gebhart/patrepeval huggingface dataset:
Data from miR-409-3p/-5p Promotes Tumorigenesis, Epithelial-to-Mesenchymal Transition, and Bone Metastasis of Human Prostate Cancer (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Purpose:&lt;/b&gt; miR-409-3p/-5p is a miRNA expressed by embryonic stem cells, and its role in cancer biology and metastasis is unknown. Our pilot studies demonstrated elevated miR-409-3p/-5p expression in human prostate cancer bone metastatic cell lines; therefore, we defined the biologic impact of manipulation of miR-409-3p/-5p on prostate cancer progression and correlated the levels of its expression with clinical human prostate cancer bone metastatic specimens.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Experimental Design:&lt;/b&gt; miRNA profiling of a prostate cancer bone metastatic epithelial-to-mesenchymal transition (EMT) cell line model was performed. A Gleason score human tissue array was probed for validation of specific miRNAs. In addition, genetic manipulation of miR-409-3p/-5p was performed to determine its role in tumor growth, EMT, and bone metastasis in mouse models.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; Elevated expression of miR-409-3p/-5p was observed in bone metastatic prostate cancer cell lines and human prostate cancer tissues with higher Gleason scores. Elevated miR-409-3p expression levels correlated with progression-free survival of patients with prostate cancer. Orthotopic delivery of miR-409-3p/-5p in the murine prostate gland induced tumors where the tumors expressed EMT and stemness markers. Intracardiac inoculation (to mimic systemic dissemination) of miR-409-5p inhibitor–treated bone metastatic ARCaP&lt;sub&gt;M&lt;/sub&gt; prostate cancer cells in mice led to decreased bone metastasis and increased survival compared with control vehicle–treated cells.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusion:&lt;/b&gt; miR-409-3p/-5p plays an important role in prostate cancer biology by facilitating tumor growth, EMT, and bone metastasis. This finding bears particular translational importance as miR-409-3p/-5p appears to be an attractive biomarker and/or possibly a therapeutic target to treat bone metastatic prostate cancer. &lt;i&gt;Clin Cancer Res; 20(17); 4636–46. ©2014 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
Corrigendum (1995)

Y. Gao, F. Sato, G. A. Ashamu, A. Galione, B. V. L. Potter, R. Fornika, H. Görls, B. Seemann, W. Leitner, J. J. Eshelby, P. J. Parsons, N. C. Sillars and P. J. Crowley, J. Chem. Soc., Chem. Commun., 1995, 1929 DOI: 10.1039/C39950001929
Evaluation of Cardiac Phenotype in Horses with Type 1 Polysaccharide Storage Myopathy (2012)

We found no evidence of clinically relevant cardiac myocyte injury or arrhythmias in horses with PSSM1. Additional study is required to determine whether myocardial function may be compromised in this disorder.
Exploring Spark Plasma Sintering at low temperature to (co)-sinter functional oxides used in electroceramics (2019)

International audience
A Synthesis of 4-Cyano-hexahydro-2H-benzo[b]quinolizine-7,10-dione as a Simple Model Compound of Saframycin A (1992)

A simple and efficient synthesis of 4-cyano-8-methoxy-9-methyl-1,3,4,6,11,11a-hexahydro-2H-benzo[b]quinolizine-7,10-dione (20a) as a simple model compound of saframycin A (1) is described starting from the corresponding lactam (16). Reduction of the lactam (16) with lithium aluminum hydride followed by sodium cyanide treatment afforded the α-amino nitrile (19) as an inseparable mixture in an excellent yield. Oxidative demethylation of compound (19) with 10N HNO 3 gave the title compound (20a) and its C-4 epimer (20b). The structure of 20a was confirmed by 1 H nmr and 13 C nmr spectroscopic analysis
“Multipulse” Electrochemical/Chemical Synthesis of CdS/S Core/Shell Nanocrystals Exhibiting Ultranarrow Photoluminescence Emission Lines (1999)

Ensembles of sulfur capped, cadmium sulfide nanocrystals (CdS/S NCs) which exhibit photoluminescence (PL) emission line widths of 15−35 meV at 20 K have been obtained. These CdS/S NCs were synthesized using a new variant of the electrochemical/chemical (E/C) method: Cadmium (Cdo) NCs were first electrodeposited from an aqueous Cd2+ plating solution using a train of 8−10 ms plating pulses separated by ≈1.0 s “mixing” segments at the open circuit potential. These Cdo nanoparticles were then oxidized to Cd(OH)2, and CdS/S NCs were obtained by exposure of Cd(OH)2 nanoparticles to H2S at 300 °C. Ensembles of 200 000−400 000 CdS/S NCs prepared using this “multipulse” technique exhibited PL emission lines narrower than 35 meV. CdS/S NCs were also synthesized using the same E/C method except that a single Cdo plating pulse was employed, and these CdS/S NCs exhibited PL emission line widths of 125−180 meV. TEM analysis of Cd(OH)2 precursor particles confirms that the narrower lines obtained using multipulse Cdo electrodeposition result from improved size monodispersity of the CdS core, which is attributed to the diffusional decoupling of Cdo nanoparticles during growth.
Annatto prevents retinal degeneration induced by endoplasmic reticulum stress in vitro and in vivo (2012)

A-ext., its main component bixin, and bixin derivatives may therefore be useful for preventive and therapeutic treatment of retinal-related diseases.
Embedded memory design using memristor: Retention time versus write energy (2013)

Memristor is a good candidate for replacing CMOS-based flash and DRAM due to its superior scalability, low read energy and non-volatility characteristics. Relatively longer write time and high write energy are the main obstacles in the way of adapting memristor for on-chip memory to replace SRAM. The off-to-on resistance ratio for memristor are in excess of 1000x which provides adequate noise margin to separate the on versus off states. In this paper, we explore the design space of memristor by studying retention time, write time, write energy, and noise margin ratio. Our results show that by reducing target retention time both write time and energy can be reduced to a competitive level. In addition, reducing the noise margin reduces both the write time and energy. Our study shows that by reducing retention time to about 4 years write energy can be reduced to 0.1pJ. Compared to SRAM power consumed is 88.6% less for 128KB memory array. Since on-chip memory is not expected to retain data for long time (Jog et al., 2011), our proposed approach can be used in many energy critical applications and is able to reduce system complexity especially power management unit.
N-Imidazolebenzyl-histidine Substitution in Somatostatin and in Its Octapeptide Analogue Modulates Receptor Selectivity and Function (2011)

Despite 3 decades of focused chemical, biological, structural, and clinical developments, unusual properties of somatostatin (SRIF, 1) analogues are still being uncovered. Here we report the unexpected functional properties of 1 and the octapeptide cyclo(3-14)H-Cys-Phe-Phe-Trp(8)-Lys-Thr-Phe-Cys-OH (somatostatin numbering; OLT-8, 9) substituted by imBzl-l- or -d-His at position 8. These analogues were tested for their binding affinity to the five human somatostatin receptors (sst(1-5)), as well as for their functional properties (or functionalities) in an sst(3) internalization assay and in an sst(3) luciferase reporter gene assay. While substitution of Trp(8) in somatostatin by imBzl-l- or -d-His(8) results in sst(3) selectivity, substitution of Trp(8) in the octapeptide 9 by imBzl-l- or -d-His(8) results in loss of binding affinity for sst(1,2,4,5) and a radical functional switch from agonist to antagonist.
ChemInform Abstract: Applications of Functionalized Transition Metal Complexes in Photonic and Optoelectronic Devices (1999)

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.
Admittance Selection Conditions for Frictionless Force-Guided Assembly of Polyhedral Parts in Two Single-Point Principal Contacts (2008)

The admittance of a manipulator can be used to improve robotic assembly. If properly selected, the admittance will regulate a contact force and use it to guide the parts to proper positioning. In previous work, procedures for selecting the appropriate admittance for single principal contact (PC) cases were identified. This paper extends this research for some of the two PC cases-those for which each contact occurs at a single point. The conditions obtained ensure that the motion that results from frictionless contact always instantaneously reduces part misalignment. We show that, for bounded misalignments, if an admittance satisfies the misalignment-reducing conditions at a finite number of contact configurations, then the admittance will also satisfy the conditions at all intermediate configurations.
Intel® Threading Building Block (Intel® TBB) flow graph as a software infrastructure layer for OpenCL™-based computations (2016)

Modern computing systems are becoming heterogeneous with a variety of programmable units: CPU, GPU, FPGA, domain-specific accelerators, etc. OpenCL™ API is a cross-platform programming model for a wide range of computing devices, but using the language in a complex heterogenous system remains a challenge. Intel® Threading Building Blocks (Intel® TBB) is a widely used C++ library for shared-memory parallel programming that provides the flow graph functionality to express unstructured parallelism and asynchronous computations. Our presentation shows how OpenCL and Intel TBB flow graph can be used in conjunction to simplify programming for complex heterogeneous systems.
Synthesis of Benzo[d]imidazo[2,1-b]thiazole-Propenone Conjugates as Cytotoxic and Apoptotic Inducing Agents (2018)

The encouraging biological profile exhibited by these 3-arylaminopropenone 2-aryl linked benzo[d]imidazo[2,1-b]thiazole conjugates demonstrate that they have the potential to be developed as a lead by further structural modifications to obtain potential chemotherapeutic agents that are likely to target the HeLa cancer cells.
Adaptive Pulse Width Control for Precise Positioning under Influence of Stiction and Coulomb Friction (1987)

The conventional linear digital control fails to provide precise positioning of a control object under the influence of static friction, Coulomb friction and backlash. This paper presents an adaptive pulse width control (PWC) scheme. This scheme is developed based on the relationship between the displacement of a control object due to a single pulse input and the pulse width. The coefficient appearing in this relationship is estimated by a parameter adaptation algorithm. Sufficient conditions for asymtotic stability of this adaptive scheme is developed using Popov hyperstability theorem. This adaptive PWC is tested on a laboratory positioning table and is shown to be effective.
Development of a DNA probe from the deoxyribonucleotide sequence of a 3-N-aminoglycoside acetyltransferase [AAC(3)-I] resistance gene (1989)

The aacC1 gene encoding the 3-N-aminoglycoside acetyltransferase [AAC(3)-I] was cloned from enteric plasmid pJR88, and its deoxyribonucleotide sequence was determined. Significant nucleotide homology was noted in the region extending from the proposed -35 sequences through the first 59 base pairs of the aacC1 gene open reading frame (ORF) and the upstream flanking regions and ORFs of several other antibiotic resistance genes. Sequences were noted to be homologous with the 6'-N-aminoglycoside acetyltransferase [AAC(6')-I], 2''-O-aminoglycoside adenylyltransferase [AAD(2'')], and 3''-O-aminoglycoside adenylyltransferase [AAD(3'')] resistance genes; the OXA-1, OXA-2, and PSE-2 beta-lactamase genes; and several dihydrofolate reductase genes. Small regions of homology were noted in the 3'-flanking regions of these resistance genes as well. A DNA probe for the aacC1 gene was selected from the nucleotide sequence information and was tested against a series of genetically and enzymatically defined strains. The probe, which proved specific for the aacC1 gene, was then tested against a series of 58 gentamicin-susceptible and 219 gentamicin-resistant gram-negative bacilli isolated from patients at the Seattle Veterans Administration Medical Center. Only six clinical isolates were noted to carry the aacC1 gene. Each was resistant to gentamicin but susceptible to kanamycin, tobramycin, and amikacin. The presence of homologous regions of DNA at both the 3' and 5' ends of the aacC1 gene reinforces the importance of choosing probes from within the ORFs of genes and of avoiding flanking sequences. When the homology with other sequences extends into the ORF, as it does with the aacC1 gene, development of a specific probe may require determination of the nucleotide sequence.
Imaging of tissue reperfusion by dynamic optical tomography (2000)

We have explored the real-time response of the forearm vasculature to partial obstruction and subsequent restoration of blood flow. Dual–wavelength measurements were collected at 2 Hz, and the resulting image series (120 images per wavelength) was analyzed using appropriate time-series analysis methods. The temporal properties of the absorption coefficients' spatial distributions gave clear evidence of coordinated reperfusion among well-separated zones of peripheral tissue.
Modeling of non-Lambertian sources in lighting applications (2007)

The photometric modeling of LEDs as generalized Lambertian sources (GL-Sources) is discussed. Non-Lambertian LED sources, with axial symmetry, have important real-world applications in general lighting. In particular, so-called generalized Lambertian sources, following a cosine to the nth power distribution (n&ge;1), can be used to describe the luminous output profiles from solid-state lighting devices like LEDs. For such sources, the knowledge of total power (in Lumens [Lms]), the knowledge of the output angular characteristics, as well as source area, is sufficient information to determine all other critical photometric quantities such as: maximum radiant intensity (in Candelas [Cd = Lm/Sr]) and maximum luminance (in nits [nts = Cd/m<sup>2</sup>]), as well as illuminance (in lux [lx = Lm/m<sup>2</sup>]). In this paper, we analyze this approach to modeling LEDs in terms of its applicability to real sources.
Reduced DCT approximations for low bit rate coding (2003)

Transform approximations are explored for speeding up the software compression of images and video. Faster approximations are used to replace the regular DCT whenever only a few DCT coefficients are actually encoded. In one instance, we employ a data analyzer to drive a bank of coders by switching to the fastest coder depending on the image contents or on the output demand. The compression speed is adapted to the image contents in order to homogenize the data production rate, i.e. smoother areas produce fewer bits than detailed ones, but faster. The approximations are applicable to high compression (or constant output rate) environments and where lower complexity is required.
Nonsense-mediated decay as a terminating mechanism for antisense oligonucleotides (2014)

Antisense oligonucleotides (ASOs) are synthetic oligonucleotides that alter expression of disease-associated transcripts via Watson-Crick hybridization. ASOs that function through RNase H or the RNA-induced silencing complex (RISC) result in enzymatic degradation of target RNA. ASOs designed to sterically block access of proteins to the RNA modulate mRNA metabolism but do not typically cause degradation. Here, we rationally design steric blocking ASOs to promote mRNA reduction and characterize the terminating mechanism. Transfection of ASOs complementary to constitutive exons in STAT3 and Sod1 results in greater than 70% reduction of mRNA and protein. The ASOs promote aberrant exon skipping and generation of premature termination codon (PTC)-containing mRNAs. We inhibit the nonsense-mediated mRNA decay (NMD) pathway and show that the PTC-containing mRNAs are recognized by the UPF1 ATPase, cleaved by the SMG6 endonuclease and degraded by the XRN1 cytoplasmic exonuclease. NMD surveillance, however, does not entirely explain the mechanism of decreased STAT3 expression. In addition to exon skipping, ASO treatment causes intron retention and reduction of chromatin-associated STAT3 mRNA. The application of steric blocking ASOs to promote RNA degradation allows one to explore more nucleotide modifications than tolerated by RNase H or RISC-dependent ASOs, with the goal of improving ASO drug properties.
Bactericidal antibody recognition of a PorA epitope of Neisseria meningitidis: Crystal structure of a Fab fragment in complex with a fluorescein‐conjugated peptide (1997)

Class 1 outer membrane protein PorA of Neisseria meningitidis is a vaccine candidate against bacterial meningitis. Antibodies against PorA are able to induce complement-mediated bacterial killing and thereby play an important role in protection against meningococcal disease. Bactericidal antibodies are all directed against variable regions VR1 and VR2 of the PorA sequence, corresponding to loops 1 and 4 of a two-dimensional topology model of the porin with eight extracellular loops. We have determined the crystal structure to 2.6 A resolution of the Fab fragment of bactericidal antibody MN12H2 against meningococcal PorA in complex with a linear fluorescein-conjugated peptide TKDTNNNL derived from the VR2 sequence of sero-subtype P1.7,16 (residues 180-187) from meningococcal strain H44/76. The peptide folds deeply into the binding cavity of the Fab molecule in a type I beta-turn, with the minimal P1.16 epitope DTNNN virtually completely buried. The structure reveals H-bonds and van der Waals interactions with all minimal epitope residues and one essential salt bridge between Asp-182 of the peptide and His-31 of the MN12H2 light chain. The key components of the recognition of PorA epitope P1.16 by bactericidal antibody MN12H2 correspond well with available thermodynamic data from binding studies. Furthermore, they indicate the structural basis of an increased endemic incidence of infection by group B meningococci in England and Wales since 1981 associated with the occurrence of an Neisseria meningitidis escape mutant (strain-MC58). The observed three-dimensional conformation of the peptide provides a rationale for the development of a synthetic peptide vaccine against meningococcal disease.
Predictors of Long-term Muscle Weakness in Survivors of Covid-19 Acute Respiratory Distress Syndrome (2022)

Abstract Background Long-term weakness is common in survivors of COVID-19–associated acute respiratory distress syndrome (CARDS). We assessed the predictors of muscle weakness in patients evaluated at 3, 6, and 12 months after intensive care unit discharge with in-person visits. Methods Muscle strength was measured by isometric maximal voluntary contraction (MVC) of the tibialis anterior muscle. Candidate predictors of muscle weakness were follow-up time, sex, age, mechanical ventilation duration, use of steroids in the intensive care unit, compound muscle action potential of the tibialis anterior muscle (CMAP-TA-S100), severe fatigue, depression and anxiety, post-traumatic stress disorder, cognitive assessment, and body mass index. We also compared the clinical tools currently available for the evaluation of muscle strength (handgrip strength, Medical Research Council sum score) and electrical neuromuscular function (simplified peroneal nerve test [PENT]) with more objective and robust measures of force (MVC) and electrophysiological evaluation of the neuromuscular function of the tibialis anterior muscle (CMAP-TA-S100) for its essential role in ankle control. Results MVC improved at 12 months compared with 3 months. Sex ( P &lt; 0.001), age ( P = 0.012), duration of mechanical ventilation ( P = 0.044), and CMAP-TA-S100 ( P &lt; 0.001) were independent predictors of MVC. MVC was strongly associated with handgrip strength, whereas CMAP-TA-S100 was strongly associated with PENT. Conclusions Female sex, increasing age, increased duration of mechanical ventilation, and electrical neuromuscular abnormalities are independently associated with reduced MVC and can be used to predict the risk of long-term muscle weakness in CARDS survivors. Trial registration : The present study was registered at ClinicalTrial.gov (NCT: ​​NCT04608994). Registered on October 30, 2020. Retrospectively registered.
Prestressed CFRP Strips with Gradient Anchorage for Structural Concrete Retrofitting: Experiments and Numerical Modeling (2014)

This paper presents a study on the load carrying capacity of reinforced concrete (RC) beams strengthened with externally bonded (EB) carbon fiber reinforced polymer (CFRP) strips prestressed up to 0.6% in strain. At the strip ends, the innovative gradient anchorage is used instead of conventional mechanical fasteners. This method, based on the epoxy resin’s ability to rapidly cure under high temperatures, foresees a sector-wise heating followed by a gradual decrease of the initial prestress force towards the strip ends. The experimental investigation shows a promising structural behavior, resulting in high strip tensile strains, eventually almost reaching tensile failure of the composite strip. Additionally, ductility when considering deflection at steel yielding and at ultimate load is satisfying, too. From a practical point of view, it is demonstrated that premature strip grinding in the anchorage zone is not beneficial. In addition, a non-commercial 1D finite element code has been enlarged to an EB reinforcement with prestressed composite strips. A bilinear bond stress-slip relation obtained in earlier investigations is introduced as an additional failure criterion to the code. The numerical code is able to almost perfectly predict the overall structural behavior. Furthermore, the calculations are used for comparison purposes between an initially unstressed and a prestressed externally bonded composite reinforcement. The increase in cracking and yielding load, as well as differences in structural stiffness are apparent.
Anasazi software for the numerical solution of large-scale eigenvalue problems (2009)

Anasazi is a package within the Trilinos software project that provides a framework for the iterative, numerical solution of large-scale eigenvalue problems. Anasazi is written in ANSI C++ and exploits modern software paradigms to enable the research and development of eigensolver algorithms. Furthermore, Anasazi provides implementations for some of the most recent eigensolver methods. The purpose of our article is to describe the design and development of the Anasazi framework. A performance comparison of Anasazi and the popular FORTRAN 77 code ARPACK is given.
Eyes-Free Art (2017)

Engagement in the arts1 is an important component of participation in cultural activities, but remains a largely unaddressed challenge for people with sensory disabilities. Visual arts are generally inaccessible to people with visual impairments due to their inherently visual nature. To address this, we present Eyes-Free Art, a design probe to explore the use of proxemic audio for interactive sonic experiences with 2D art work. The proxemic audio interface allows a user to move closer and further away from a painting to experience background music, a novel sonification, sound effects, and a detailed verbal description. We conducted a lab study by creating interpretations of five paintings with 13 people with visual impairments and found that participants enjoyed interacting with the artwork. We then created a live installation with a visually impaired artist to iterate on this concept to account for multiple users and paintings. We learned that a proxemic audio interface allows for people to feel immersed in the artwork. Proxemic audio interfaces are similar to visual because they increase in detail with closer proximity, but are different because they need a descriptive verbal overview to give context. We present future research directions in the space of proxemic audio interactions.