gebhart/patrepeval huggingface dataset:
Phosphorylation of the B1 (CD20) molecule by normal and malignant human B lymphocytes. (1988)

The B1 molecule (CD20) is a phosphoprotein found only on B lymphocytes. Multiple isoforms of the B1 molecule are expressed with Mr of 33,000, B1(33) and Mr of 34,500-36,000, B1(35). In this study it was found that nonproliferating B cells did not incorporate 32PO4 into B1 although phosphorylated class I histocompatibility molecules were easily detected. In contrast B1 isolated from proliferating or malignant B cells or B cell lines was heavily phosphorylated. Cross-linking B1 on the cell surface by antibody resulted in enhanced phosphorylation of B1 as did exposure to phorbol esters, and the membrane permeable diacylglycerol analog 1,2,-dioctanoylglyceron. B1(33) and B1(35) produced identical peptide maps following limited proteinase digestion. However, B1(35) contained both phosphoserine and phosphothreonine, while B1(33) only contained phosphoserine. In addition alkaline phosphatase was able to remove the phosphate residue(s) that resulted in generation of the B1(35) form of B1 but was unable to remove the phosphorylation of B1(33). These results suggest that phosphorylation of B1 molecules is associated with proliferation and that the different Mr forms of B1 result from the phosphorylation of B1 at different sites. Also, the finding that antibody binding to B1 generated a transmembrane signal may explain why antibody binding to B1 alters B cell function.
Developments Concerning in situ Environmental Cell High‐Resolution Electron Microscopy and Applications to Catalysis (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.
Comment on “Multi-Object Auctions: Sequential vs. Simultaneous Sales” (1986)

The purpose of this brief comment is to provide some empirical data to support the relevance of the theoretical arguments put forward in Donald Hausch’s paper (Hausch, Donald B. 1986. Multi-object auctions: sequential vs. simultaneous sales. Management Sci. 32.). There are two different kinds of evidence. One is the results of a small “natural experiment” that occurred in 1965. The other is the first-hand report by one of us of the considerations taken into account in the design of outer continental shelf (OCS) oil auctions.
Antihyperglycemic activity of Prunella vulgaris L. in streptozotocin-induced diabetic mice. (2007)

Prunella vulgaris L. (Labiatae) has been reported to have a wide range of health benefits in oriental medicine. This study for the first time is to examine the antihyperglycemic effects of P. vulgaris in streptozotocin (STZ)-induced diabetic ICR mice (STZ diabetic mice). The effects of P. vulgaris L. aqueous-ethanol extract (PVE) on blood glucose, exogenous insulin sensitivity and plasma insulin levels were investigated. In four doses of extracts from the spikes of P. vulgaris, extract at dose of 100 mg/kg significantly suppressed the rise in blood glucose after 30 min in the acute glucose tolerance test. Furthermore, this dose was applied in the fellow experiments. A significant decrease in blood glucose levels was observed after treatment of PVE. A combination of PVE and glibenclamide produced a greater effect in blood glucose level than using glibenclamide or PVE alone. PVE enhanced and prolonged the antihyperglycemic effects of exogenous insulin on STZ diabetic mice. Plasma insulin levels were increased with glibenclamide treatment in STZ diabetic mice, whereas such effect was not observed with PVE. These results indicated that P. vulgaris enhances the antihyperglycemic effects of exogenous insulin without stimulating insulin secretion, indicating that insulin sensitivity is increased in STZ diabetic mice.
Characterization of components released by alkali disruption of simian virus 40 (1977)

Treatment of simian virus 40 (SV40) particles at pH 9.8 in the presence of 1 mM dithiothreitol for 5 min at 37 degrees C disrupted the virions into a 60S DNA-protein complex and DNA-free 7S protein particles. The DNA-protein complex contained approximately equal amounts of DNA and protein, and appeared by electron microscopy to be relaxed circular structures with an average of 21 beads joined by short, thin bridges. The major protein components in the complex were host cell histones, but SV40-specific proteins VP3 and VP2 were also present. The 7S protein particles were almost exclusively VP1 and, in negatively stained samples, resembled the capsomer structures of intact virions.
Fast crash recovery in RAMCloud (2011)

RAMCloud is a DRAM-based storage system that provides inexpensive durability and availability by recovering quickly after crashes, rather than storing replicas in DRAM. RAMCloud scatters backup data across hundreds or thousands of disks, and it harnesses hundreds of servers in parallel to reconstruct lost data. The system uses a log-structured approach for all its data, in DRAM as well as on disk: this provides high performance both during normal operation and during recovery. RAMCloud employs randomized techniques to manage the system in a scalable and decentralized fashion. In a 60-node cluster, RAMCloud recovers 35 GB of data from a failed server in 1.6 seconds. Our measurements suggest that the approach will scale to recover larger memory sizes (64 GB or more) in less time with larger clusters.
Detection of Dengue Viral RNA Using a Nucleic Acid Sequence-Based Amplification Assay (2001)

Faster techniques are needed for the early diagnosis of dengue fever and dengue hemorrhagic fever during the acute viremic phase of infection. An isothermal nucleic acid sequence-based amplification (NASBA) assay was optimized to amplify viral RNA of all four dengue virus serotypes by a set of universal primers and to type the amplified products by serotype-specific capture probes. The NASBA assay involved the use of silica to extract viral nucleic acid, which was amplified without thermocycling. The amplified product was detected by a probe-hybridization method that utilized electrochemiluminescence. Using normal human plasma spiked with dengue viruses, the NASBA assay had a detection threshold of 1 to 10 PFU/ml. The sensitivity and specificity of the assay were determined by testing 67 dengue virus-positive and 21 dengue virus-negative human serum or plasma samples. The "gold standard" used for comparison and evaluation was the mosquito C6/36 cell culture assay followed by an immunofluorescent assay. Viral infectivity titers in test samples were also determined by a direct plaque assay in Vero cells. The NASBA assay was able to detect dengue viral RNA in the clinical samples at plaque titers below 25 PFU/ml (the detection limit of the plaque assay). Of the 67 samples found positive by the C6/36 assay, 66 were found positive by the NASBA assay, for a sensitivity of 98.5%. The NASBA assay had a specificity of 100% based on the negative test results for the 21 normal human serum or plasma samples. These results indicate that the NASBA assay is a promising assay for the early diagnosis of dengue infections.
Mutation patterns in cancer genomes (2009)

Recent large-scale cancer sequencing studies have focused primarily on identifying cancer-associated genes, but as an important byproduct provide "passenger mutation" data that can potentially illuminate the mutational mechanisms at work in cancer cells. Here, we explore patterns of nucleotide substitution in several cancer types using published data. We first show that selection (negative or positive) has affected only a small fraction of mutations, allowing us to attribute observed trends to underlying mutational processes rather than selection. We then show that the increased CpG mutation frequency observed in some cancers primarily occurs outside of CpG islands and CpG island shores, thus rejecting the hypothesis that the increase is a byproduct of island or shore methylation followed by deamination. We observe an A-->G vs. T-->C mutational asymmetry in some cancers similar to one that has been observed in germline mutations in transcribed regions, suggesting that the mutation process may be influenced by gene expression. We also demonstrate that the relative frequency of mutations at dinucleotide "hotspots" can be used as a tool to detect likely technical artifacts in large-scale studies.
Functional Comparison of Two Human Monocyte Chemotactic Protein-2 Isoforms, Role of the Amino-Terminal Pyroglutamic Acid and Processing by CD26/Dipeptidyl Peptidase IV (1998)

Human Monocyte Chemotactic Protein (MCP)-2 has originally been isolated from stimulated osteosarcoma cells as a chemokine coproduced with MCP-1 and MCP-3. Here, a 5'-end extended MCP-2 cDNA was cloned from a human testis cDNA library. It encoded a 76 residue MCP-2 protein, but differed from the reported bone marrow-derived MCP-2 cDNA sequence in codon 46, which coded for a Lys instead of a Gln. This MCP-2Lys46 variant, caused by a single nucleotide polymorphism (SNP), was biologically compared with MCP-2Gln46. The coding regions were subcloned into the bacterial expression vector pHEN1, and after transformation of Escherichia coli, the two MCP-2 protein variants were recovered from the periplasm. The recombinant proteins were purified to homogeneity by heparin-Sepharose affinity chromatography and reversed-phase HPLC. Edman degradation revealed a Gln residue at the NH2 terminus instead of a pGlu. To evaluate the influence of the cyclization, this Gln was chemically converted into pGlu in both MCP-2 variants. The conversion was confirmed by electrospray mass spectrometry. rMCP-2Gln46 and rMCP-2Lys46 and the NH2-terminal cyclic counterparts were tested on monocytic cells in calcium mobilization and chemotaxis assays. No significant difference in biological activity was observed between the rMCP-2Gln46 and rMCP-2Lys46 isoforms. However, for both MCP-2 variants the NH2-terminal pyroglutamate was shown to be essential for chemotaxis, but not for calcium mobilization. NH2-terminal truncation of rMCP-2Lys46 by the serine protease CD26/dipeptidyl peptidase IV (CD26/DPP IV) resulted in the cleavage of the NH2-terminal Gln-Pro dipeptide, whereas synthetic MCP-2 with an amino-terminal pGlu remained unaffected. CD26/DPP IV-clipped rMCP-2Lys46(3-76) was almost completely inactive in both chemotaxis and signaling assays. These observations indicate that the NH2-terminal pGlu in MCP-2 is necessary for chemotactic activity but also that it protects the protein against degradation by CD26/DPP IV.
Performance Evaluation of Fuzzy C-means Associated with Spark based on Virtual Cloud Computing (2019)

In recent years, machine learning and cloud computing technology have been widely studied and applied. Machine learning interprets potential knowledge by processing big data. Cloud computing can improve the efficiency of machine learning to process big data. Fuzzy C-Means (FCM) is a machine learning technique that is applied to data clustering. Apache Spark is Open Source cluster cloud computing framework that mainly applies in-memory computing technology. This study proposes an Integrating Fuzzy C-Mean and Spark based on Virtual Cloud Computing Framework (IFCSVCCF) that focuses on the use of Fuzzy C-Mean and Spark to handle big data based virtual architectures.
1.85 Å structure of anti-fluorescein 4-4-20 Fab (1995)

The crystal complex of fluorescein bound to the high-affinity anti-fluorescein 4-4-20 Fab (Ka = 10(10) M-1 at 2 degrees C) has been determined at 1.85 A. Isomorphous crystals of two isoelectric forms (pI = 7.5 and 7.9) of the anti-fluorescein 4-4-20 Fab, an IgG2A [Gibson et al. (1988) Proteins: Struct. Funct. Genet., 3, 155-160], have been grown. Both complexes crystallize with one molecule in the asymmetric unit in space group P1, with a = 42.75 A, b = 43.87 A, c = 58.17 A, alpha = 95.15 degrees, beta = 86.85 degrees and gamma = 98.01 degrees. The final structure has an R value of 0.188 at 1.85 A resolution. Interactions between bound fluorescein, the complementarity-determining regions (CDRs) of the Fab and the active-site mutants of the 4-4-20 single-chain Fv will be discussed. Differences were found between the structure reported here and the previously reported 2.7 A 4-4-20 Fab structure [Herron et al. (1989) Proteins: Struct. Funct. Genet., 5, 271-280]. Our structure determination was based on 26,328 unique reflections--four times the amount of data used in the previous report. Differences in the two structures could be explained by differences in interpreting the electron density maps at the various resolutions. The r.m.s. deviations between the variable and constant domains of the two structures were 0.77 and 1.54 A, respectively. Four regions of the light chain and four regions of the heavy chain had r.m.s. backbone deviations of > 4 A. The most significant of these was the conformation of the light chain CDR 1.
Regulation of protein activity with small‐molecule‐controlled inteins (2005)

Inteins are the protein analogs of self-splicing RNA introns, as they post-translationally excise themselves from a variety of protein hosts. Intein insertion abolishes, in general, the activity of its host protein, which is subsequently restored upon intein excision. These protein elements therefore have the potential to be used as general molecular "switches" for the control of arbitrary target proteins. Based on rational design, an intein-based protein switch has been constructed whose splicing activity is conditionally triggered in vivo by the presence of thyroid hormone or synthetic analogs. This modified intein was used in Escherichia coli to demonstrate that a number of different proteins can be inactivated by intein insertion and then reactivated by the addition of thyroid hormone via ligand-induced splicing. This conditional activation was also found to occur in a dose-dependent manner. Rational protein engineering was then combined with genetic selection to evolve an additional intein whose activity is controlled by the presence of synthetic estrogen ligands. The ability to regulate protein function post-translationally through the use of ligand-controlled intein splicing will most likely find applications in metabolic engineering, drug discovery and delivery, biosensing, molecular computation, as well as many additional areas of biotechnology.
Engineering change protocols for behavioral and system synthesis (2005)

Rapid prototyping and development of in-circuit and FPGA-based emulators as key accelerators for fast time-to-market has resulted in a need for efficient error correction mechanisms. Fabricated or emulated prototypes upon error diagnosis require an effective engineering change (EC). We introduce a novel design methodology which consists of pre- and post-processing techniques that enable EC with minimal perturbation. Initially, in a synthesis preprocessing step, the original design specification is augmented with additional design constraints which ensure flexibility for future correction. Upon alteration of the initial design, a new post-processing technique achieves the desired functionality with near-minimal perturbation of the initially optimized design. The key contribution is a constraint manipulation technique which enables the reduction of an arbitrary EC problem into its corresponding classical synthesis problem. As a result, in both pre- and post-processing for EC, classical synthesis algorithms can be used to enable flexibility and perform the correction process. We demonstrate the developed EC methodology on a set of behavioral and system synthesis tasks.
Changes in redox affect the activity of erythropoietin RNA binding protein (1995)

We have previously identified a cytosolic protein, erythropoietin RNA binding protein (ERBP), which is up-regulated in certain tissues in response to hypoxia. To further characterize the interaction of ERBP and erythropoietin (EPO) mRNA, we have examined the role of reduction-oxidation in the EPO mRNA binding mechanism of ERBP isolated from human hepatoma cells (Hep3B). Reducing agents dithiothreitol (DTT) and 2-mercaptoethanol (2-ME) increased ERBP binding activity in a concentration-dependent manner, whereas the oxidizing agent, diamide, abolished ERBP binding activity. In addition, treatment of Hep3B cell lysates with the irreversible sulfhydryl alkylating agent N-ethylmaleimide resulted in inhibition of the EPO mRNA-ERBP complex. Taken together, these findings suggest that sulfhydryl groups may play a role in vivo in the regulation of EPO production through the modulation of ERBP binding activity.
Appetite and the regulation of body composition (1994)

Stability of body composition requires that energy intake equals energy expenditure when integrated over prolonged periods. As recent human studies have failed to demonstrate active changes in energy expenditure with changes in body composition, it is likely that energy intake is continually adjusted to preserve a constant total adipose tissue mass. If adipose tissue mass is regulated directly, then there must be some input reflecting this quantity to the central nervous system for the purpose of making corrective changes in appetite when total body fat content fluctuates. The nature of this input has been examined in a variety of animal experiments involving induced weight change, lipectomy, plasma transfer from obese or satiated animals to hungry animals, and parabiosis between obese and lean animals. The bulk of evidence suggests that the plasma level of one or more currently unidentified stable circulating molecules increases in proportion to total body fat content and augments the effect of meal-related satiety signals in the central nervous system. The implications of this adipose tissue-related satiety factor for the pathogenesis of obesity, and the possible nature of the factor are discussed.
Exploring the Potent Inhibition of CTP Synthase by Gemcitabine‐5′‐Triphosphate (2016)

CTP synthase (CTPS) catalyzes the conversion of UTP to CTP and is a target for the development of antiviral, anticancer, antiprotozoal, and immunosuppressive agents. Exposure of cell lines to the antineoplastic cytidine analogue gemcitabine causes depletion of intracellular CTP levels, but the direct inhibition of CTPS by its metabolite gemcitabine-5'-triphosphate (dF-dCTP) has not been demonstrated. We show that dF-dCTP is a potent competitive inhibitor of Escherichia coli CTPS with respect to UTP [K<sub>i</sub> =(3.0±0.1) μm], and that its binding affinity exceeds that of CTP ≈75-fold. Site-directed mutagenesis studies indicated that Glu149 is an important binding determinant for both CTP and dF-dCTP. Comparison of the binding affinities of the 5'-triphosphates of 2'-fluoro-2'-deoxycytidine and 2'-fluoro-2'-deoxyarabinocytidine revealed that the 2'-F-arabino group contributes markedly to the strong binding of dF-dCTP. Geminal 2'-F substitution on UTP (dF-dUTP) did not result in an increase in binding affinity with CTPS. Remarkably, CTPS catalyzed the conversion of dF-dUTP into dF-dCTP, thus suggesting that dF-dCTP might be regenerated in vivo from its catabolite dF-dUTP.
Is Transcranial Alternating Current Stimulation Effective in Modulating Brain Oscillations? (2013)

Transcranial alternating current stimulation (tACS) is a promising tool for modulating brain oscillations, as well as a possible therapeutic intervention. However, the lack of conclusive evidence on whether tACS is able to effectively affect cortical activity continues to limit its application. The present study aims to address this issue by exploiting the well-known inhibitory alpha rhythm in the posterior parietal cortex during visual perception and attention orientation. Four groups of healthy volunteers were tested with a Gabor patch detection and discrimination task. All participants were tested at the baseline and selective frequencies of tACS, including Sham, 6 Hz, 10 Hz, and 25 Hz. Stimulation at 6 Hz and 10 Hz over the occipito-parietal area impaired performance in the detection task compared to the baseline. The lack of a retinotopically organised effect and marginal frequency-specificity modulation in the detection task force us to be cautious about the effectiveness of tACS in modulating brain oscillations. Therefore, the present study does not provide significant evidence for tACS reliably inducing direct modulations of brain oscillations that can influence performance in a visual task.
Study on hydro-laparoscopic pelvic adhesiolysis apply membrane for anti-adhesion in the infertile woman (2010)

Objective To investigate the safety and efficacy of hydrolaparoscopic pelvic adhesiolysis applied membrane for anti-adhesion in the infertile women.Methods From February 2006 to December 2008,226 infertile patients underwent hydrolaparoscopic pelvic adhesiolysis applied membrane for anti-adhesion.They have been divided into two groups,The study group apply membrane for anti-adhesion after operation.The diuation of the operation and discharge,pelvic adhesions scored,oviducts patency,complications and pregrancyrate were investigated.Results ①Hydrolaparoscopic pelvic adhesiolysis.42 oviducts were of proximal occlusion by dye-test.There were 199 oviducts unobstructed in the study group and 211 oviducts unobstructed in the control group.②The duration of be hospitalized 72-96 hours,no complications occurred.③the condition of followup:in the 13-23 months' follow-up,The rate of oviduct block again after operation was 2.01％(4/199)in the study group is lower than in the control group(P ＜0.01).The rate of pregnancy was 59.82％(67/112) in the study group is higher than the control group( P ＜ 0.01).Conclusion Hydrolaparoscopic pelvic adhesiolysis apply membrane for anti-adhesion is safe,efficacious,the rate of oviduts block again after operation is lower with higher pregrancy.

Key words: 
Infertility; Female; Pelvic adhesiolysis; Anti-adhehesion
Total parenteral nutrition: techniques, complications, and prevention. (1998)

During the past half century, surgeons have demonstrated the greatest interest and have made the most concerted effort in developing innovative, comprehensive, and effective methods for providing adequate nutritional support to patients in the widest range of clinical conditions and situations. Several factors account for the continual stimulation of thoughtful surgeons and physicians to maintain or improve the nutritional status of their patients.
Combined Use of Subtilisin and N-Acetylneuraminic Acid Aldolase for the Synthesis of a Fluorescent Sialic Acid (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCombined Use of Subtilisin and N-Acetylneuraminic Acid Aldolase for the Synthesis of a Fluorescent Sialic AcidWolfgang Fitz and Chi-Huey WongCite this: J. Org. Chem. 1994, 59, 26, 8279–8280Publication Date (Print):December 1, 1994Publication History Published online1 May 2002Published inissue 1 December 1994https://pubs.acs.org/doi/10.1021/jo00105a057https://doi.org/10.1021/jo00105a057research-articleACS PublicationsRequest reuse permissionsArticle Views205Altmetric-Citations31LEARN 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 InRedditEmail Other access optionsGet e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts