gebhart/patrepeval huggingface dataset:
Characterization of zfs1 as an mRNA-binding and -destabilizing Protein in Schizosaccharomyces pombe (2007)

Tristetraprolin is a vertebrate CCCH tandem zinc finger protein that can bind to and destabilize certain mRNAs containing AU-rich element binding sites. zfs1 is the single gene in the fission yeast, Schizosaccharomyces pombe, that encodes a protein containing the critical features of the tristetraprolin zinc finger domain. zfs1 has been linked to pheromone signal transduction control and to the coordination of mitosis, but no biological function has been ascribed to the zfs1 protein. Through a functional genomics approach we compared transcript levels in wild-type and zfs1-deficient S. pombe strains; those elevated in the zfs1-deficient strain were examined for the presence of potential tristetraprolin-like binding sites. One such potential target transcript was encoded by arz1, a gene encoding a protein of unknown function that contains armadillo repeats. arz1 mRNA decay was inhibited in the zfs1-deficient strain when it was expressed under the control of a thiamine-repressible promoter. Mutations within one AU-rich element present in the arz1 3'-untranslated region protected this transcript from zfs1-promoted decay, whereas mutating another potential binding site had no effect. Binding assays confirmed a direct interaction between zfs1 and arz1 mRNA-based probes; this interaction was eliminated when key residues were mutated in either zfs1 zinc finger. zfs1 and its targets in S. pombe represent a useful model system for studies of zinc finger protein/AU-rich element interactions that result in mRNA decay.
N‐Methylmesoporphyrin IX Exhibits G‐Quadruplex‐Specific Photocleavage Activity (2019)

N-Methylmesoporphyrin IX (NMM) has long been known as a G-quadruplex DNA (G4) ligand. However, there has been little investigation into its G-quadruplex photocleavage activity. Herein, we demonstrate that NMM is a highly selective photocleavage agent for G4 structures but not duplex DNA. Analysis of the cleavage products by PAGE demonstrates that G4 photocleavage by NMM occurs at sites similar to those cleaved by TMPyP4, a nonselective DNA photocleavage agent. Although NMM is shown here to generate singlet oxygen in the presence of both duplex and G4, the lack of increased photocleavage in D<sub>2</sub> O indicated that singlet oxygen is not involved in the photocleavage of G4 by NMM.
Green communications and computing networks [Series Editorial] (2015)

The concept of green information and communications technologies (ICT) is relevant to both environmental sustainability and ICT. Green ICT is an interdisciplinary field relevant to a number of areas and topics, such as information systems, computer science and technologies, communications and networking, power and energy systems, electronics, environmental and civil engineering, industrial engineering and project management, social sciences, and so on. The green ICT could be considered a coined-term from two highly overlapped terms, green communications [1] and green computing [2]. Basically, two mainstream ideas may be addressed in green ICT, i.e., greening ICT and ICT for green objectives. Even if the field of green ICT has been receiving more and more attentions in research communities as well as industrial, governmental, and international organizations [1-5], more and more technical investigations and applications are still expected due to the relevant long term concerns and challenges. In early 2015, the IEEE Technical Committee on Green Communications and Computing (TCGCC), IEEE Research Project on Vision for Green ICT Standardizations, and IEEE Technical SubCommittee on Big Data (TSCBD) jointly initialized the efforts of the first IEEE International Workshop on Green Standardization and Industry Issues for ICT and Relevant Technologies (GSICT), which will be held in conjunction with the 2015 IEEE Global Communications Conference (Globe-com 2015), and the motivation of the efforts is to promote more relevant activities, especially standardization, towards green objectives in industry. Surely, the IEEE Series on Green Communications and Computing Networks can expect more submissions on the relevant industry issues and standardization activities in the future.
Friction Stir Welding of the Space Shuttle External Tank Longitudinal Barrel Welds (2013)

Through the implementation of friction stir welding, the safety, reliability, and producibility of the external tank is enhanced. Such fusion procedures are accomplished with the use of a short barrel weld tool or a long barrel weld tool. Forecasted developments in the fusion tooling field include the advent of a universal tool which is capable to fusing all barrel configurations. A wide array of mechanical and electrical controls are described for such a device.
Search for Heavy Narrow Dilepton Resonances in Pp Collisions at √s = 7 TeV and √s = 8 TeV (2013)

An updated search for heavy narrow resonances decaying to muon or electron pairs using the CMS detector is presented. Data samples from pp collisions at √s = 7 TeV and 8 TeV at the LHC, with integrated luminosities of up to 5.3 and 4.1 fb−1, respec- tively, are combined. No evidence for a heavy narrow resonance is observed. The analysis of the combined data sets excludes, at 95% confidence level, a Sequential Standard Model Z′ SSM resonance lighter than 2590 GeV, a superstring-inspired Z′ ψ lighter than 2260 GeV, and Kaluza–Klein gravitons lighter than 2390 (2030) GeV, as- suming that the coupling parameter k/MPl is 0.10 (0.05). These are the most stringent limits to date.
Synaptic vesicle proteins are selectively delivered to axons in mammalian neurons (2023)

Neurotransmitter-filled synaptic vesicles (SVs) mediate synaptic transmission and are a hallmark specialization in neuronal axons. Yet, how SV proteins are sorted to presynaptic nerve terminals remains the subject of debate. The leading model posits that these proteins are randomly trafficked throughout neurons and are selectively retained in presynaptic boutons. Here, we used the RUSH (retention using selective hooks) system, in conjunction with HaloTag labeling approaches, to study the egress of two distinct transmembrane SV proteins, synaptotagmin 1 and synaptobrevin 2, from the soma of mature cultured rat and mouse neurons. For these studies, the SV reporter constructs were expressed at carefully controlled, very low levels. In sharp contrast to the selective retention model, both proteins selectively and specifically entered axons with minimal entry into dendrites. However, even moderate overexpression resulted in the spillover of SV proteins into dendrites, potentially explaining the origin of previous non-polarized transport models, revealing the limited, saturable nature of the direct axonal trafficking pathway. Moreover, we observed that SV constituents were first delivered to the presynaptic plasma membrane before incorporation into SVs. These experiments reveal a new-found membrane trafficking pathway, for SV proteins, in classically polarized mammalian neurons and provide a glimpse at the first steps of SV biogenesis.
Field oriented control of an induction machine with DC link and load disturbance rejection (2002)

A method of actively maintaining voltage margin in field oriented induction machine controllers is proposed. A voltage margin controller is developed that rejects DC link and load disturbances such that current regulation and field orientation is maintained. In addition, the voltage margin controller coupled with rotor flux oriented control is shown to provide maximum torque capability equivalent to stator flux oriented control.
A Retargetable Framework for Automated Discovery of Custom Instructions (2007)

The problem of efficiently mapping a software application onto an extensible processor has received considerable attention. However, except for specialized kinds of computation accelerators, end-to-end studies of the problems are hard to find in the literature. We propose a classification of previous work on the mapping problem; we then frame previous results into this classification, and propose a new framework for solving this problem. By dividing the problem into several parts—some of them solved exactly, some of them relying on greedy algorithms—we provide a generic scheme that can be adapted to different kinds of hardware accelerators. We implemented our approach on top of a GCC-based compiler toolchain for extensible processors. Benchmarks taken from MiBench show a speedups up to 6.74x using the SimpleScalar/ARM cycle-exact simulator.
Dynamic Control of Pressure Drop Oscillation in a Microchannel Cooling System (2020)

While microchannel evaporator based cooling systems are efficient in removing high heat fluxes they are prone to the instability mechanism called pressure drop oscillation. The instability can lead to poor cooling performance, system fatigue and even mechanical failure of the cooling system. To address this challenge, a system level approach with dynamic control of cooling performance is studied in this paper. This approach provides an efficient and reliable technique for thermal management and avoidance of flow instability, even in the presence of large and time-varying heat loads. This study considers a system operating on a vapor compression cycle consisting of a microchannel evaporator, compressor, condenser, electronic expansion valve, and an accumulator. The stability and cooling performance of the system is analyzed under different operating conditions via computational simulation of fluid flow and heat transfer. Based on the understanding gained from this analysis, a dynamic control strategy is developed to stabilize and maintain the system at the optimum operating conditions using feed-forward and feed-back controllers.
Figure S1 from Detection of Promoter DNA Methylation in Urine and Plasma Aids the Detection of Non–Small Cell Lung Cancer (2023)

&lt;p&gt;Figure S1&lt;/p&gt;
Covalent inhibitors of the GTPase KRASG12C: a review of the patent literature (2020)

<b>Introduction</b>: KRAS is one of the most important oncology drug targets, playing a pivotal role in the initiation and progression of many human tumors. It has long been held undruggable due to many previously failed attempts to both directly and indirectly target this challenging GTPase protein family.<b>Areas covered</b>: This review covers patent applications claiming inhibitors of the mutant GTPase KRAS<sup>G12C</sup> that act via covalent modification of cysteine at codon 12 in the period of 2014 to the present. A total of 37 PCT applications from 9 applicants are evaluated, with the discussion organized alphabetically by assignee name.<b>Expert opinion</b>: The last 5 years have seen an explosion in interest around this important target with many companies aiming to capitalize on the breakthrough discovery of covalent allosteric inhibitors of the glycine to cysteine mutant form of the enzyme. The first agents from this effort have now entered clinical trials and preliminary data are encouraging with responses seen in both lung adenocarcinoma and colorectal cancer patients.
Preclinical evaluation of a synthetic peptide vaccine against SARS-CoV-2 inducing multiepitopic and cross-reactive humoral neutralizing and cellular CD4 and CD8 responses (2021)

Identification of relevant epitopes is crucial for the development of subunit peptide vaccines inducing neutralizing and cellular immunity against SARS-CoV-2. Our aim was the characterization of epitopes in the receptor-binding domain (RBD) of SARS-CoV-2 spike (S) protein to generate a peptide vaccine. Epitope mapping using a panel of 10 amino acid overlapped 15-mer peptides covering region 401-515 from RBD did not identify linear epitopes when tested with sera from infected individuals or from RBD-immunized mice. However, immunization of mice with these 15-mer peptides identified four peptides located at region 446-480 that induced antibodies recognizing the peptides and RBD/S1 proteins. Immunization with peptide 446-480 from S protein formulated with Freund's adjuvant or with CpG oligodeoxinucleotide/Alum induced polyepitopic antibody responses in BALB/c and C56BL/6J mice, recognizing RBD (titres of 3 × 10<sup>4</sup>-3 × 10<sup>5</sup>, depending on the adjuvant) and displaying neutralizing capacity (80-95% inhibition capacity; <i>p </i><<i> </i>0.05) against SARS-CoV-2. Murine CD4 and CD8T-cell epitopes were identified in region 446-480 and vaccination experiments using HLA transgenic mice suggested the presence of multiple human T-cell epitopes. Antibodies induced by peptide 446-480 showed broad recognition of S proteins and S-derived peptides belonging to SARS-CoV-2 variants of concern. Importantly, vaccination with peptide 446-480 or with a cyclic version of peptide 446-488 containing a disulphide bridge between cysteines 480 and 488, protected humanized K18-hACE2 mice from a lethal dose of SARS-CoV-2 (62.5 and 75% of protection; <i>p </i><<i> </i>0.01 and <i>p </i><<i> </i>0.001, respectively). This region could be the basis for a peptide vaccine or other vaccine platforms against Covid-19.
Defining Normal Acetabular Coverage: A CT‐Based Study of Asymptomatic Hips and Correlation with Conventional Radiographic Measures of Acetabular Deformity (2014)

Plain radiographic measures of the acetabulum may fail to accurately define coverage or pathomorphology such as impingement or dysplasia. The purpose of the study was to (i) develop a method for evaluation of percent coverage of the femoral head by the acetabulum, and (ii) to define normative data using a cohort of asymptomatic hip and pelvic CT scans.
Estradiol- and progesterone-related increases in the renin-aldosterone system: studies during ovarian stimulation and early pregnancy. (1994)

To investigate the degree to which endogenous increases in estradiol (E2) and progesterone (P4) are associated with changes in the renin system, we studied eight patients undergoing ovarian stimulation for in vitro fertilization (FSH/human menopausal gonadotropin or clomiphene citrate for 5-11 days, followed by hCG). Three conceived and were followed for up to 62 days after hCG treatment. The others were followed until the end of the luteal phase. During the follicular phase, E2 increased 10-fold, PRA increased 2-fold, and absolute levels of E2 and P4 were positively correlated (r = 0.63; P < 0.05). After ovulation, which was induced by hCG, E2 fell by 50% (day 7), but there was a 50-fold increase in P4 and a further 5-fold increase in PRA. By day 14, E2 increased again in the women who conceived, to levels even higher than those in the follicular phase, and both P4 and PRA increased 2- to 3-fold between days 7 and 14. In contrast, E2, P4, and PRA returned toward baseline levels in the nonpregnant women. On day 21, E2, P4, and PRA remained very high in the pregnant women [E2, 2297 +/- 255 pg/mL (8430 pmol/L); P4, 103 +/- 22 pg/mL (328 pmol/L); PRA, 33 +/- 8 ng/mL.h (9.17 ng/L.s)]. During the luteal phase and early pregnancy, there was a positive relationship between PRA and P4 (r = 0.68; P < 0.05). There was also a positive relationship between PRA and E2 (r = 0.54; P < 0.05); compared to the follicular phase level, PRA was 4-fold higher in the luteal phase at any E2 level. Like renin, urinary aldosterone excretion (UA) increased 5-fold during the luteal phase (day 7) and by a further 3-fold between days 7 and 21 in the pregnant women, reaching very high levels [135 +/- 28 micrograms/day (375 nmol/day); n = 3]. PRA and UA positively correlated (r = 0.59; P < 0.08). Plasma angiotensinogen increased from 2146 +/- 283 ng angiotensin-I/mL (n = 8) to 3682 +/- 607 (n = 8) on day 7 and to 5353 +/- 799 (n = 3) on day 21. Urinary sodium excretion did not fall, and urinary potassium did not increase in coordination with the changes in renin and aldosterone. There was no hypokalemia. These results demonstrate marked increases in plasma renin and UA in coordination with increases in plasma E2 and P4 during ovarian stimulation and early pregnancy, and coordinated falls during luteolysis.(ABSTRACT TRUNCATED AT 400 WORDS)
A behavioral model of a 1.8-V flash A/D converter based on device parameters (2000)

A behavioral model of a 1.8-V, 6-bit flash analog-to-digital converter has been developed based on device parameters using the g/sub m//I/sub d/ methodology. This approach eliminates the need for recharacterization of blocks when device sizes are changed. Furthermore, the performance can be predicted with input only from device and process simulators eliminating the need for a circuit simulator and associated model parameters. Signal to noise plus distortion ratio and differential and integral nonlinearity are predicted and verified at lower resolution with a circuit simulator.
Sirtuins in Alzheimer’s Disease: SIRT2-Related GenoPhenotypes and Implications for PharmacoEpiGenetics (2019)

Sirtuins (SIRT1-7) are NAD⁺-dependent protein deacetylases/ADP ribosyltransferases with important roles in chromatin silencing, cell cycle regulation, cellular differentiation, cellular stress response, metabolism and aging. Sirtuins are components of the epigenetic machinery, which is disturbed in Alzheimer's disease (AD), contributing to AD pathogenesis. There is an association between the <i>SIRT2-C/T</i> genotype (rs10410544) (50.92%) and AD susceptibility in the <i>APOEε4</i>-negative population (<i>SIRT2-C/C</i>, 34.72%; <i>SIRT2-T/T</i> 14.36%). The integration of <i>SIRT2</i> and <i>APOE</i> variants in bigenic clusters yields 18 haplotypes. The 5 most frequent bigenic genotypes in AD are <i>33CT</i> (27.81%), <i>33CC</i> (21.36%), <i>34CT</i> (15.29%), <i>34CC</i> (9.76%) and <i>33TT</i> (7.18%). There is an accumulation of <i>APOE-3/4</i> and <i>APOE-4/4</i> carriers in <i>SIRT2-T/T</i> > <i>SIRT2-C/T</i> > <i>SIRT2-C/C</i> carriers, and also of <i>SIRT2-T/T</i> and <i>SIRT2-C/T</i> carriers in patients who harbor the <i>APOE-4/4</i> genotype. <i>SIRT2</i> variants influence biochemical, hematological, metabolic and cardiovascular phenotypes, and modestly affect the pharmacoepigenetic outcome in AD. <i>SIRT2-C/T</i> carriers are the best responders, <i>SIRT2-T/T</i> carriers show an intermediate pattern, and <i>SIRT2-C/C</i> carriers are the worst responders to a multifactorial treatment. In <i>APOE-SIRT2</i> bigenic clusters, <i>33CC</i> carriers respond better than <i>33TT</i> and <i>34CT</i> carriers, whereas <i>24CC</i> and <i>44CC</i> carriers behave as the worst responders. CYP2D6 extensive metabolizers (EM) are the best responders, poor metabolizers (PM) are the worst responders, and ultra-rapid metabolizers (UM) tend to be better responders that intermediate metabolizers (IM). In association with <i>CYP2D6</i> genophenotypes, <i>SIRT2-C/T</i>-EMs are the best responders. Some Sirtuin modulators might be potential candidates for AD treatment.
Design and Synthesis of Dipeptidyl Glutaminyl Fluoromethyl Ketones as Potent Severe Acute Respiratory Syndrome Coronovirus (SARS-CoV) Inhibitors (2006)

This paper describes the design and synthesis of dipeptidyl N,N-dimethyl glutaminyl fluoromethyl ketones (fmk) as severe acute respiratory syndrome coronovirus (SARS-CoV) inhibitors. The compounds were tested against SARS-CoV-induced cell death in Vero or CaCo2 cells as a measurement of the inhibiting effects of the compounds on the replication of the virus. Z-Leu-Gln(NMe(2))-fmk (6a) was found to be a potent inhibitor with low toxicity in cells, protecting cells with an EC(50) value of 2.5 microM and exhibiting a selectivity index of >40.
The control of remote asymmetric centres via reduction of acyclic carbonyl functions (2000)

Covering: 1979 to mid-1999.
tassel-less1 Encodes a Boron Channel Protein Required for Inflorescence Development in Maize (2014)

tassel-less1 (tls1) is a classical maize (Zea mays) inflorescence mutant. Homozygous mutant plants have no tassels or very small tassels, and ear development is also impaired. Using a positional cloning approach, ZmNIP3;1 (a NOD26-like intrinsic protein) was identified as the candidate gene for tls1. The ZmNIP3;1 gene is completely deleted in the tls1 mutant genome. Two Mutator-insertional TUSC alleles of ZmNIP3;1 exhibited tls1-like phenotypes, and allelism tests confirmed that the tls1 gene encodes ZmNIP3;1. Transgenic plants with an RNA interference (RNAi) construct to down-regulate ZmNIP3;1 also showed tls1-like phenotypes, further demonstrating that TLS1 is ZmNIP3;1. Sequence analysis suggests that ZmNIP3;1 is a boron channel protein. Foliar application of boron could rescue the tls1 phenotypes and restore the normal tassel and ear development. Gene expression analysis indicated that in comparison with that of the wild type or tls1 plants treated with boron, the transition from the vegetative to reproductive phase or the development of the floral meristem is impaired in the shoot apical meristem of the tls1 mutant plants. It is concluded that the tls1 mutant phenotypes are caused by impaired boron transport, and boron is essential for inflorescence development in maize.
ChemInform Abstract: Comparison of Routes for the Preparation of Optically Active 7‐ Ethylbicyclo(3.2.0)hept‐2‐en‐6‐one and ‐6‐ols by Classical Resolution and by an Enzyme‐Catalyzed Biotransformation: Synthesis of γ‐ Nonalactone. (1994)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Design of Coupling Cancellation Control for a Double-winding PMSM (2016)

A double-winding permanent magnet synchronous motor (PMSM), which has two groups of three-phase windings on its one stator, has a coupling effect between the windings. This paper explains the deterioration of the current control performance of a double-winding PMSM by using a voltage equation of the motor. The proposed coupling cancellation control method improves as demonstrated by the results of simulations and experiments. A design method for the coupling cancelling control with a Bode diagram is also discussed.
Synthesis and fungicidal activity of N‐2‐(3‐methoxy‐4‐propargyloxy)phenethyl amides. Part II: Anti‐oomycetic mandelamides (2006)

Novel types of anti-oomycetic compounds have been designed and prepared. The synthetic approach to these mandelamides is outlined. Biological data demonstrate their high efficacy against important plant diseases such as tomato and potato late blight (Phytophthora infestans De Bary) and grape downy mildew (Plasmopara viticola Berliner & de Toni). Structure-activity relationship studies are discussed. The new development product mandipropamid is presented.
Validation of In Vivo Magnetic Resonance Imaging Blood–Brain Barrier Permeability Measurements by Comparison With Gold Standard Histology (2011)

Areas of increased permeability measured in vivo by imaging coincide with blood-brain barrier disruption and hemorrhage observed on gold standard histology.
Neuropeptide S Receptor: Recent Updates on Nonpeptide Antagonist Discovery (2011)

Neuropeptide S (NPS) is a 20-amino acid peptide of great interest due to its possible involvement in several biological processes, including food intake, locomotion, wakefulness, arousal, and anxiety. Structure-activity relationship studies of NPS have identified key points for structural modifications with the goal of modulating NPS receptor (NPSR) agonist activity or achieving antagonism at the same receptor. Only limited information is available for nonpeptide NPSR antagonists. In the last year, several studies have been reported in literature which present various series of small molecules as antagonists of this receptor. The results allow a comparison of the structures and activities of these molecules, leading to the design of new ligands with increased potency and improved pharmacological and pharmacokinetic profiles. This work presents a brief overview of the available information regarding structural features and pharmacological characterization of published nonpeptide NPSR antagonists.