portal tracts, or sinusoidal lymphocytes. In patients with HBV and HCV coinfection, HCV RNA was localized to the noncancerous tissue, whereas HBV DNA was found only in the cancerous tissue. Using this novel PCR-ISH method, we could visualize the staining pattern of HBV and HCV in liver sections, and we obtained results consistent with those of real-time detection (RTD)-PCR analysis. In conclusion, almost all hepatocytes are infected with HBV or HCV in chronic liver disease; this finding implies that the viruses spreads throughout the liver in the chronic stage.
Clinical usefulness of automatic phase selection in coronary CT angiography (CTA) (2007)

With high-speed multislice helical CT, the time needed to select the optimal cardiac phase accounts for a large percentage of the coronary CT angiography examination time because the scan time is short. To reduce the phase selection time, we have developed an automatic cardiac phase selection algorithm and implemented it in the Aquilion 64 scanner. This algorithm calculates the absolute sum of the differences between two raw data sets for subsequent cardiac phases (e.g., 4% and 0%) and generates a velocity curve representing the magnitude of cardiac motion velocity for the entire heart volume. Normally, the velocity curve has two local minimum slow-motion phases corresponding to end-systole and mid-diastole. By applying these local minimum phases in reconstruction, stationary cardiac images can be reconstructed automatically. In this report, the algorithm for generating the velocity curve and the processing time for selecting the optimal cardiac phase are discussed. The accuracy of this method is compared with that of the conventional manual method. In the manual method, a sample plane containing all four cardiac chambers was selected, reconstruction was performed for all phases at 2% intervals, and images were visually evaluated. Optimal phase selection required about 5 min/exam. With automatic phase selection, optimal phase selection required only about 1 min/exam, and the cardiac phases were close to those selected using the manual method. Automatic phase selection substantially reduces the time needed to select the optimal phase and increases patient throughput. Moreover, the influence of operator skill in selecting the optimal phase is minimized.
Characterization of monoclonal antibodies specific for sequential influenza A/PR/8/34 virus variants. (1986)

A panel of monoclonal antibodies specific for a corresponding panel of sequentially selected variants of influenza A/PR/8/34 virus has been established. Although the monoclonal antibodies are paratypically distinct, idiotypic relatedness has been observed. Two cross-reactive idiotypes have been defined that are associated with the 7183 and S107 VH gene families, respectively. Three of the four monoclonal antibodies utilize the VK21 group of light chains, and three VH genes belong to the VH7183 family and one to the VH S107 family. Antibodies encoded by genes deriving from the VH7183 family share a cross-reactive idiotype, a marker of the VH region as well as distinct individual idiotopes. These antibodies are produced by different clones using related VH and VK genes.
Loss of a Callose Synthase Results in Salicylic Acid-Dependent Disease Resistance (2003)

Plants attacked by pathogens rapidly deposit callose, a beta-1,3-glucan, at wound sites. Traditionally, this deposition is thought to reinforce the cell wall and is regarded as a defense response. Surprisingly, here we found that powdery mildew resistant 4 (pmr4), a mutant lacking pathogen-induced callose, became resistant to pathogens, rather than more susceptible. This resistance was due to mutation of a callose synthase, resulting in a loss of the induced callose response. Double-mutant analysis indicated that blocking the salicylic acid (SA) defense signaling pathway was sufficient to restore susceptibility to pmr4 mutants. Thus, callose or callose synthase negatively regulates the SA pathway.
SITE OF α-AMYLASE IN DEVELOPING BARLEY KERNELS (1972)

Dissection studies of two cultivars of barley showed that the pericarp of developing barley kernels contained α-amylase as well as starch granules. Shortly after anthesis, the starch granules disappeared completely and the α-amylase activity of the pericarp fell rapidly to a low level that was maintained until the kernels reached maturity. The α-amylase was isolated, partially purified by ion-exchange chromatography on carboxymethyl (CM) cellulose followed by selective precipitation with glycogen, and characterized by analysing the end-products of its action on amylose.
IL-1 β converting enzyme (ICE) is not required for apoptosis induced by lymphokine deprivation in an IL-2-dependent T cell line (1995)

Clonal T cells undergo programmed cell death (PCD) or apoptosis when cultured without the appropriate cytokines. The cysteine protease, IL-1 beta converting enzyme (ICE), is implicated in apoptosis based on its structural similarity to the PCD gene, ced-3, in Caenorhabditis elegans and the induction of PCD in fibroblasts transfected with recombinant ICE. We show that the murine IL-2-dependent CTLL T cell line expresses ICE but not IL-1 beta. Interestingly, ICE mRNA and protein levels increase during apoptosis. Yet inhibition of ICE enzymatic activity (> 90%) with either of two cell-permeable ICE inhibitors does not abrogate or delay apoptosis following IL-2 deprivation, as measured by DNA fragmentation and viability. Our results suggest that ICE is not required for apoptosis in lymphokine-deprived T cells.
California fresh tomatoes: Marketing channels and gross margins from farm to consumer studied in statewide project (1951)

California Agriculture - All Issues
Dielectric function and critical points of cubic and hexagonal CdSe (1994)

The dielectric function of cubic and hexagonal CdSe has been measured by spectroscopic ellipsometry in the 2--25-eV range. The results are compared with similar data for CdS and other II-VI compounds and also with band-structure calculations. Relevant critical points are listed. Transitions originating in the Cd 4d levels are identified and an estimate of the corresponding exciton binding energies is made.
Hypotensive Effect of Bromocriptine in Glaucomatous Eyes (1987)

The effect of a single oral dose of 2.5 mg bromocriptine on intraocular pressure in 20 glaucoma patients is reported. Intraocular pressure was significantly reduced (31%), the maximal response being after 4-6 hours. A decrease in blood pressure was also noticed, maximal reduction (5%) at 4 hours. Three patients experienced nausea and dizziness. Possibly the reducing effect of bromocriptine on intraocular pressure is mediated by the stimulation of intraocular dopamine receptors (DA2).
Minnelide: A Novel Therapeutic That Promotes Apoptosis in Non-Small Cell Lung Carcinoma In Vivo (2013)

In conclusion, our results provide supporting mechanistic evidence for Minnelide as a potential in NSCLC.
DEC‐205 expression on migrating dendritic cells in afferent lymph (2004)

Previous studies have identified a 210 000-molecular weight molecule expressed at a high level on the surface of dendritic cells (DCs) in afferent lymph of cattle and evident on cells with the morphology of DCs in lymphoid tissues. Expression is either absent from other immune cells or is present at a lower level. The molecular weight and cellular distribution suggested that the molecule, called bovine WC6 antigen (workshop cluster), might be an orthologue of human DEC-205 (CD205). To establish whether this was the case, the open reading frame of bovine DEC-205 was amplified, by polymerase chain reaction, from thymic cDNA (accession no. AY264845). The cDNA sequence of bovine DEC-205 had 86% and 78% nucleic acid identity with human and mouse molecules, respectively. COS-7 cells transfected with a plasmid containing the cattle DEC-205 coding region expressed a molecule that stained with WC6-specific monoclonal antibody, showing that ruminant WC6 is an orthologue of DEC-205. Two-colour flow cytometry of mononuclear cells from afferent lymph draining cattle skin, and from blood, confirmed the high level of expression on large cells in lymph that were uniformly DC-LAMP positive and major histocompatibility complex class II positive. Within this DEC-205+ DC-LAMP+ population were subpopulations of cells that expressed the mannose receptor or SIRPalpha. The observations imply that DCs in afferent lymph are all DEC-205high, but not a uniform population of homogeneous mature DCs.
Fibulin-1 Is a Ligand for the C-type Lectin Domains of Aggrecan and Versican (1999)

The aggregating proteoglycans (aggrecan, versican, neurocan, and brevican) are important components of many extracellular matrices. Their N-terminal globular domain binds to hyaluronan, but the function of their C-terminal region containing a C-type lectin domain is less clear. We now report that a 90-kDa protein copurifies with recombinant lectin domains from aggrecan and versican, but not from the brain-specific neurocan and brevican. Amino acid sequencing of tryptic peptides from this protein identified it as fibulin-1. This extracellular matrix glycoprotein is strongly expressed in tissues where versican is expressed (blood vessels, skin, and developing heart), and also expressed in developing cartilage and bone. It is thus likely to interact with these proteoglycans in vivo. Surface plasmon resonance measurements confirmed that aggrecan and versican lectin domains bind fibulin-1, whereas brevican and neurocan do not. As expected for a C-type lectin, the interactions with fibulin-1 are Ca2+-dependent, with KD values in the low nanomolar range. Using various deletion mutants, the binding site for aggrecan and versican lectin domains was mapped to the epidermal growth factor-like repeats in domain II of fibulin-1. No difference in affinity was found for deglycosylated fibulin-1, indicating that the proteoglycan C-type lectin domains bind to the protein part of fibulin-1.
Off-line dictionary-based compression (2000)

Dictionary-based modeling is a mechanism used in many practical compression schemes. In most implementations of dictionary-based compression the encoder operates on-line, incrementally inferring its dictionary of available phrases from previous parts of the message. An alternative approach is to use the full message to infer a complete dictionary in advance, and include an explicit representation of the dictionary as part of the compressed message. In this investigation, we develop a compression scheme that is a combination of a simple but powerful phrase derivation method and a compact dictionary encoding. The scheme is highly efficient, particularly in decompression, and has characteristics that make it a favorable choice when compressed data is to be searched directly. We describe data structures and algorithms that allow our mechanism to operate in linear time and space.
Monitoring of Cytomegalovirus-Specific CD8+ T-Cell Response With Major Histocompatibility Complex Pentamers in Kidney Transplant Recipients (2011)

The A*02NLV-pentamer complex was useful to monitor CMV-specific T cells. However, MHC pentamer-based techniques did not provide a clear distinction between patients who are or are not at risk for CMV infection.
[4 + 2]-Cycloaddition Reactions between β-Acceptor-Substituted Enamines and 2-Vinylindole Radical Cations Acting as Hetero-Dienes (1996)

[4 + 2]-Cycloaddition reactions between 2-vinylindoles acting as hetero-dienes and beta-acceptor substituted cyclic and acyclic enamines can be induced by formation of 2-vinylindole radical cations either via anodic oxidation or photoelectron transfer (PET) using catalytic amounts of triarylpyrylium tetrafluoroborates as sensitizers. In this way, pyrido[1,2-a]indoles or indolo[1,2-a]hexahydro-1,8-naphthyridines are formed in one step with complete regio- and stereochemical control.
Analyses on the Physical and Electrochemical Properties of Al<sub>2</sub>O<sub>3</sub>Coated LiCoO<sub>2</sub> (2007)

전자 산업의 발전과 함께 휴대폰, 노트북, PDA등과 같은 휴대 정보 전자 기기의 고성능 에너지 공급원으로서 이차전지 산업의 중요성이 높아지고 있다. 이에 따라 리튬이차전지의 핵심부품인 양극재료의 고성능화 및 안전성 확보에 대해 많은 관심이 증대되고 있다. 현재 사용되고 있는 양극재료에는 <TEX>$LiCoO_2,\;LiMn_2O_4,\;LiNi_xCo_yMn_zO_2,\;LiNi_xCo_yM_zO_2$</TEX> (M=Al, Zr, Mg 등) 등이 있으며, 그중 가장 대표적으로 사용되고 있는 물질은 <TEX>$LiCoO_2$</TEX>이다. 그러나 <TEX>$LiCoO_2$</TEX>가 가지고 있는 용량적 한계 및 안전성 문제로 인하여 <TEX>$LiCoO_2$</TEX>의 성능 개선 및 3성분계, 올리빈계와 같은 대체물질의 개발에 대한 연구가 활발히 진행중이다. 특히 산화물(<TEX>$M_xO_3$</TEX>)을 이용한 활물질 표면처리와 같은 성능개선 및 안전성 확보연구는 국내 및 국외에서 활발히 진행되고 있다. 본 연구에서는 <TEX>$LiCoO_2$</TEX>의 표면처리 과정에서 불균일 코팅된 산화물의 탈리 및 이의 응집에 의한 침전물 생성 및 표면처리량의 증가에 따른 전지에서의 부작용에 대하여 분석하고, 이와 같은 문제점을 개선하기 위해 코팅량 조정 및 표면처리 공정의 혼합, 건조, 소성 조건 등과 같은 신공정에 대한 연구와 전기화학적 특성 고찰을 실시하였다. The importance of secondary battery industry is getting excited according to the development of battery industry as a high efficiency energy supplier of electronic machine of mobile information such as mobile phone, lap-top computer, PDA. It is rasing the interest about security of safety and high efficiency of cathode material for main part of secondary lithium battery. The cathode material which has been used like <TEX>$LiCoO_2,\;LiMn_2O_4,\;LiNi_xCo_yMn_zO_2,\;LiNi_xCo_yM_zO_2$</TEX> (M=Al, Zr, Mg etc.,) the most typical material is <TEX>$LiCoO_2$</TEX>. But it is studying the development of substitute such as efficiency amelioration of <TEX>$LiCoO_2$</TEX>, thetiary element, olivine element because of the capacity of <TEX>$LiCoO_2$</TEX>, the matter of security; especially the betterment of efficiency, security research of safety has been actively processed in domestic and overseas about surface coating treatment of active cathode which is using oxide (<TEX>$M_xO_3$</TEX>). This study analyses side effect of battery according to increase of surface treatment, formation of precipitation for reagent condensation, non-reagent residue of oxide (<TEX>$M_xO_3$</TEX>) which is remains during the surface treatment of <TEX>$LiCoO_2$</TEX>; conducts study of new process, the consideration of the electrochemical property to improve oxide solution of mixing rate, mixture of surface treatment, dryness, calcinations conditionetc.
Thermosonic Flip Chip Interconnection Using Electroplated Copper Column Arrays (2006)

A novel flip chip process is reported in which bare dies are thermosonically bonded to arrays of electroplated copper columns formed on a substrate. The new process is intended as a low-cost, lead-free chip-on-board (COB) interconnection method for high-frequency devices. A detailed study has been performed of the electroplating and thermosonic bonding techniques involved. It was found that oxygen plasma treatment of the resist mask could increase the yield of the fine-pitch (<150 mum) column electroplating process, while the flatness of the resulting columns was affected by the plating current density and the sidewall profiles in the resist mold. Under optimal conditions, column arrays with flat tops could be produced with a 100% yield, and with a column height deviation of less than 0.5 mum over an area of 10 mmtimes10 mm. The array thermosonic bonding process was studied with the aid of Box-Behnken design of experiments based on response surface methodology. A second-order relationship between the input bonding variables and the bonding strength was derived and used to determine optimal process conditions. With this optimized process, silicon chips with aluminium metallization were thermosonically flip chip bonded to quartz test boards bumped with gold-capped copper columns. Sixteen prototype assemblies without underfill protection were evaluated by accelerated lifetime tests. The contact resistances of single column connections showed no significant change after 50 thermal shocks of 0 degC to 100 degC, and samples subjected to high-temperature storage remained intact at all bonding interfaces after 1.5 h at 300 degC. Thermal cycling between -55degC and 125 degC produced open-circuit defects in a small number of connections after 70 cycles
<i>Bacillus</i> Spore Classification via Surface-Enhanced Raman Spectroscopy and Principal Component Analysis (2008)

Surface-enhanced Raman spectroscopy (SERS) can provide rapid fingerprinting of biomaterial in a nondestructive manner. The adsorption of colloidal silver to biological material suppresses native biofluorescence while providing electromagnetic surface enhancement of the normal Raman signal. This work validates the applicability of qualitative SER spectroscopy for analysis of bacterial species by utilizing principal component analysis (PCA) to show discrimination of biological threat simulants, based upon multivariate statistical confidence limits bounding known data clusters. Gram-positive Bacillus spores (Bacillus atrophaeus, Bacillus anthracis, and Bacillus thuringiensis) are investigated along with the Gram-negative bacterium Pantoea agglomerans.