gebhart/patrepeval huggingface dataset:
Structures and chromosomal localizations of two human genes encoding synaptobrevins 1 and 2. (1990)

Synaptobrevins 1 and 2 are small integral membrane proteins specific for synaptic vesicles in neurons. Two cosmid clones containing the human genes encoding synaptobrevins 1 and 2 (gene symbols SYB1 and SYB2, respectively) were isolated and characterized. The coding regions of the synaptobrevin genes are highly homologous to each other and are interrupted at identical positions by introns of different size and sequence. Each gene is organized into five exons whose boundaries correspond to those of the protein domains. Exon I contains part of the initiator methionine codon whereas exon II encodes the variable and immunogenic amino-terminal domain of the synaptobrevins. The third exon comprises the highly conserved central domain of the synaptobrevins, exon IV encodes most of the transmembrane region, and exon V contains the last residues of the transmembrane region and the small intravesicular carboxyl terminus. Comparisons of the synaptobrevin sequences in five species from Drosophila with man indicate a selective conservation of sequences adjacent to the synaptic vesicle surface, suggesting a function at the membrane-cystosol interface. The chromosomal localizations of the human and mouse SYB1 and SYB2 genes were determined using hybrid cell lines. SYB1 was localized to the short arm of human chromosome 12 and to mouse chromosome 6 whereas SYB2 was found on the distal portion of the short arm of human chromosome 17 and on mouse chromosome 11. A PstI restriction fragment length polymorphism was identified at the SYB2 locus.
Effect of Tissue Chromophore on the Mechanism and Dynamics of Pulsed Laser Ablation (1996)

Abstract The effect of chromophore targeting on the mechanism and dynamics of pulsed laser ablation of soft biological tissues is discussed. We argue that if mechanical stresses generated by thermoelastic expansion are insufficient to achieve tissue fracture and the delivered laser energy is confined to the site of absorption, material removal is governed by the thermodynamics of chromophore decomposition. Specifically, if water is the dominant chromophore, the ablation process will be explosive because heated water undergoes a process of explosive boiling which strains and fractures the tissue to achieve material removal. In contrast, if structural proteins of the tissue are targeted directly, the mechanical integrity of the tissue can be compromised during irradiation and results in material removal consistent with a process of rapid surface vaporization.
Homogeneous magnet design using linear programming (2000)

We introduce a technique for designing homogeneous magnets using linear programming, We first show that minimum-power homogeneous magnet design can be cast as a linear programming problem. We also show that the method is applicable to minimum conductor mass superconducting magnet design. The method has several advantages over existing techniques including: it allows complete flexibility in arbitrary geometric constraints on both the coil locations and the shape of the homogeneous volume; it guarantees a globally optimal solution; and it offers rapid computation speed (about 30 s). Three resistive magnet design examples and one shielded superconducting magnet design are presented to illustrate the flexibility of the method.
Liver Transplantation for the Treatment of Small Hepatocellular Carcinomas in Patients with Cirrhosis (1996)

Liver transplantation is an effective treatment for small, unresectable hepatocellular carcinomas in patients with cirrhosis.
Effect of truncated human apoptosis-inducing factor expression on apoptosis of HeLa cells (2005)

AIM: To observe the expression of the truncated human apoptosis-inducing factor (AIF) gene and its apoptosis-inducing effect on HeLa cells.METHODS: After the truncated human apoptosis-inducing factor (AIF△1-120) gene was successfully cloned,the shorter truncated human AIF gene (AIF△1-480) was cloned,which was constructed by deleting the N-terminal mitochondrial location sequence (MLS) and the coding sequence of flavin adenine dinucleotide (FAD) binding domain and nicotinamide adenine dinucleotide (NADH) binding domain of AIF protein.The truncated human AIF gene(AIF△1-480) was inserted into the EGFP co-expression vector pIRES2-EGFP,and the pIRES2-EGFP-AIF△1-480 was then transfected into HeLa cells with LipofectAMINE.The expression of the truncated AIF gene and its effect on HeLa cell were detected by fluorescence microscope and electron microscope analysis.RESULTS: The eukaryotic expression vector pIRES2-EGFP containing the truncated human AIF(AIF△1-480)gene was successfully constructed.The AIF protein could be detected in the transfected HeLa cells.After transfection,typical apoptotic changes of the transfected HeLa cells and a mass of cell death were observed under electron microscope.CONCLUSION: The expression of the truncated human AIF(AIF△1-480)gene can induce apoptosis of the transfected human HeLa cells.
A support system to COTS-based software development for business services (2002)

The work described in this paper deals with the problem of selecting, configuring, integrating and deploying COTS components to deliver tailored software systems. Since formal and precise description of components is not usually available, a reasonable approach is to augment the available documentation with the informal knowledge derived by practices and experience of experts. The development of a knowledge-based system is a way to organize this empirical knowledge and deliver a tool that can support software designers in the tough goal of COTS-based development.
A quadrilateral-object composer for binary images with reaction-diffusion cellular automata (2004)

We will describe a cellular-automaton (CA) LSI that extracts quadrilateral objects, such as box areas filled with the same pixel values, from binary images. We propose an efficient CA algorithm, based on the reaction-diffusion chemical systems model. Each cell in the proposed CA is implemented by a digital circuit called an elemental processor. The CA LSI is constructed by a large number of elemental processors operating in parallel. This parallel operation ensures fast and efficient object extraction when the number of cells (processing pixels) increases. When we assumed a 0.25-/spl mu/m CMOS process with the proposed circuits, the total area of the elemental processor was approximately 5 by 5 /spl mu/m/sup 2/.
Working condition of the coulometric titrimeter (1958)

試料濃度と電解電流値との直線的関係は設定電位,直流増巾器の感度および試料や電解液の送液速度によって良否が決定される.また本装置はフィードバック型式による自動制御装置のため,記録が振動して正確な電流値を求めることが不能になることがある.記録の安定性は設定電位,直流増巾器の感度,試料や電解液の送液遠度はもちろんのこと電解セルや反応セルの形状や容積などによって決定される.本報では,試料として亜砒酸の稀薄溶液を使用して実験的に良好なる記録を得るための因子を求め,さらに本装置の等価回路をみちびき,その特性値を求めて,過渡現象を論じた.良好なる条件で実験を行って,Fig.7のごとき良好なる記録を得た.
Supervised Descriptive Rule Discovery: A Unifying Survey of Contrast Set, Emerging Pattern and Subgroup Mining (2009)

This paper gives a survey of contrast set mining (CSM), emerging pattern mining (EPM), and subgroup discovery (SD) in a unifying framework named supervised descriptive rule discovery. While all these research areas aim at discovering patterns in the form of rules induced from labeled data, they use different terminology and task definitions, claim to have different goals, claim to use different rule learning heuristics, and use different means for selecting subsets of induced patterns. This paper contributes a novel understanding of these subareas of data mining by presenting a unified terminology, by explaining the apparent differences between the learning tasks as variants of a unique supervised descriptive rule discovery task and by exploring the apparent differences between the approaches. It also shows that various rule learning heuristics used in CSM, EPM and SD algorithms all aim at optimizing a trade off between rule coverage and precision. The commonalities (and differences) between the approaches are showcased on a selection of best known variants of CSM, EPM and SD algorithms. The paper also provides a critical survey of existing supervised descriptive rule discovery visualization methods.
Phase II Trial of Preoperative Radiation With Concurrent Capecitabine, Oxaliplatin, and Bevacizumab Followed by Surgery and Postoperative 5-Fluorouracil, Leucovorin, Oxaliplatin (FOLFOX), and Bevacizumab in Patients With Locally Advanced Rectal Cancer: 5-Year Clinical Outcomes ECOG-ACRIN Cancer Research Group E3204 (2015)

Despite the path-CR primary endpoint of this trial not being reached, the 5-year OS and recurrence-free survival rates were excellent. However, the neoadjuvant and surgical toxicity of this regimen was significant and was the primary reason for the low compliance with adjuvant systemic therapy. Because of the lack of an improvement in the path-CR rate, the substantial associated toxicity, and the negative phase III trials of adjuvant bevacizumab in colon cancer, this regimen will not be pursued for further study.
Reconfigurable flight control via multiple model adaptive control methods (1991)

An aircraft flight control system with reconfigurable capabilities is considered. A multiple model adaptive controller (MMAC) is shown to provide effective reconfigurability when subjected to single and double failures of sensors and/or actuators. A command generator tracker/proportional-plus-integral/Kalman filter (CGT/PI/KF) form of controller was chosen for each of the elemental controllers within the MMAC algorithm and each was designed via LQG synthesis to provide desirable vehicle behavior for a particular failure status of sensors and actuators. The MMAC performance is enhanced by an alternate computation of the MMAC hypothesis probabilities, use of maximum a posteriori probability (MAP) versus Bayesian form of the MAC (or a modified combination of both), and reduction of identification ambiguities through scalar residual monitoring for the case of sensor failures.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Self-assembling Cyclic a,g-Tetrapeptides (2006)

Cyclic α,γ-tetrapeptide self-assembled into dimers by formation of only 4-hydrogen-bonded interactions of amide groups of the two α-amino acids of a cyclic tetrapeptides.In recent years, considerable effort has been devoted to the synthesis of organic and inorganic nanotubes. 1Among a number of other nanotube design concepts, self-assembling peptide nanotubes (SPNs) 1-6 have
Identification of an Acyl-Enzyme Intermediate in a meta-Cleavage Product Hydrolase Reveals the Versatility of the Catalytic Triad (2012)

Meta-cleavage product (MCP) hydrolases are members of the α/β-hydrolase superfamily that utilize a Ser-His-Asp triad to catalyze the hydrolysis of a C-C bond. BphD, the MCP hydrolase from the biphenyl degradation pathway, hydrolyzes 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoic acid (HOPDA) to 2-hydroxypenta-2,4-dienoic acid (HPD) and benzoate. A 1.6 Å resolution crystal structure of BphD H265Q incubated with HOPDA revealed that the enzyme's catalytic serine was benzoylated. The acyl-enzyme is stabilized by hydrogen bonding from the amide backbone of 'oxyanion hole' residues, consistent with formation of a tetrahedral oxyanion during nucleophilic attack by Ser112. Chemical quench and mass spectrometry studies substantiated the formation and decay of a Ser112-benzoyl species in wild-type BphD on a time scale consistent with turnover and incorporation of a single equivalent of (18)O into the benzoate produced during hydrolysis in H(2)(18)O. Rapid-scanning kinetic studies indicated that the catalytic histidine contributes to the rate of acylation by only an order of magnitude, but affects the rate of deacylation by over 5 orders of magnitude. The orange-colored catalytic intermediate, ES(red), previously detected in the wild-type enzyme and proposed herein to be a carbanion, was not observed during hydrolysis by H265Q. In the newly proposed mechanism, the carbanion abstracts a proton from Ser112, thereby completing tautomerization and generating a serinate for nucleophilic attack on the C6-carbonyl. Finally, quantification of an observed pre-steady-state kinetic burst suggests that BphD is a half-site reactive enzyme. While the updated catalytic mechanism shares features with the serine proteases, MCP hydrolase-specific chemistry highlights the versatility of the Ser-His-Asp triad.
Synthesis and Selective Reduction of new Sterically Hindered Nitrophenyl Azides (1988)

Abstract Six new nitrophenyl azides have been synthesised from nitroarenes and converted selectively into the corresponding nitroanilines and iminophosphoranes.
Identity, Behavior, and Efficacy of Nitidulid Beetles (Coleoptera: Nitidulidae) Pollinating Commercial Annona Species in Florida (1994)

Journal Article Identity, Behavior, and Efficacy of Nitidulid Beetles (Coleoptera: Nitidulidae) Pollinating Commercial Annona Species in Florida Get access H. Nadel, H. Nadel 1 University of Florida Institute of Food and Agricultural Sciences, Tropical Research and Education Center, 18905 S.W. 280th Street, Homestead, FL 33031 1Current address: Royal British Columbia Museum, 675 Belleville Street, Victoria, British Columbia V8V 1X4, Canada. Search for other works by this author on: Oxford Academic PubMed Google Scholar J. E. Peña J. E. Peña University of Florida Institute of Food and Agricultural Sciences, Tropical Research and Education Center, 18905 S.W. 280th Street, Homestead, FL 33031 Search for other works by this author on: Oxford Academic PubMed Google Scholar Environmental Entomology, Volume 23, Issue 4, 1 August 1994, Pages 878–886, https://doi.org/10.1093/ee/23.4.878 Published: 01 August 1994 Article history Received: 22 April 1993 Accepted: 04 March 1994 Published: 01 August 1994
Effects of the non-Newtonian viscosity of blood on flows in a diseased arterial vessel. Part 1: Steady flows (1991)

Effects of the non-Newtonian viscosity of blood on a flow in a coronary arterial casting of man were studied numerically using a finite element method. Various constitutive models were examined to model the non-Newtonian viscosity of blood and their model constants were summarized. A method to incorporate the non-Newtonian viscosity of blood was introduced so that the viscosity could be calculated locally. The pressure drop, wall shear stress and velocity profiles for the case of blood viscosity were compared for the case of Newtonian viscosity (0.0345 poise). The effect of the non-Newtonian viscosity of blood on the overall pressure drop across the arterial casting was found to be significant at a flow of the Reynolds number of 100 or less. Also in the region of flow separation or recirculation, the non-Newtonian viscosity of blood yields larger wall shear stress than the Newtonian case. The origin of the non-Newtonian viscosity of blood was discussed in relation to the viscoelasticity and yield stress of blood.
Src kinase Hck association with the WASp and mDia1 cytoskeletal regulators promotes chemoattractant-induced Hck membrane targeting and activation in neutrophilsThis paper is one of a selection of papers published in this Special Issue, entitled CSBMCB’s 51st Annual Meeting – Epigenetics and Chromatin Dynamics, and has undergone the Journal’s usual peer review process. (2009)

The haemopoietic cell kinase (Hck) plays an important but poorly understood role in coupling chemoattractant stimuli to the actin cytoskeletal rearrangement required for neutrophil polarization and chemotaxis. Here, we show that Hck coimmunoprecipitates with the cytoskeletal regulatory Wiskott-Aldrich syndrome protein (WASp) and mammalian diaphanous-related formin 1 (mDia1) in chemoattractant-stimulated neutrophils, and that the 3 proteins inducibly colocalize with one another at the leading edge of chemotaxing cells. Hck interaction with WASp was found to be mediated by the Hck SH3 domain binding to the WASp proline-rich region, while Hck interaction with mDia1 was indirect but was required for binding to WASp. In contrast to wild-type cells, both WASp- and mDia1-deficient neutrophils showed severe impairment of chemokine-induced Hck membrane translocation and induction of Hck binding to WASp, and Hck activation and WASp tyrosine phosphorylation were impaired in mDia1-/- cells. Thus, chemotactic stimulation appears to induce an mDia1/Hck/WASp complex required for Hck membrane targeting and for induction of the Hck-mediated WASp tyrosine phosphorylation thought to be required for WASp-driven actin polymerization. These findings reveal that Hck functions in neutrophils to be realized, at least in part, via its interaction with mDia1 and WASp, and identifies the mDia1/Hck/WASp axis as a cytoskeletal signaling interface linking tyrosine phosphorylation to chemotactic and, possibly, other actin-based neutrophil responses.
Adherence to the World Cancer Research Fund/American Institute for Cancer Research Cancer Prevention Recommendations and Colorectal Cancer Survival (2021)

This study provides support for patients with colorectal cancer to follow cancer prevention recommendations after diagnosis. Future studies on cancer survivors will continue to contribute to evidence-based diet and lifestyle recommendations for patients with cancer.
Loss of intestinal ChREBP impairs absorption of dietary sugars and prevents glycemic excursion curves (2021)

ABSTRACT Increased sugar consumption is a risk factor for features of the metabolic syndrome including obesity, hypertriglyceridemia, insulin resistance, diabetes, and nonalcoholic fatty liver disease. The gut epithelium, which plays a central role in dietary sugar digestion, absorption and metabolism has emerged a key actor of metabolic disorders. While the transcription factor ChREBP (Carbohydrate response element binding protein) has been established as a key player of the adaptive reprograming of cellular metabolism in various tissues upon glucose or fructose challenge, its specific contribution to the regulation of blood glucose upon dietary sugar intake was not previously addressed. We demonstrate here that ChREBP is abundantly expressed in the proximal gut epithelium, where carbohydrate digestion and absorption primarily occur and in particular L cells, which produce the glucoincretin GLP-1. The inducible deletion of ChREBP specifically in the mouse gut epithelium (Ch ΔGUT mice) resulted in the reduction of early glycemic excursion upon oral glucose load. Surprisingly, despite being associated with reduced GLP-1 production, loss of gut ChREBP activity significantly dampened glucose transepithelial flux, and thereby delayed glucose distribution to peripheral tissues. Among the underlying mechanisms, we unveil that Ch ΔGUT mice show an impaired expression of key intestinal hexose (glucose, galactose, fructose) transporters and metabolic enzymes as well as brush border dissacharidases. In agreement, intestinal ChREBP deficiency was accompanied by a precocious intolerance to both high-lactose and high-sucrose diets concomitant with mild galactose and severe fructose malabsorption syndromes. Altogether, our study demonstrates that, by transcriptionally orchestrating local digestion and absorption of dietary sugars, ChREBP activity in the mouse gut epithelium controls glucose appearance rate into systemic circulation and prevents against intolerance to mono- and disaccharides.
Development of a novel selective agar for the isolation and detection of Bacillus anthracis (2020)

The isolation of B. anthracis from environmental samples is severely impaired by the lack of adequate selective agars which suppress the growth of other bacteria. CEFOMA agar represents an important improvement and suitable alternative to currently used selective agars.
Supplementary Figure 8 from ZIP9 Is a Druggable Determinant of Sex Differences in Melanoma (2023)

&lt;p&gt;Expression of classical and non-classical sex steroid receptors in primary human melanocytes. Testosterone promotes proliferation of genetically diverse cell lines.&lt;/p&gt;
Early Intervention Following Trauma May Mitigate Genetic Risk for PTSD in Civilians (2014)

ClinicalTrials.gov identifier: NCT00895518.
Ionization of Some Quinones by the Interaction with Aliphatic Amines (1971)

Abstract The interactions of alkylamines with p-benzoquinone and its chloro-derivatives in ethanol and ethyl ether were studied by the rapid scan spectrophotometric method. The formation of anion radicals was found spectroscopically for the n-butylamine-p-benzoquinone, n-butylamine-chloranil, dimethylamine-p-benzoquinone, and tri-n-butylamine-chloranil systems. The rates of ionization reactions were determined to be 0.30 sec−1 mol−1 (at 253.7°K), 0.89 sec−1mol−1 (at 222.7°K), and 1.39 sec−1mol−1 (223.2°K) for the tri-n-butylamine-chloranil, n-butylamine-chloranil, and n-butylamine-p-benzoquinone systems, respectively. The activation energy for ionization of the tri-n-butylamine-chloranil system in ethanol was estimated to be 0.57 kcal/mol.
A Communicative Intervention to Improve the Psychoemotional State of Critical Care Patients Transported by Ambulance (2021)

The communicative intervention CONECTEM was effective in improving psychoemotional state among critical care patients during medical transport.
Data from <i>Ink4a/Arf</i>-Dependent Loss of Parietal Cells Induced by Oxidative Stress Promotes CD44-Dependent Gastric Tumorigenesis (2023)

&lt;div&gt;Abstract&lt;p&gt;Loss of parietal cells initiates the development of spasmolytic polypeptide–expressing metaplasia (SPEM), a precancerous lesion in stomach. CD44 variant (CD44v) that enhances the ability to defend against reactive oxygen species (ROS) in epithelial cells is expressed &lt;i&gt;de novo&lt;/i&gt; in SPEM of &lt;i&gt;K19-Wnt1&lt;/i&gt;/&lt;i&gt;C2mE&lt;/i&gt; mice, a transgenic model of gastric tumorigenesis, and is required for the efficient development of SPEM and gastric tumor in these animals. The role of ROS and its downstream signaling in CD44-dependent gastric tumorigenesis has remained unknown, however. With the use of the &lt;i&gt;K19-Wnt1/C2mE&lt;/i&gt; mouse, we now show that parietal cells in the inflamed stomach are highly sensitive to oxidative stress and manifest activation of p38&lt;sup&gt;MAPK&lt;/sup&gt; signaling by ROS. Oral treatment with the antioxidant ascorbic acid or genetic ablation of the &lt;i&gt;Ink4a/Arf&lt;/i&gt; locus, a major downstream target of ROS-p38&lt;sup&gt;MAPK&lt;/sup&gt; signaling, inhibited parietal cell loss and the subsequent gastric tumorigenesis. Our results indicate that signaling activated by oxidative stress in parietal cells plays a key role in CD44-dependent gastric tumorigenesis. &lt;i&gt;Cancer Prev Res; 8(6); 492–501. ©2015 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
An implantable asic for neural stimulation (2005)

The integrated circuit proposed in this paper is dedicated to the neural stimulation of motor muscles for paraplegic people. For this kind of application, the constraints in terms of safety and performances are stringent. In practice our ASIC (application specific integrated circuit) allows us to deliver precise calibrated stimulation pulses to specific multi-polar electrode together with a very safety running cycle. In particular, the DAC has been thought to be fully monotonic and the output stage to ensure a passive and secure discharge of the safety capacitor. Also some tricky features have been added in order to improve the classical charge pump that generates on-chip high voltage.