gebhart/patrepeval huggingface dataset:
On-line identification of MIMO evolving Takagi- Sugeno fuzzy models (2005)

Evolving Takagi-Sugeno (eTS) fuzzy models and the method for their on-line identification has been recently introduced as an effective tool for design of flexible system models with minimum a priori information. Their structure develops on-line during the process of model identification itself. In this paper, this approach has been extended for the case of multi-input multi-output (MIMO) system model. Both parts of the identification algorithm, namely the unsupervised fuzzy rule-base antecedents learning by a recursive, noniterative clustering, and the supervised linear sub-model parameters learning by Kalman-filtering-based procedure, are extended for the MIMO case. The radius of influence of each fuzzy rule is considered a vector instead of a scalar as in the original eTS approach, allowing different areas of the data space to be covered by each input variable. As in the eTS, in MIMO eTS, the rule-base and parameters of the fuzzy model continually evolve by adding new rules with more summarization power and by modifying existing rules and parameters. Simulation results using a well-known benchmark are considered in this paper. Further investigation concern the application of MIMO eTS to predictive modeling of the speech spectrum magnitude, classification of multi-channel source modulation etc.
Heterogeneity of the rat NADH‐cytochrome‐b5‐reductase transcripts resulting from multiple alternative first exons (1994)

In order to understand the mechanisms responsible for the generation of different isoforms (membrane-bound and soluble) of NADH-cytochrome b5 reductase, and the different clinical forms of recessive congenital methemoglobinemia due to the deficiency of this enzyme in humans (type I, without mental retardation; type II, with mental retardation), we have looked for mRNA heterogeneity in various rat tissues. We have found four types of mRNAs, each with a different first exon (1L, 1R, 1X and 1Y), all of which were precisely spliced to join the common second exon. Our results are consistent with a 5'-->3' 'scanning' mechanism for splice-site selection. The previously characterized 1L and 1R transcripts arise from the alternative use of either a ubiquitous promoter (Pr-L) or an erythroid-specific promoter (Pr-R). In addition, the X and Y RNA species are novel transcripts which are expressed ubiquitously and at a relatively low level. The first alternative exons 1X and 1Y are noncoding, such that the AUG codon present in the common second exon is functional, as it is in the R mRNA. Thus, the X and Y mRNAs are expected to be translated in vivo into a ubiquitous soluble enzyme. Consequently, the rat NADH-cytochrome-b5-reductase gene is expressed through the use of at least four different promoters, which are probably subjected to different forms of regulation. This model of gene expression in rat could be important in understanding the basis for the different types of the NADH-cytochrome-b5-reductase enzyme and their deficiency in man.
Standardized Off-the-Shelf Components for Multibranched Endovascular Repair of Thoracoabdominal Aortic Aneurysms (2011)

Endovascular techniques have been slow to assume a primary role in the management of thoracoabdominal aortic aneurysms (TAAAs) because of the high cost of multiple components, regulatory challenges, manufacturing delays, and the complexity of multibranched stent graft insertion. Standardized off-the-shelf stent grafts have the potential to lower all these barriers to the widespread application of multibranched endovascular technology. Despite the desire for a single design to accommodate all variations of thoracoabdominal aneurysms, different approaches are likely required for patients with extensive aneurysmal disease compared with disease that is more localized to the infradiaphragmatic region or that which does not extend below the renals. This article summarizes the basic concepts and stent graft designs for repair of TAAA using off-the-shelf fenestrated and branched endografts.
Charge and Ion Transport in Poly(pyrrole copper phthalocyanine tetrasulfonate) during Redox Switching (1994)

The redox switching properties of electrochemically synthesized poly(pyrrole copper phthalocyanine‐3,4'4'',4‴‐tetrasulfonate) (PP‐CuPTS) have been investigated in aqueous electrolytes utilizing the electrochemical quartz crystal microbalance (EQCM) technique. Ion transport during redox switching is found to be cation dominant, indicating that the copper phthalocyanine complex is physically entrapped in the polymer film and is confirmed by the fact that no CuPTS is seen in the switching electrolyte. Coulometric and gravimetric analyses show that the redox switching rate of PP‐CuPTS is related to cation mobility and is a function of ion hydration. Correlation of the charge and mass changes of the polymer during switching reveals that there exists two distinct regimes. An initial mass flux dominant region is followed by a considerable amount of charge flux which is accompanied by no net mass flux. These are likely to be due to ion hydration and simultaneous solvent or co‐ion flux in the opposite direction of the mobile ionic species, respectively.
Genomic Comparison between a Virulent Type A1 Strain of Francisella tularensis and Its Attenuated O-Antigen Mutant (2012)

We report the complete genome sequences of TI0902, a highly virulent type A1 strain, and TIGB03, a related, attenuated chemical mutant strain. Compared to the wild type, the mutant strain had 45 point mutations and a 75.9-kb duplicated region that had not been previously observed in Francisella species.
Adaptive Tetrahedral Meshing for Personalized Cardiac Simulations (2009)

Abstract. Personalized simulation for therapy planning in the clinical routine requires fast and accurate computations. Finite-element (FE) simulations belong to the most commonly used approaches. Based on medical images the geometry of the patient’s anatomy must be faithfully represented and discretized in a way to find a reasonable compromise between accuracy and speed. This can be achieved by adapting the mesh resolution, and by providing well-shaped elements to improve the convergence of iterative solvers. We present a pipeline for generating high-quality, adaptive meshes, and show how the framework can be applied to specific cardiac simulations. Our aim is to analyze the meshing requirements for applications in electrophysiological modeling of ventricular tachycardia and electromechanical modeling of Tetralogy of Fallot.
Nonclinical Safety Assessment of the Histone Deacetylase Inhibitor Vorinostat (2009)

Vorinostat (SAHA, Zolinza), a histone deacetylase inhibitor, is assessed in nonclinical studies to support its approval for cutaneous T-cell lymphoma. Vorinostat is weakly mutagenic in the Ames assay; is clastogenic in rodent (ie, CHO) cells but not in normal human lymphocytes; and is weakly positive in an in vivo mouse micronucleus assay. No effects are observed on potassium ion currents in the hERG assay up to 300 microM (safety margin approximately 300-fold the approximately 1 microM serum concentration associated with the 400 mg/d maximum recommended human dose. No rat respiratory or central nervous system effects are found at 150 mg/kg (>2-fold maximum recommended human dose). No cardiovascular effects, including effects on QTc interval, are observed after a single oral dose (150 mg/kg) in dogs. Vorinostat is orally dosed daily in rats (controls, 20, 50, or 150 mg/kg/d) and dogs (controls, 60, 80, or 100/125/160 mg/kg/d) for 26 weeks with a 4-week recovery. Rat vorinostat-related adverse findings are decreased food consumption, weight loss, and hematologic changes; a no observed adverse effects level is not established. In dogs, adverse effects are primarily gastrointestinal; the no observed adverse effects level is 60 mg/kg/d (approximately 6-fold maximum recommended human dose). Toxicities are reversible and can be monitored in the clinic.
Therapeutic potential of adenovirus-mediated delivery of β-defensin 2 for experimental otitis media (2014)

Otitis media (OM), one of the most prevalent diseases in young children, is clinically important owing to its high incidence in children and its potential impact on language development and motor coordination. OM is the most common reason for the prescription of antibiotics (accounting for 25% of prescriptions) due to its extremely high incidence. A recent increase in antibiotic resistance among OM pathogens is emerging as a major public health concern globally, which led us to consider non-antibiotic approaches for the management of OM. In this study, we evaluated gene transfer of an antimicrobial peptide, human β-defensin 2 (DEFB4), using an adenoviral vector (Ad5 with deletions of E1/E3/E4) as a potential therapeutic approach. We demonstrated that the transduction of human β-defensin 2 induces the production of human β-defensin 2 and suppresses non-typeable Haemophilus influenzae (NTHi) adhesion to human middle ear epithelial cells. Moreover, intratympanic inoculation of Ad-DEFB4 was found to attenuate NTHi-induced middle ear effusions without eliciting a significant immune response. Most importantly, intratympanic inoculation of Ad-DEFB4 appeared to significantly augment clearance of NTHi from middle ear cavity. Collectively, our results suggest that intratympanic gene delivery of antimicrobial molecules may serve as an alternative/adjuvant approach for the management of OM.
Experimental and Theoretical Investigation of Multispecies Oral Biofilm Resistance to Chlorhexidine Treatment (2016)

We investigate recovery of multispecies oral biofilms following chlorhexidine gluconate (CHX) and CHX with surface modifiers (CHX-Plus) treatment. Specifically, we examine the percentage of viable bacteria in the biofilms following their exposure to CHX and CHX-Plus for 1, 3, and 10 minutes, respectively. Before antimicrobial treatment, the biofilms are allowed to grow for three weeks. We find that (a). CHX-Plus kills bacteria in biofilms more effectively than the regular 2% CHX does, (b). cell continues to be killed for up to one week after exposure to the CHX solutions, (c). the biofilms start to recover after two weeks, the percentage of the viable bacteria recovers in the 1 and 3 minutes treatment groups but not in the 10 minutes treatment group after five weeks, and the biofilms fully return to the pretreatment levels after eight weeks. To understand the mechanism, a mathematical model for multiple bacterial phenotypes is developed, adopting the notion that bacterial persisters exist in the biofilms together with regulatory quorum sensing molecules and growth factor proteins. The model reveals the crucial role played by the persisters, quorum sensing molecules, and growth factors in biofilm recovery, accurately predicting the viable bacterial population after CHX treatment.
Wall Shear Stress Measurements on the NASA Hump Model for CFD Validation (2004)

The skin friction distribution on a wall-mounted hump model has been obtained using oil-fllm interferometry. Several important modiflcations to the typical analysis of oil-fllm interferograms are made to account for high shear gradients, close camera proximity, and high model curvature. In addition, the oil used to obtain the fringes has been calibrated and the oil temperature during testing is carefully monitored. As a result, high quality skin friction values in the reverse ∞ow region downstream of separation and in the recovery region downstream of attachment have been obtained. Comparison with computational predictions indicate that the computations accurately predict the skin friction ahead of separation, but fail to predict the attachment point correctly and thus the skin friction in the separated and recovery regions of the ∞ow is not captured.
Effects of Chain Length of Chitosan Oligosaccharides on Solution Properties and Complexation with siRNA (2019)

In the context of gene delivery, chitosan has been widely used as a safe and effective polycation to complex DNA, RNA and more recently, siRNA. However, much less attention has been paid to chitosan oligosaccharides (COS) despite their biological properties. This study proposed to carry out a physicochemical study of COS varying in degree of polymerization (DP) from 5 to 50, both from the point of view of the solution properties and the complexing behavior with siRNA. The main parameters studied as a function of DP were the apparent pK<sub>a</sub>, the solubility versus pH, the binding affinity with siRNA and the colloidal properties of complexes. Some parameters, like the pK<sub>a</sub> or the binding enthalpy with siRNA, showed a marked transition from DP 5 to DP 13, suggesting that electrostatic properties of COS vary considerably in this range of DP. The colloidal properties of siRNA/COS complexes were affected in a different way by the COS chain length. In particular, COS of relatively high DP (≥50) were required to form small complex particles with good stability.
Thermally assisted magnetic recording on a bit-patterned medium by using a near-field optical head with a beaked metallic plate (2008)

A near-field optical head with a beaked metallic plate was used for writing marks on a Co∕Pd bit-patterned medium with a diameter of 20–25nm and a pitch of 30nm. Magnetic-force-microscope images of the medium show that the magnetizations of single bits were selectively reversed by the head. The light-utilization efficiency (defined as the ratio of the absorbed power in the medium to the incident light power) was estimated from the writing condition used and thermal modeling as about 5%.
Androgen receptors in benign and malignant prostatic tissue. (1979)

A new procedure has been developed to purify prostatic cell nuclei and to achieve a high yield of nuclear material for study. This technique allowed the investigation of the enzyme 5-alpha-reductase and its relationship to the translocation of dihydrotestosterone and androgen receptors into the nucleus of the prostatic cell. The studies revealed that 5-alpha-reductase was localized chiefly to the stromal components of all types of prostatic tissue. Although there is a higher concentration of dihydrotestosterone in carcinoma tissue the 5-alpha-reductase activity is low. Studies on the effect of androgens and antiandrogens on nuclear uptake of androgen revealed that androgens are potent stimulants of receptor translocation, while antiandrogens stimulate little or no translocation.
Optimal energy management of offshore wind farms considering the combination of overplanting and dynamic rating (2022)

International audience
Coated electroactive materials (2023)

A process includes suspending an electroactive material in a solvent, suspending or dissolving a carbon precursor in the solvent; and depositing the carbon precursor on the electroactive material to form a carbon-coated electroactive material. Compositions include a graphene-coated electroactive material prepared from a solution phase mixture or suspension of an electroactive material and graphene, graphene oxide, or a mixture thereof.
Use of variation in sex steroid methyl transferases to predict efficacy of androgen-deprivation therapy (ADT) in advanced prostate cancer. (2011)

14 Background: We evaluated the association of germline variation in genes regulating hormonal pathways with duration of treatment response in prostate cancer patients receiving ADT, focusing on genes in the androgen biosynthesis (the C4 Δ; C5 Δ; C21 CYP pathways and the alternate “backdoor pathway”) and metabolism pathways. Methods: We successfully genotyped 747 single nucleotide polymorphisms (SNPs) from 84 genes in a cohort of 304 patients with advanced prostate cancer who progressed on ADT. Tagging SNPs with a minor allele frequency (MAF) of &gt;5% and r 2 ≥0.8 were selected from HapMap, NIEHS and Seattle SNP databases. The primary endpoint was time to ADT failure, and we conducted a gene-level test (principal components), along with individual SNP level tests adjusted for patient age and Gleason score. To account for multiple testing, we calculated the false discovery rate (FDR), and FDRs of 0.10 were considered noteworthy. Results: The median age of the cohort at ADT failure was 72 years (range 65-78 years), and the overall median time to ADT failure was 3.21 years (IQ [25-75]: 1.54-6.20 years). At the gene level, TRMT11 (tRNA methyltransferase 11 homologue) showed the strongest association with time to ADT failure (p&lt;0.0008; adjusted p-value for FDR-0.068). Two of four TRMT11 tag SNPs were associated with time to ADT failure. The first was the intronic SNP rs1268121 (A&gt;G) with a MAF of 15%, for which there was a positive association of median time to ADT failure with the number of variant alleles (p=0.023): 3.1 years for 0, 4.1 years for 1, and 5.9 years for 2 variant alleles. The second was the SNP rs6900796 (A&gt;G) in the 3' untranscribed region with a MAF of 49%, for which the median time to ADT failure was 2.6 years for 0, 2.5 years for 1, and 3.8 years for 2 variant alleles (p=0.023). Four additional genes showed an association with ADT response at the p&lt;0.10 level, including LOC390956, PRMT3, SLC7A6OS, and WBSCR22, although all FDRs were &gt;0.95. Conclusions: Variation in TRMT11 was associated with time to ADT failure. Confirmation of these findings in an independent cohort is needed. No significant financial relationships to disclose.
Delineation of a T-cell activation motif required for binding of protein tyrosine kinases containing tandem SH2 domains. (1994)

To define the T-cell receptor signal transduction motif, we have transfected human and murine T-cell lines with a chimeric receptor consisting of the extracellular and transmembrane domains of human CD8 alpha and the membrane-proximal portion of CD3 zeta containing at its C terminus either an 18-amino acid segment (NQLYNELNLGRREEYDVL) or alanine-scanning point mutant derivatives. Crosslinking of the extracellular domain of the chimera is sufficient to initiate Ca2+ flux, interleukin 2 production, and tyrosine phosphorylation of cellular proteins including the chimera. Subsequently, the chimera becomes associated with several tyrosine-phosphorylated proteins, among them the 70-kDa protein tyrosine kinase ZAP70. Mutational data identify the T-cell activation motif as Y(X)2L(X)7Y(X)2L and show that each of the four designated residues is necessary for the above activation events. Recombinant protein containing the two tandem SH2 domains derived from ZAP70 binds to a synthetic peptide corresponding to the above 18-amino acid motif but only when both tyrosines are phosphorylated; in contrast, little or no binding is observed to monophosphorylated or nonphosphorylated analogues. These results imply that after receptor crosslinking in T cells, and by inference also in B cells and mast cells, the motif is phosphorylated on both tyrosine residues, thereafter serving as a docking site for protein tyrosine kinases containing tandem SH2 domains.
Study of $$\upchi _{{\mathrm {b}}}$$ χ b meson production in $$\mathrm {p} $$ p $$\mathrm {p} $$ p collisions at $$\sqrt{s}=7$$ s = 7 and $$8{\mathrm {\,TeV}} $$ 8 TeV and observation of the decay $$\upchi _{{\mathrm {b}}}\mathrm {(3P)} \rightarrow \Upsilon \mathrm {(3S)} {\upgamma } $$ χ b ( 3 P ) → Υ ( 3 S ) γ (2014)

A study of b meson production at LHCb is performed on proton-proton collision data, corresponding to 3.0 fb -1 of integrated luminosity collected at centre-ofmass energies s = 7 and 8 TeV. The fraction of (nS) mesons originating from b decays is measured as a function of the transverse momentum in the rapidity range 2.0 < y < 4.5. The radiative transition of the b (3P) meson to (3S) is observed for the first time. The b1 (3P) mass is determined to be
Polycarbonate-Based Brush Polymers with Detachable Disulfide-Linked Side Chains (2013)

We have successfully designed and synthesized polycarbonate-based brush polymers with detachable, disulfide-linked side chains. A polycarbonate backbone with disulfide-linked, hydroxyl-terminated pendant side chains was first prepared. Poly(trimethylene carbonate) or poly(l-lactide) brushes were then grafted from the terminal hydroxyl groups using an acid- or base-catalyzed ring-opening polymerization. Inspired by how cells use glutathione to mediated reduction of disulfides in cytoplasmic proteins, we also demonstrate that the side chains are easily detached under mild reductive conditions (e.g., with 1,4-dithiothreitol). l-Lactide and trimethylene carbonate were selected as model building blocks for the polymer grafts because of their commercial availability and routine use in polymeric drug delivery systems.
LTE HetNet Trial - Range Expansion Including Micro/Pico Indoor Coverage Survey (2012)

Adding low power nodes is one option to meet the increased mobile broadband traffic demands. In the resulting heterogeneous network (HetNet) with different node power levels, range expansion is a key feature to improve uplink as well as to increase the coverage of micro/pico nodes. In this paper measurement results from a trial with Release 8 terminals and system verify that range expansion can improve uplink bit rate at a limited cost in downlink bit rate. Also, the macro versus micro/pico indoor coverage is assessed by scanning three office buildings. Coverage using a 2x1 W pico node is assessed to 75 percent of the coverage with a 2x5 W micro node. Range expansion can increase the indoor coverage with 1.5 to 4 percentages per dB.
Quantitative Evaluation of Blood Damage in a Centrifugal VAD by Computational Fluid Dynamics (2004)

This study explores a quantitative evaluation of blood damage that occurs in a continuous flow left ventricular assist device (LVAD) due to fluid stress. Computational fluid dynamics (CFD) analysis is used to track the shear stress history of 388 particle streaklines. The accumulation of shear and exposure time is integrated along the streaklines to evaluate the levels of blood trauma. This analysis, which includes viscous and turbulent stresses, provides a statistical estimate of possible damage to cells flowing through the pump. Since experimental data for hemolysis levels in our LVAD are not available, in vitro normalized index of hemolysis values for clinically available ventricular assist devices were compared to our damage indices. This approach allowed for an order of magnitude comparison between our estimations and experimentally measured hemolysis levels, which resulted in a reasonable correlation. This work ultimately demonstrates that CFD is a convenient and effective approach to analyze the Lagrangian behavior of blood in a heart assist device.
Carbon nanotube transistors: Making electronics from molecules (2022)

Semiconducting carbon nanotubes are robust molecules with nanometer-scale diameters that can be used in field-effect transistors, from larger thin-film implementation to devices that work in conjunction with silicon electronics, and can potentially be used as a platform for high-performance digital electronics as well as radio-frequency and sensing applications. Recent progress in the materials, devices, and technologies related to carbon nanotube transistors is briefly reviewed. Emphasis is placed on the most broadly impactful advancements that have evolved from single-nanotube devices to implementations with aligned nanotubes and even nanotube thin films. There are obstacles that remain to be addressed, including material synthesis and processing control, device structure design and transport considerations, and further integration demonstrations with improved reproducibility and reliability; however, the integration of more than 10,000 devices in single functional chips has already been realized.