gebhart/patrepeval huggingface dataset:
Components of Developing Soybean Seeds: Oil, Protein, Sugars, Starch, Organic Acids, and Amino Acids<sup>1</sup> (1977)

Abstract A thorough chemical analysis on the composition of developing soybean [ Glycine max (L.) Merr.] seeds does not appear in the literature. Several investigators have determined protein and oil, while others have determined the carbohydrates. The purpose of this study was to make a thorough analysis of the developing soybean seed, including protein, oil, sugars, starch, organic acids, and amino acids. Soybean seeds from ‘Harosoy 63’ grown in the field and ‘Steele’ grown in the greenhouse were analyzed for these components from 10 days after flowering, at 10‐day intervals, to maturity. These components accounted for 75% of the dry weight of the seed. The remaining dry weight of the seed is in cellulose, crude fiber, and ash. Oil and protein (mg/seed) increased until maturity in Harosoy 63 but leveled off before maturity in Steele. When oil and protein are expressed as percentage dry weight, similar patterns were observed for both cultivars. The sugars glucose, fructose, galactose, sucrose, raffinose, and stachyose were all detected in the soybean seed. Raffinose and stachyose were not detected until 50 and 40 days after flowering in Harosoy 63 and Steele, respectively. Starch reached a maximum value of 14.6 mg/seed in Harosoy 63 and 7.9 mg/seed in Steele at 40 and 30 days after flowering, respectively. Starch then declined sharply in both varieties. The water soluble polysaccharide (mg/seed) fraction showed a steady rise for both varieties throughout the study, but declined as percent of dry weight. The concentration of organic acids was low, with glycolic, succinic, malic, and citric being detected. Citric acid was detected in the greatest quantity. Seventeen amino acids and one unknown component were detected in the amino acid analysis. Of the amino acids detected, seven showed increases while three amino acids as well as the unknown showed decreases. Analysis of variances and standard error of the mean were performed on the data for each trait in each variety using a completely randomized design with specific tests for linear regression over the 70 or 60 days after flowering. In addition, quadratic regression was run for starch. Simple correlation coefficients were also found between all the traits studied and can be obtained upon request.
Plasmid-mediated degradation of dibenzothiophene by Pseudomonas species (1985)

The microbial transformation of dibenzothiophene (DBT) is of interest in the potential desulfurization of oil. We isolated three soil Pseudomonas species which oxidized DBT to characteristic water-soluble, sulfur-containing products. Two of our isolates harbored a 55-megadalton plasmid; growth in the presence of novobiocin resulted in both loss of the plasmid and loss of the ability to oxidize DBT. Reintroduction of the plasmid restored the ability to oxidize DBT to water-soluble products. The products resulting from the oxidation of DBT were characterized and included 3-hydroxy-2-formyl benzothiophene, 3-oxo-[3'-hydroxy-thionaphthenyl-(2)-methylene]-dihydrothionaph thene, and the hemiacetal and trans forms of 4-[2-(3-hydroxy)-thianaphthenyl]-2-oxo-3-butenoic acid. The products of DBT oxidation were inhibitory to cell growth and further DBT oxidation. DBT oxidation in our soil isolates was induced by naphthalene or salicylate and to a much lesser extent by DBT and was repressed by succinate.
Detection of DNA Aberrations in Human Cancers by Single-Strand Conformation Polymorphism Analysis of Polymerase Chain Reaction Products. (1992)

We have developed a simple, sensitive method, single-strand conformation polymorphism (SSCP) analysis, to detect a single nucleotide substitution in a DNA fragment amplified and labeled by the polymerase chain reaction (PCR). Mobility shift of single-stranded DNAs due to their specific conformations on non-denaturing polyacrylamide gel electrophoresis can reveal DNA aberrations. By the PCR-SSCP analysis of DNAs from surgical specimens of human cancers, mutated ras genes (17%) and aberrations of tumor suppressor p53 gene (53%) including loss of one of the two alleles and a mutation in the remaining allele were detected in lung carcinomas and aberrations of both of the p53 and retinoblastoma (RB) genes were detected exclusively in advanced hepatocellular carcinomas.
A Novel, Bio-Reducible Gene Vector Containing Arginine and Histidine Enhances Gene Transfection and Expression of Plasmid DNA (2011)

We have engineered a novel, non-viral, multifunctional gene vector (STR-CH(2)R(4)H(2)C) that contained stearoyl (STR) and a block peptide consisting of Cys (C), His (H), and Arg (R). STR-CH(2)R(4)H(2)C can form a stable nano-complex with plasmid DNA (pDNA) based on electronic interactions and disulfide cross linkages. In this study, we evaluated the efficacy of STR-CH(2)R(4)H(2)C as a gene vector. We first determined the optimal weight ratio for STR-CH(2)R(4)H(2)C/pDNA complexes. The complexes with a weight ratio of 50 showed the highest transfection efficacy. We also examined the transfection efficacy of STR-CH(2)R(4)H(2)C/pDNA complexes with or without serum and compared STR-CH(2)R(4)H(2)C/pDNA transfection efficacy with that of Lipofectamine. Even in the presence of serum, STR-CH(2)R(4)H(2)C showed higher transfection efficacy than did Lipofectamine. In addition, we determined the mechanism of transfection of the STR-CH(2)R(4)H(2)C/pDNA complexes using various cellular uptake inhibitors and evaluated its endosomal escape ability using chloroquine. Macropinocytosis was main cellular uptake pathway of STR-CH(2)R(4)H(2)C/pDNA complexes. Our results suggested that STR-CH(2)R(4)H(2)C is a promising gene delivery system.
Influence of Shell Thickness and Cross-Link Density on the Structure of Temperature-Sensitive Poly-<i>N</i>-Isopropylacrylamide−Poly-<i>N</i>-Isopropylmethacrylamide Core−Shell Microgels Investigated by Small-Angle Neutron Scattering (2005)

Swelling properties of doubly temperature sensitive core-shell microgels consisting of two thermosensitive polymers with lower critical solution temperatures (LCTS) at, respectively, 34 degrees C in the core and 44 degrees C in the shell have been investigated by small-angle neutron scattering (SANS). A core-shell form factor has been employed to evaluate the structure, and the real space particle structure is expressed by radial density profiles. By this means, the influences of both shell/core mass composition and shell cross-linker content on the internal structure have been revealed at temperatures above, between, and below the LCSTs. Higher shell/core mass ratios lead to an increased expansion of the core at temperatures between the LCSTs, whereas a variation of cross-linker in the shell mainly effects the dimensions of the shell. The influence on the core structure was interpreted as resulting from an elastic force developed from the swollen shell. At temperatures below the core LCST, the core cannot swell to its native size (i.e., in the absence of a shell), because the maximum expanded shell network prohibits further swelling. Thus, depending on temperature, the shell either expands or compresses the core.
Comparison of HPV genotyping and methylated ZNF582 as triage for women with equivocal liquid-based cytology results (2015)

ZNF582 (m) provides a promising triage tool for women with ASC. To effectively manage ASC patients, a new strategy co-testing for ZNF582 (m) and HPV-16/18 genotyping was proposed. This strategy could reduce the number of patients referred for colposcopic examination and thus provide a feasible follow-up solution in the regions where colposcopy is not readily available. This strategy could also prevent women from experiencing unnecessary anxiety caused by HPV-HR.
Diffusion Tensor Magnetic Resonance Imaging of Prostate Cancer (2007)

Three Tesla DTI of the prostate gland is feasible and has the potential for providing improved diagnostic information.
Long-term integration and neuronal differentiation of human embryonal carcinoma cells (NT era-2) transplanted into the caudoputamen of nude mice (1996)

NTera-2 (NT2) cells are a human embryonal carcinoma (EC) cell line derived from a teratocarcinoma that differentiate exclusively into postmitotic neurons in vitro following retinoic acid (RA) treatment. Like other EC cell lines, NT2 cells rapidly form lethal tumors following transplantation into peripheral sites or many regions of the brain. However, when grafts are confined to the caudoputamen (CP), the NT2 cells differentiate into postmitotic neuronlike cells and do not form lethal tumors. To examine the long-term fate of such grafts, we studied NT2 cell transplants in the CP of nude mice that survived for > 1 year. NT2 cells in these grafts acquired molecular markers of fully mature neurons including the low, middle, and high molecular weight neurofilament proteins, microtubule-associated protein 2, tau, and synaptophysin. Furthermore, neuronlike cells in long-term CP grafts formed synaptic structures, and their processes became myelinated, whereas tyrosine hydroxylase (TH)-positive neuronlike cells in the grafts increased with progressively longer postimplantation survival times. Soluble extracts of the adult mouse CP augmented TH expression in RA-treated NT2 cells in vitro. These data suggest that the adult mouse CP is a source of factor(s) that inhibits tumor formation and induce a catecholaminergic neuronal phenotype in these human NT2 cells in vivo and in vitro. Identification of these factors could accelerate efforts to elucidate mechanisms that regulate progenitor cell fate and the commitment of neurons to specific neurotransmitter phenotypes.
Local B cells and IgE production in the oesophageal mucosa in eosinophilic oesophagitis (2009)

These results support the heretofore unproven occurrence of both local immunoglobulin class switching to IgE and IgE production in the oesophageal mucosa of EO patients. Sensitisation and activation of mast cells involving local IgE may therefore critically contribute to disease pathogenesis.
Fast profilometer for the automatic measurement of 3-D object shapes (1990)

A fast technique for automatic 3-D shape measurement is proposed and verified by experiments. The technique, based on the principle of phase measurement of the deformed grating pattern which carries the 3-D information of the measured object, can automatically and accurately obtain the phase map or the height information of a measured object at every pixel point without assigning fringe orders and interpreting data in the regions between the fringe orders. Only one image pattern is sufficient for obtaining the phase map. In contrast to the fast Fourier transform based technique, the technique processes a fringe pattern in the real-signal domain instead of the frequency domain by using demodulation and convolution techniques, can process an arbitrary number of pixel points, and is much faster. Theoretical analysis, simulation results, and experimental results are presented.
Overview of bronchiolitis. (2005)

Respiratory syncytial virus RSV, a nonsegmented, single stranded ribonucleic acid virus, infects one-half of all infants within the first year of life. Respiratory syncytial virus possesses pathogenetic qualities that may be attributed to the interplay of viral and host-specific factors including virus strains of different virulence, size of the inoculum, family history of asthma or airway hyper-reactivity and immunologic anomalies of the host. Inflammatory cell recruitment and activation occur in response to RSV infection of epithelial cells. Epithelial cells initiate the inflammatory response to RSV by elaborating a wide variety of cytokines and chemokines that trigger further inflammatory responses. Treatment of RSV in infants with bronchiolitis is complicated due to the multifactorial nature of this infection. Treatment of RSV bronchiolitis rests primarily on supportive care with oxygen and fluid management. Other therapies commonly used include bronchodilators, corticosteroids and ribavirin, where considered appropriate. Although oxygen administration and judicious fluid replacement are the only interventions proved to be of reliable benefit to infants with bronchiolitis, newer studies support a role for adjunctive therapies aimed at relieving airway obstruction, especially when administered very early in the course of the illness or given to infants with more severe disease.
Analysis of Autoantibody Profiles in Osteoarthritis Using Comprehensive Protein Array Concepts (2014)

Osteoarthritis (OA) is the most common rheumatic disease and one of the most disabling pathologies worldwide. To date, the diagnostic methods of OA are very limited, and there are no available medications capable of halting its characteristic cartilage degeneration. Therefore, there is a significant interest in new biomarkers useful for the early diagnosis, prognosis, and therapeutic monitoring. In the recent years, protein microarrays have emerged as a powerful proteomic tool to search for new biomarkers. In this study, we have used two concepts for generating protein arrays, antigen microarrays, and NAPPA (nucleic acid programmable protein arrays), to characterize differential autoantibody profiles in a set of 62 samples from OA, rheumatoid arthritis (RA), and healthy controls. An untargeted screen was performed on 3840 protein fragments spotted on planar antigen arrays, and 373 antigens were selected for validation on bead-based arrays. In the NAPPA approach, a targeted screening was performed on 80 preselected proteins. The autoantibody targeting CHST14 was validated by ELISA in the same set of patients. Altogether, nine and seven disease related autoantibody target candidates were identified, and this work demonstrates a combination of these two array concepts for biomarker discovery and their usefulness for characterizing disease-specific autoantibody profiles.
Oxygen removal during pathogen inactivation with riboflavin and <scp>UV</scp> light preserves protein function in plasma for transfusion (2013)

RF-PRT of single plasma units generates reactive oxygen species that adversely affect biomolecular integrity of relevant plasma constituents, a side-effect, which can be bypassed by applying hypoxic conditions during the pathogen inactivation process.
The <i>ABSCISIC ACID INSENSITIVE 3</i> (<i>ABI3</i>) gene is modulated by farnesylation and is involved in auxin signaling and lateral root development in <i>Arabidopsis</i> (2003)

Genetic screens have identified a number of genes that regulate abscisic acid (ABA) responsiveness in Arabidopsis. Using a combination of suppressor screens and double mutant analysis, we have determined a genetic relationship for a number of these ABA response loci. Based on germination in the presence of exogenous ABA, the ABI1 and ABI2 phosphatases act at or upstream of the ERA1 farnesyl transferase and the ABI3 and ABI5 transcription factors act at or downstream of ERA1. In contrast with ABI3 and ABI5, the ABI4 transcription factor appears to act at or upstream of ERA1. Based on reporter gene constructs, the upstream regulation of ABI3 by ERA1 occurs at least partially at the level of transcription, suggesting that this lipid modification is required to attenuate ABI3 expression. Similar experiments also indicate that ABI3 is auxin inducible in lateral root primordia. Related to this, loss-of-function abi3 alleles show reduced lateral root responsiveness in the presence of auxin and an auxin transport inhibitor, and era1 mutants have increased numbers of lateral roots. These results suggest the possibility that genes identified through ABA responsive germination screens such as ERA1 and ABI3 have functions in auxin action in Arabidopsis.
Substituted 5-Allyl-9-oxobenzomorphans. Versatile Intermediates for Investigations in the Field of Analgesics and Narcotic Antagonists. Part 1 (1975)

2-Tetralone has been converted to 5-allyl-2-methyl-9-oxo-benzomorphan methobromide (4). Thermal dequaternization of 4 afforded tertiary base 5. Alternatively, 4 was reduced with sodium borohydride to give 7a or reacted with methylmagnesium iodide to give 7b. Dequaternization of these to tertiary bases (8a and 8b) followed by acid-catalyzed cyclization afforded tetrahydrofurano compounds 9a and 9b, respectively. Bromocyclization of 8b afforded bromomethyltetrahydrofurano compound 9c, which was further converted to dimethylamino compound 9d.
Insect Immunity I. Characteristics of an Inducible Cell-Free Antibacterial Reaction in Hemolymph of <i>Samia cynthia</i> Pupae (1974)

Pupae of the silk moth, Samia cynthia, were found to contain an inducible antibacterial activity in their hemolymph. This immunity response was provoked by primary infections with either Escherichia coli K-12 or Enterobacter cloacae. In both cases the antibacterial activity was directed chiefly towards E. coli. During standard conditions, 1% of hemolymph could kill 10(3) to 10(4) viable E. coli, strain D31, within 5 min. A lower level of antibacterial activity was induced by injections of a sterile salt solution. The killing of strain D31 followed single-hit kinetics, and increasing rate constants were obtained for increasing amounts of hemolymph. The reaction was sensitive to pretreatment with trypsin and it was protected by reducing agents. The activity was inhibited by microgram quantities of lipopolysaccharide (LPS) prepared from certain LPS mutants of E. coli K-12. A comparison of the susceptibility showed that "heptose-less" LPS mutants were more sensitive to killing than other strains. During standard conditions hemolymph will lyse both E. coli and Micrococcus lysodeikticus. Lysis of E. coli followed a multi-hit kinetics and it was inhibited by LPS, whereas lysis of M. lysodeikticus was unaffected by LPS. Hemolymph was fractionated on Sephadex G-200, and the lytic activities were recovered in partly overlapping peaks. Reconstitution with pooled fractions gave synergistic effects with the killing assay.
A Norovirus Protease Structure Provides Insights into Active and Substrate Binding Site Integrity (2005)

ABSTRACT Norovirus 3C-like proteases are crucial to proteolytic processing of norovirus polyproteins. We determined the crystal structure of the 3C-like protease from Chiba virus, a norovirus, at 2.8-Å resolution. An active site including Cys139 and His30 is present, as is a hydrogen bond network that stabilizes the active site conformation. In the oxyanion hole backbone, a structural difference was observed probably upon substrate binding. A peptide substrate/enzyme model shows that several interactions between the two components are critical for substrate binding and that the S1 and S2 sites appropriately accommodate the substrate P1 and P2 residues, respectively. Knowledge of the structure and a previous mutagenesis study allow us to correlate proteolysis and structure.
Detecting atomic-set serializability violations in multithreaded programs through active randomized testing (2010)

Concurrency bugs are notoriously difficult to detect because there can be vast combinations of interleavings among concurrent threads, yet only a small fraction can reveal them. Atomic-set serializability characterizes a wide range of concurrency bugs, including data races and atomicity violations. In this paper, we propose a two-phase testing technique that can effectively detect atomic-set serializability violations. In Phase I, our technique infers potential violations that do not appear in a concrete execution and prunes those interleavings that are violation-free. In Phase II, our technique actively controls a thread scheduler to enumerate these potential scenarios identified in Phase I to look for real violations. We have implemented our technique as a prototype system AssetFuzzer and applied it to a number of subject programs for evaluating concurrency defect analysis techniques. The experimental results show that AssetFuzzer can identify more concurrency bugs than two recent testing tools RaceFuzzer and AtomFuzzer.
Editorial (1996)

This first issue of 1996 inaugurates a volume of Digestive Surgery which will feature extra content and exceptional scientific contributions.Equally important, subscribers can look forward to receiving the entire volume within the next six months, guaranteeing timely publication.Below is a brief preview of the issues readers can look forward to receiving in the following months:The second issue of this volume will appear in April and is entitled 'Surgical Treatment of Chronic Pancreatitis: New Standards'.This informative topical issue is authored by international experts who outline important issues in the treatment of chronic pancrcatits and give practical guidelines on drainage pro cedures and pancreatic resection.A selection of peer-reviewed original papers, reviews, case reports and the popular 'How I do it' section will be featured in issue three.Issue four and five will be dedicated to the topic 'Abdominal Sepsis' which will include extensive contents of approximately forty papers.Readers will definitely find this issue to be a valuable reference work in that it provides a multifaceted overview of all clinical aspects of abdominal sepsis as well as contributions from basic researchers.Finally, the last issue, which is to appear in October 1996 in time for the 5th United European Gastroenterology Week, will be a regular issue featuring an array of international contributions.We would also like to take this opportunity to draw your attention to the new cover page design and several minor additions which should be helpful for citation purposes.The journal logo now appears at the beginning of each paper and the papers' citation lines and bibliographic information are listed as foot notes on each page.Editing a bimonthly journal in this challenging field of medicine is always a difficult task.However, thanks to the competent backup of both our editorial assistants and the skilled staff of S. Karger Publishers, we can look forward to regularly bringing you a journal of high scientific standing.
Detection and localization of actin mRNA isoforms in chicken muscle cells by in situ hybridization using biotinated oligonucleotide probes (1990)

We have developed in situ hybridization methodology for nonisotopically labeled oligonucleotide probes to detect cellular mRNA with improved speed, convenience, and resolution over previous techniques. Previous work using isotopically labeled oligonucleotide probes characterized important parameters for in situ hybridization (Anal Biochem 166:389, 1987). Eleven oligonucleotide probes were made to coding and noncoding regions of chick beta-actin mRNA and one oligonucleotide probe to chick alpha-cardiac actin mRNA. All the probes were 3' end-labeled with bio-11-dUTP using terminal transferase, and the labeled probes were hybridized to chicken myoblast and myotube cultures. The hybridized probe was detected using a streptavidin-alkaline phosphatase conjugate. Our assay for the success of probe hybridization and detection was the demonstration of beta-actin mRNA highly localized in the lamellipodia of single cells (Lawrence and Singer, Cell 45:407, 1986) as well as the expression of alpha-cardiac actin mRNA and the repression of beta-actin mRNA in differentiating myoblasts and in myotubes. With the alpha-cardiac probe, we found that this mRNA was distributed all over the cytoplasm of myotubes and differentiated (bipolar) single cells and negative in undifferentiated single cells and at the ends of myotubes. When beta-actin probes were used, two of 11 probes were highly sensitive, and, in pooling them together, the localization of beta-actin mRNA in fibroblastic single cells was evident at the leading edge of the motile cells, the lamellipodium. beta-Actin mRNA was not detected in myotubes except at the ends where contact was made with substrate. This indicates that both beta and cardiac actin mRNA can coexist in the same myotube cytoplasm but at different locations.