gebhart/patrepeval huggingface dataset:
A New C-Type Cyclin-Dependent Kinase from Tomato Expressed in Dividing Tissues Does Not Interact with Mitotic and G1 Cyclins (2001)

Cyclin-dependent kinases (CDKs) form a conserved superfamily of eukaryotic serine-threonine protein kinases whose activity requires the binding of a cyclin protein. CDKs are involved in many aspects of cell biology and notably in the regulation of the cell cycle. Three cDNAs encoding a C-type CDK, and a member of each B-type CDK subfamily, were isolated from tomato (Lycopsersicon esculentum Mill.) and designated Lyces;CDKC;1 (accession no. AJ294903), Lyces; CDKB1;1 (accession no. AJ297916), and Lyces;CDKB2;1 (accession no. AJ297917). The predicted amino acid sequences displayed the characteristic PITAIRE (CDKC), PPTALRE (CDKB1), and PPTTLRE (CDKB2) motives in the cyclin-binding domain, clearly identifying the type of CDK. The accumulation of all transcripts was associated preferentially with dividing tissues in developing tomato fruit and vegetative organs. In contrast to that of CDKA and CDKBs, the transcription pattern of Lyces;CDKC;1 was shown to be independent of hormone and sugar supply in tomato cell suspension cultures and excised roots. This observation, together with the absence of a patchy expression profile in in situ hybridization experiments, suggests a non-cell cycle regulation of Lyces;CDKC;1. Using a two-hybrid assay, we showed that Lyces;CDKC;1 did not interact with mitotic and G1 cyclins. The role of plant CDKCs in the regulation of cell division and differentiation is discussed with regard to the known function of their animal counterparts.
Modeling and Design of STT-MRAMs (2011)

of the Thesis Modeling and Design of STT-MRAMs by Richard William Dorrance Master of Science in Electrical Engineering University of California, Los Angeles, 2011 Professor Dejan Markovic, Chair Spin-Torque Transfer Magnetoresistive Random Access Memory (STTMRAM) is an emerging memory technology with the potential to become a true universal memory: the density of DRAM, the speed of SRAM, and the nonvolatility of Flash. STT-MRAM uses a Magnetic Tunnel Junction (MTJ) device as a non-volatile magnetic memory storage element and the recently discovered spin-torque phenomenon to switch magnetic states. In this work, the fundamental quantum mechanical nature of the MTJ is explored to develop a highly accurate physics-based model of its spintronic operation. Innovative design-space analysis techniques are introduced to investigate existing and proposed STT-MRAM architectures. Three test chips were fabricated using these new design methodologies at 90nm, 65nm, and 45nm technology nodes. Each chip has a memory density more than two times greater and a read/write performance more than 10 times greater when compared to published state-of-the-art STT-MRAMs. Theoretical and observed scaling trends show flash-like densities, with SRAM-equivalent access times, while using 10 times less energy in more advanced technology nodes (below 32nm).
Synthesis, properties, and field effect transistor characteristics of new thiophene‐[1,2,5]thiadiazolo[3,4‐g]quinoxaline‐thiophene‐based conjugated polymers (2008)

Abstract Four new conjugated copolymers based on the moiety of bis(4‐hexylthiophen‐2‐yl)‐6,7‐diheptyl‐[1,2,5]thiadiazolo[3,4‐g]quinoxaline (BTHTQ) were synthesized and characterized, including poly(6,7‐diheptyl‐4,9‐bis(4‐hexylthiophen‐2‐yl)‐[1,2,5]thiadiazolo[3,4‐g]quinoxaline) (PBTHTQ), poly‐(6,7‐diheptyl‐4,9‐bis(4‐hexylthiophen‐2‐yl)‐[1,2,5]thiadiazolo‐[3,4‐g]quinoxaline‐ alt ‐2,5‐thiophene) (PTTHTQ), poly(6,7‐diheptyl‐4,9‐bis(4‐hexylthiophen‐2‐yl) [1,2,5]‐thiadiazolo‐[3,4‐g]quinoxaline‐ alt ‐9,9‐dioctyl‐2,7‐fluore‐ne) (PFBTHTQ), and poly(6,7‐diheptyl‐4,9‐bis(4‐hexylthiophen‐2‐yl)‐[1,2,5]thiadiazolo[3,4‐g]quinoxaline‐ alt ‐1,4‐bis(decyloxy)phenylene) (PPBTHTQ). The λ max of PBTHTQ, PTTHTQ, PFBTHTQ, and PPBTHTP thin films was shown at 780, 876, 734, and 710 nm, respectively, with the corresponding optical band gaps ( E ) of 1.31, 1.05, 1.40, and 1.43 eV. The relatively small band gaps of the synthesized polymers suggested the significance of intramolecular charge transfer between the donor and TQ moiety. The estimated hole mobilities of PBTHTQ, PTTHTQ, and PFBTHTQ‐based field effect transistor devices using CHCl 3 solvent were 8.5 × 10 −5 , 8.5 × 10 −4 , and 2.8 × 10 −5 cm 2 V −1 s −1 , respectively, but significantly enhanced to 1.6 × 10 −4 , 3.8 × 10 −3 , and 1.5 × 10 −4 cm 2 V −1 s −1 using high boiling point solvent of chlorobenzene (CB). The higher hole mobility of PTTHTQ than the other two copolymers was attributed from its smaller band gap or ordered morphology [wormlike (chloroform) or needle‐like (CB)]. The characteristics of small band gap and high mobility suggest the potential applications of the BTHTQ‐based conjugated copolymers in electronic and optoelectronic devices. © 2008 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 46: 6305–6316, 2008
MAC Schemes with Efficient Protocols and Keyed-Verification Anonymous Credentials. (2013)

We consider the problem of constructing anonymous credentials for use in a setting where the issuer of credentials is also the verifier, or where the issuer and verifier have a shared key. In this setting we can use message authentication codes (MACs) instead of public key signatures as the basis of the credential system. To this end, we construct two algebraic MAC schemes in prime order groups, along with efficient protocols for issuing credentials, asserting possession a credential, and proving statements about the attributes. Security of the first scheme is proven in the generic group model, and we show that the second is secure under the decisional Diffie-Hellman (DDH) assumption, using a dual system-based approach. Finally, we compare the efficiency of our new systems to two traditional credential systems, U-Prove and Idemix. We show that performance of the new schemes are competitive with U-Prove, and many times faster than Idemix.
Synthesis and Ionophoric Properties of Crown Ether Capped with a Convergent Hydroxamic Acid Function (2002)

Meanwhile, in many of the designed supramolecularsystems, obtaining a specific convergent orientation of parti-cular ligating functions toward active site is highly desirablefor selective and strong binding of targeted guests. For thesepurpose, U-shaped structural motif of Kemp’s triacid isknown to be very useful and resulted in the developments ofmany sophisticated supramolecular systems.
Active Diagnosability of Discrete Event Systems and its Application to Battery Fault Diagnosis (2014)

A battery system may consist of many batteries; each battery can have a normal operating mode and several faulty modes. This makes the fault status of a battery system very complex. To diagnose such a complex system, passive diagnosis is often insufficient. We may need to actively control the system to complete the diagnosis task. In this brief, we investigate the active diagnosis in the framework of discrete event systems. We model the system to be diagnosed by an automaton (finite state machine) with state outputs in which some events are controllable in the sense that they can be enforced, and some events are not. We say that the system is actively diagnosable if we can find a control under which the faults can be diagnosed. We derive a necessary and sufficient condition for a system to be actively diagnosable. Algorithms are devised for checking active diagnosability and finding controls that achieve it. The theoretical results are then applied to fault diagnosis of battery systems. We illustrate the approach using a simplified battery system consisting of four batteries. We find a control that diagnoses the faults based on the measurements of two temperature sensors.
Odourless Strategy for Deep Eutectic Solvent-Mediated Ring Opening of Epoxides with In Situ Generated S-Alkylisothiouronium Salts (2014)

A general, straightforward and odourless ring-opening reaction allows the preparation of β-hydroxy sulfides from in situ generated <i>S</i>-alkylisothiouronium salts in urea–choline chloride-based deep eutectic solvent (DES). In addition, reaction of epoxides with thiourea in DES yields the corresponding thiiranes.
Table structure recognition based on textblock arrangement and ruled line position (2002)

Describes a new method to recognize table structures from document images. Each cell of a table is arranged regularly in two dimensions and is represented by a row-column pair. Even in the absence of ruled lines, its coordinates are explicitly found. Thus, it is assumed that an arrangement of textblocks defines the table structure, which is an arrangement of rows and columns, and ruled lines make clear their relationship. This process is composed of two procedures: the expansion of cell bounding boxes and the assignment of row-column numbers to each edge. It is shown that the method can be applied to partially ruled tables with some experimental results.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Visualizing Roles of Variables to Novice Programmers (2002)

Keywords: POP-I.A. learning to program, POP-II.A. novices, POP-III.A. variables, POP-III.D. visualisation,
Effective reduction of non-specific binding of blood cells in a microfluidic chip for isolation of rare cancer cells (2018)

The high purity of target cells enriched from blood samples plays an important role in the clinical detection of diseases. However, non-specific binding of blood cells in the isolated cell samples can complicate downstream molecular and genetic analysis. In this work, we report a simple solution to non-specific binding of blood cells by modifying the surface of microchips with a multilayer nanofilm, with the outmost layer containing both PEG brushes for reducing blood cell adhesion and antibodies for enriching target cells. This layer-by-layer (LbL) polysaccharide nanofilm was modified with neutravindin and then conjugated with a mixture of biotinylated PEG molecules and biotinylated antibodies. Using EpCAM-expressing and HER2-expressing cancer cells in blood as model platforms, we were able to dramatically reduce the non-specific binding of blood cells to approximately 1 cell per mm2 without sacrificing the high capture efficiency of the microchip. To support the rational extension of this approach to other applications for cell isolation and blood cell resistance, we conducted extensive characterization on the nanofilm formation and degradation, antifouling with PEG brushes and introducing functional antibodies. This simple, yet effective, approach can be applied to a variety of microchip applications that require high purity of sample cells containing minimal contamination from blood cells.
Fidelity of frequency and phase entrainment of circuit-level spike activity during DBS (2015)

High-frequency stimulation is known to entrain spike activity downstream and upstream of several clinical deep brain stimulation (DBS) targets, including the cerebellar-receiving area of thalamus (VPLo), subthalamic nucleus (STN), and globus pallidus (GP). Less understood are the fidelity of entrainment to each stimulus pulse, whether entrainment patterns are stationary over time, and how responses differ among DBS targets. In this study, three rhesus macaques were implanted with a single DBS lead in VPLo, STN, or GP. Single-unit spike activity was recorded in the resting state in motor cortex during VPLo DBS, in GP during STN DBS, and in STN and pallidal-receiving area of motor thalamus (VLo) during GP DBS. VPLo DBS induced time-locked spike activity in 25% (n = 15/61) of motor cortex cells, with entrained cells following 7.5 ± 7.4% of delivered pulses. STN DBS entrained spike activity in 26% (n = 8/27) of GP cells, which yielded time-locked spike activity for 8.7 ± 8.4% of stimulus pulses. GP DBS entrained 67% (n = 14/21) of STN cells and 32% (n = 19/59) of VLo cells, which showed a higher fraction of pulses effectively inhibiting spike activity (82.0 ± 9.6% and 86.1 ± 16.6%, respectively). Latency of phase-locked spike activity increased over time in motor cortex (58%, VPLo DBS) and to a lesser extent in GP (25%, STN DBS). In contrast, the initial inhibitory phase observed in VLo and STN during GP DBS remained stable following stimulation onset. Together, these data suggest that circuit-level entrainment is low-pass filtered during high-frequency stimulation, most notably for glutamatergic pathways. Moreover, phase entrainment is not stationary or consistent at the circuit level for all DBS targets.
Relation between Ovarian Carcinoma-Associated Antigens in Tumor Tissue and Detached Cyst Fluid Cells of Patients with Ovarian Neoplasms (1994)

Our results show that mAb show OV-TL3 is the best marker for endometrioid carcinomas and confirmed that mAbs OV632, OC125 and OV-TL3 could be good complementary markers for differentiating malignant and benign lesions in the ovary. The percentage content of all ovarian carcinoma-associated antigens in solid tumors and respective cyst fluid cells was comparable.
Physical Properties of Copolymers of Styrene and α-Olefins (1966)

Copolymerizations of styrene and a-olefins such as propylene, butene-1, pentene-I, heptene-1 and decene-1 have been carried out with organo-metallic compound catalysts in order to study physical properties, copolymerizability and crystallizability.It is concluded, as a result that the apparent copolymerizability of styrene monomer to the opponent comonomers may increase in accordance with increase of the length of side chains of the comonomers owing to the difference in their steric hindrance.In the case of copolymerization between styrene and hexene-I, each constituent of the monomers was distributed most randomly each other.The product of monomer reactivity ratios, r(Styrene) x r(a-Olefin) was found to approximately equal to 1 in all of the copolymerizations investigated.It is expected that by the copolymerization with heptene-1 or decene-1 some adverse physical properties of crystalline polystyrene such as the brittleness and low heat-drawability may be improved without much lowering of its melting point.
A New Updated Model of CO2/H2S Corrosion in Multiphase Flow (2008)

Abstract Following the introduction of an integrated mechanistic model of CO2 corrosion in multiphase flow a few years ago, new advances have been made in understanding internal corrosion of mild steel pipelines. The original model was mechanistic and covered the key underlying processes such as: kinetics of electrochemical reactions at the steel surface, dynamics of coupled transient transport of multiple species between the bulk solution and the steel surface, through the turbulent boundary layer and through a porous surface film, kinetics of chemical reactions including precipitation of iron carbonate, as well as growth and protectiveness offered by iron carbonate scales. A new updated model based on the latest experimental results covers previously unknown territory: corrosion at very low temperatures (as low as 1°C) and corrosion in very high salinity brines (up to 25%wt. NaCl). However the biggest breakthrough was the development of a mechanistic H2S corrosion model which includes the kinetics of iron sulfide growth by solid state reaction. The overall model has been extensively calibrated and verified with a reliable experimental database.
Barrier synchronization on a loaded SMP using two-phase waiting algorithms (2002)

Little work has been done on the performance of barrier synchronization using two-phase blocking, as the common wisdom is that it is useless to spin if the total number of threads in the system exceeds the number of processors. We challenge this and show that it may be beneficial to spin-wait even if the number of threads is up to double the number of processors, especially if the waiting time is at least twice the context switch overhead (rather than being equal to it). We also characterize the alternating synchronization pattern that applications based on barriers tend to fall into which is quite different from the patterns typically assumed in theoretical analyses.
Narrow resonance structure in the Mie scattering characteristics (1978)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text Petr Chýlek, J. T. Kiehl, and M. K. W. Ko, "Narrow resonance structure in the Mie scattering characteristics," Appl. Opt. 17, 3019-3021 (1978) Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
Search Based Software Engineering: A Comprehensive Analysis and Review of Trends Techniques and Applications (2009)

In the past five years there has been a dramatic increase in work on Search Based Software Engineering (SBSE), an approach to software engineering in which search based optimisation algorithms are used to address problems in Software Engineering. SBSE has been applied to problems throughout the Software Engineering lifecycle, from requirements and project planning to maintenance and re-engineering. The approach is attractive because it offers a suite of adaptive automated and semi-automated solutions in situations typified by large complex problem spaces with multiple competing and conflicting objectives. This paper provides a review and classification of literature on SBSE. The paper identifies research trends and relationships between the techniques applied and the applications to which they have been applied and highlights gaps in the literature and avenues for further research.
Two-stage dispersed-growth treatment of halogenated aliphatic compounds by cometabolism (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTwo-stage dispersed-growth treatment of halogenated aliphatic compounds by cometabolismLisa Alvarez-Cohen and Perry L. McCartyCite this: Environ. Sci. Technol. 1991, 25, 8, 1387–1393Publication Date (Print):August 1, 1991Publication History Published online1 May 2002Published inissue 1 August 1991https://pubs.acs.org/doi/10.1021/es00020a004https://doi.org/10.1021/es00020a004research-articleACS PublicationsRequest reuse permissionsArticle Views168Altmetric-Citations47LEARN 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-Alertsclose Get e-Alerts
Improved performance of hybrid electronic terahertz generators (2008)

By combining backwards wave oscillators with frequency multipliers the spectral range is extended while taking advantage of improved impedance matching between these components. QS2-180 (OV-86), QS1-260, and QS1-370 have been successfully coupled to Schottky diode frequency multipliers. By empirical means the impedance was tuned significantly improving power conversion efficiency.
New access to lipo-chitooligosaccharide nodulation factors (2004)

Sulfonated and non-sulfonated lipo-chitooligosaccharides involved in Sinorhizobium meliloti-legume symbiosis are efficiently obtained on a multi mg scale by a 2-step procedure combining biotechnological and chemical approaches.
Strong elasticoluminescence from monoclinic-structure SrAl2O4 (2004)

Elastico-deformation luminescence in strontium aluminates was investigated systematically using precisely controlled pure-phase Eu-doped strontium aluminates of SrAl12O19, Sr4Al14O25, SrAl4O7, α-SrAl2O4, β-SrAl2O4, Sr3Al2O6 and their mixed phases. This study revealed that only the α-SrAl2O4 phase produces strong elastico-deformation luminescence; other strontium aluminates show no deformation luminescence. Correlation of deformation luminescence and crystal structure was found. The α-SrAl2O4 has the lowest symmetry, crystallizing in a monoclinic structure. This finding can be applied in designing strong elastico-deformation-luminescent materials.
Establishment and Characterization of a Cell Line from Human Circulating Colon Cancer Cells (2015)

Circulating tumor cells (CTC) in blood are promising new biomarkers potentially useful for prognostic prediction and monitoring of therapies in patients with solid tumors including colon cancer. Moreover, CTC research opens a new avenue for understanding the biology of metastasis in patients with cancer. However, an in-depth investigation of CTCs is hampered by the very low number of these cells, especially in the blood of patients with colorectal cancer. Thus, the establishment of cell cultures and permanent cell lines from CTCs has become the most challenging task over the past year. Here, we describe, for the first time, the establishment of cell cultures and a permanent cell line from CTCs of one patient with colon cancer. The cell line designated CTC-MCC-41 has been cultured for more than one year, and the cells have been characterized at the genome, transcriptome, proteome, and secretome levels. This thorough analysis showed that CTC-MCC-41 cells resemble characteristics of the original tumor cells in the patient with colon cancer and display a stable phenotype characterized by an intermediate epithelial/mesenchymal phenotype, stem cell-like properties, and an osteomimetic signature, indicating a bone marrow origin. Functional studies showed that CTC-MCC-41 cells induced rapidly in vitro endothelial cell tube formation and in vivo tumors after xenografting in immunodeficient mice. The establishment of this first colon cancer CTC line allows now a wealth of functional studies on the biology of CTCs as well as in vitro and in vivo drug testing.
The Catalytic Site of Cytochrome P4504A11 (CYP4A11) and Its L131F Mutant (1998)

heme, iron protoporphyrin IX regardless of the iron oxidation
Modification of steviol glycosides using α-amylase (2014)

Stevia extract usually contains a high content of stevioside which produces a significant bitter aftertaste, thus limiting its commercial application as a high-potency sweetener in foods. In order to improve its organoleptic properties, the stevia extract (containing 90 g/100 g stevioside) was modified by α-amylase from Aspergillus oryzae (TAKA), with soluble starch as substrate. Stevioside was found to be an efficient acceptor substrate and has been transglycosylated during the reaction. The mono-glycosylated stevioside was the major product. The influences of reaction conditions on the conversion yield of stevioside, including pH, reaction temperature, weight ratio of stevioside to starch, substrate and enzyme concentrations, were investigated. With 2 g/100 mL stevioside and 20 g/100 mL soluble starch in 0.05 mol/L potassium phosphate buffer, pH 6.4 and 50 U/mL TAKA, 48.2% conversion yield of stevioside was obtained in 0.5 h at 70 °C. For the enzymatically modified steviol glycosides, the bitter aftertaste was significantly decreased and the sweetness potency was significantly improved.