gebhart/patrepeval huggingface dataset:
Study on the regulation mechanism of long noncoding RNA on dentin matrix protein 1 (2017)

Objective
To investigate the regulation mechanism of long noncoding RNA (lncRNA) on dentin matrix protein 1 (DMP1) .


Methods
The lipidosome infection protocol was used to transfect the lncRNA32865 plasmid and lncRNA32865 siRNA into the MC3T3-E1 cells. Using the methods of Western blot and RT-qPCR to detect the expression tendency of lncRNA32865 and DMP1 after transfection. The method of luciferase reporter gene was used to examine the DMP1 promoter activity and the effect of lncRNA32865 on it. For all statistical analyses, P<0.05 was considered statistically significant.


Results
Over expression of lncRNA32865 led to the decrease of DMP1 expression (0.236 ± 0.022) , there was a statistically significant difference between the groups (t= 59.816, P<0.001) . DMP1 expression was increased (1.994 ± 0.133) caused by inhibiting lncRNA32865 gene, there was a statistically significant difference between the groups (t=-12.989, P= 0.006) . The luciferase reporter gene analysis showed that DMP1 promoter was active (t=-77.360, P<0.001) . The Luciferase expression level of DMP1 promotor and lncRNA32865 plasmid cotransfection (3.877 ± 0.120) was lower than the control group (6.018 ± 0.105) with statistically significant difference (t= 50.713, P<0.001) . The Luciferase expression level of DMP1 promotor and lncRNA32865 siRNA cotransfection was increased (17.296 ± 0.674) with statistically significant difference (t=-26.612, P= 0.001) .


Conclusions
Western blot and RT-qPCR analyses demonstrated that the expression tendency of lncRNA32865 and DMP1 is opposite. LncRNA32865 regulates the expression of DMP1 gene by binding to the DMP1 promoter.


Key words: 
Gene expression regulation; RNA untranslated; Long chain; Dentin matrix proteins
Test-point insertion efficiency analysis for LBIST applications (2016)

Test points are inserted into integrated circuits to increase fault coverage especially in logic built-in self-test (LBIST) schemes. Commercial tools have been developed over the past decade to insert test points in circuits under test, but they are often inefficient and incur unacceptably large area overhead. Our analysis shows that many test points have little or no impact on test coverage. Therefore, we propose a framework to evaluate test point's impact on a design and rank them based on their efficiency, and to obtain an optimal configuration of the most efficient test points accurately and rapidly. Within this framework, we have two metrics; namely the efficient test point insertion (ETPI) metric and the test point removal estimation (TPRE) metric. The ETPI metric is developed to remove the most inefficient test points inserted in the circuits by the commercial tools, thereby minimizing area penalty with very limited test coverage loss. The TPRE metric is introduced to quickly select the appropriate test point removal scheme. Since TPRE can estimate area overhead and test coverage for designs with different percentage of test points removed without the actual insertion of test points and without the need for lengthy circuit simulation, large amount of processing time is saved especially for large circuits. Experimental results indicate that ETPI can reduce area overhead reduction by up to 95.00% with test coverage reduction as low as 0.57%. In addition, results by applying the TPRE metric indicate that the difference between estimation and actual simulation/synthesis results for area overhead is less than 0.10% for most cases, and the difference between them for test coverage is less than 1.00% for most cases.
Prospects for Xenotransplantation of the Liver (2000)

A severe shortage of human livers for allotransplantation has sparked interest in the potential use of animals in lieu of humans as a source of livers, that is xenotransplantation. Xenotransplantation might also provide a means by which recurrence of hepatitis might be averted. Among the types of xenografts that might be undertaken are extracorporeal "xenoperfusion" or perfusion of devices containing xenogeneic hepatocytes, auxiliary liver transplants, bridge liver transplants, and hepatocyte transplants. The hurdles to xenotransplantation of the liver include the immune response of the recipient against the graft, incompatibility of the graft with complex physiologic and biochemical systems of the recipient, and the possibility of transferring infectious agent from the graft to the recipient. Recent progress in characterizing and overcoming these hurdles has encouraged some optimism regarding the ultimate application of xenotransplantation for the treatment of human disease.
In Situ--Formed Open-Pore Polyurethane as Chromatography Supports (1970)

Journal Article In Situ—Formed Open-Pore Polyurethane as Chromatography Supports Get access William D. Ross, William D. Ross Search for other works by this author on: Oxford Academic PubMed Google Scholar Robert T. Jefferson Robert T. Jefferson Monsanto Research Corporation, Dayton, Ohio 45407 Search for other works by this author on: Oxford Academic PubMed Google Scholar Journal of Chromatographic Science, Volume 8, Issue 7, July 1970, Pages 386–389, https://doi.org/10.1093/chromsci/8.7.386 Published: 01 July 1970 Article history Received: 22 April 1970 Published: 01 July 1970
Barrel Worm-Shaped Tool with Conjugate Cutting-Edge Profile Generated from Tooth Profile of Internal Gear. (1996)

In this investigation, the author proposes a calculation method of the cutting-edge profile of a barrel worm-shaped tool conjugate to the tooth profile of an internal gear, without considering an equivalent pinion meshed with it. The theory of gearing proposed by Litvin et al. is also utilized for calculation of contact points between a gear and a tool. It is examined whether or not this barrel worm-shaped tool can exactly finish an internal gear with a number of teeth and helix angle different from those used for design of the tool. It is shown that the tool is in point contact with the internal gear generated by it, and the tooth profile of the internal gear is finished by regular points of the cutting-edge profile of the barrel worm-shaped tool. Furthermore, it is confirmed that the regular generating point between the internal gear and the barrel worm-shaped tool is identical with that between the internal gear and a cylindrical worm-shaped tool.
Remote Testimony: How to Trust an Autonomous Vehicle (2016)

With the advance of Car2X communication models, vehicles become a virtual part of intelligent traffic infrastructures, requiring remote interaction of safety-critical components. The availability of such an integrated system could provide high advantage for the mobility of persons and goods. In this scenario, one of the main concerns with intelligent cars and their network interconnectivity is the susceptibility to cyber-physical attacks. We present a novel concept to establish trust, reliability and safety in intelligent vehicles. Our idea allows a peer in the network to receive a testimony that a vehicle's safety-critical components have not been compromised and as a mater of fact communicate reliable and trustful data. We describe a remote testimony architecture and demonstrate its immunity in the crucial case of an adversary having full control over the vehicle's central units. Our architecture refrains from the heavy and expensive machinery of trusted computing solutions. It makes minimal trust assumptions on the underlying hardware and requires from sensors tamper resistance and provision of a digital signature.
Skew Estimation and Correction of Text Using Bounding Box (2008)

This paper, in addition to reporting some existing techniques, proposes a new technique for skew correction. It includes a novel document skew detection algorithm based on bounding box technique. The algorithm works quite efficiently for detecting the skew and then correcting it. The method has been experimented on various text documents and very promising results have been achieved given more than 97% accuracy. A comparative study has been reported to provide a detailed analysis of the proposed method together with some other existing methods in the literature.
Attenuated traumatic axonal injury and improved functional outcome after traumatic brain injury in mice lacking<i>Sarm1</i> (2016)

Axonal degeneration is a critical, early event in many acute and chronic neurological disorders. It has been consistently observed after traumatic brain injury, but whether axon degeneration is a driver of traumatic brain injury remains unclear. Molecular pathways underlying the pathology of traumatic brain injury have not been defined, and there is no efficacious treatment for traumatic brain injury. Here we show that mice lacking the mouse Toll receptor adaptor Sarm1 (sterile α/Armadillo/Toll-Interleukin receptor homology domain protein) gene, a key mediator of Wallerian degeneration, demonstrate multiple improved traumatic brain injury-associated phenotypes after injury in a closed-head mild traumatic brain injury model. Sarm1(-/-) mice developed fewer β-amyloid precursor protein aggregates in axons of the corpus callosum after traumatic brain injury as compared to Sarm1(+/+) mice. Furthermore, mice lacking Sarm1 had reduced plasma concentrations of the phophorylated axonal neurofilament subunit H, indicating that axonal integrity is maintained after traumatic brain injury. Strikingly, whereas wild-type mice exibited a number of behavioural deficits after traumatic brain injury, we observed a strong, early preservation of neurological function in Sarm1(-/-) animals. Finally, using in vivo proton magnetic resonance spectroscopy we found tissue signatures consistent with substantially preserved neuronal energy metabolism in Sarm1(-/-) mice compared to controls immediately following traumatic brain injury. Our results indicate that the SARM1-mediated prodegenerative pathway promotes pathogenesis in traumatic brain injury and suggest that anti-SARM1 therapeutics are a viable approach for preserving neurological function after traumatic brain injury.
Francisella tularensis infection in captive, wild caught prairie dogs. (1986)

An adult, wild caught prairie dog was found dehydrated and ataxic, with severe diarrhea. Gross necropsy lesions consisted of scattered pinpoint white foci throughout the liver and spleen. A massive, purulent bronchopneumonia was found also. Direct fluorescent antibody tests and culture of spleen and liver samples confirmed a diagnosis of tularemia.
Computational analysis of a holographic optical head configuration (1992)

The best configuration for holographic optical heads for compact disk players is discussed from the viewpoint of considering the misalignment allowance for head components. Focus-error and trackingerror signals of the proposed head configurations are simulated with a ray-tracing method and by using optical cross transfer function theory. The misalignment allowance for the head components, such as the objective lens, the holographic optical element, and the photodetector, are calculated for several configurations. The misalignment allowance is found to increase greatly when the holographic optical element is placed in close proximity to the objective lens and then when this assembly is moved as a unit.
Effect of the adenosine antagonist 8‐phenyltheophylline on glycerol‐induced acute renal failure in the rat (1986)

8-Phenyltheophylline (8-PT)(10 mg kg-1) or its vehicle(1 ml kg-1) were administered intravenously or intraperitoneally twice daily over 48 h to rats with acute renal failure (ARF) induced by intramuscular (i.m.) injection of glycerol. Rats treated with 8-PT i.v. had significantly lower plasma urea and creatinine levels at 24 and 48 h compared to untreated animals. The vehicle also reduced plasma urea and creatinine when compared to untreated controls. However, plasma urea levels in 8-PT-treated rats were significantly lower than in vehicle-treated animals at 24 and 48 h after both i.v. and i.p. administration. Plasma creatinine concentrations also tended to be lower in the 8-PT-treated group. [3H]-inulin clearance at 48 h after i.m. glycerol was significantly greater in rats dosed i.p. with 8-PT compared to either untreated or vehicle treated rats. Examination of kidneys taken from rats 48 h after i.m. glycerol showed that 8-PT treatment significantly reduced renal damage and kidney weight compared to the untreated or vehicle-treated groups. In a 7 day study all the rats which received 8-PT i.p. survived whilst in the vehicle and untreated groups the mortality rates were 12 and 21% respectively. In a separate series of experiments 8-PT (10 mg kg-1, i.v. or i.p.) was found to antagonize adenosine-induced bradycardia in conscious rats for up to 5 h. There is no clear explanation for the partial protection afforded by the vehicle but it may be related to either its alkalinity or an osmotic effect produced by the polyethylene glycol component. 9 The protective effect of 8-PT in rats with ARF was probably the result of adenosine antagonism.
Fibrous Monolithic Ceramics: I, Fabrication, Microstructure, and Indentation Behavior (1993)

Monolithic ceramics have been fabricated from coated green fibers to create fibrous microstructures. The fibrous monoliths consist of high aspect ratio polycrystalline regions (cells) of a primary phase regions (cell boundaries) designed to improve fracture resistance. The cells are the remnants of the green fiber which consists of ceramic powder and a polymer binder. The coating applied on the green fiber forms the cell boundaries. Fabrication and microstructure are described for fibrous monoliths in the SiC/graphite, silicon nitride/BN, alumina/alumina–zirconia, alumina/aluminum titanate, alumina/nickel and Ce‐TZP/alumina–Ce–zirconia systems. The SiC/graphite fibrous monolith displays noncatastrophic failure in flexure, with shear delamination along the weak graphite layers. Indentations in SiC/graphite cause cells to spall, with crack arrest and extrusion of graphite from the cell boundaries. Crack deflection and spalling of cells are also observed in alumina/alumina–zirconia fibrous monoliths. In the Ce‐TZP/alumina system, transformed regions around indentations are significantly modified by the alumina‐containing cell boundaries.
Structural Characterization of the Pre-Amyloid Oligomers of β-2-Microglobulin Using Covalent Labeling and Mass Spectrometry (2022)

The initial steps involved in the assembly of normally soluble proteins into amyloid fibrils remain unclear, yet over 20 human diseases are associated with proteins that aggregate in this manner. Protein surface modification is a potential means of mapping the interaction sites in early oligomers that precede amyloid formation. This dissertation focuses on the use of covalent labeling combined with mass spectrometry to elucidate the structural features of Cu(II)-induced β-2-microglobulin (β2m) amyloid formation. An improved covalent modification and MS-based approach for protein surface mapping has been developed to address the need for a reliable approach that ensures protein structural integrity during labeling experiments and provides readily detectable modifications. This approach involves measuring the kinetics of the modification reactions and allows any local perturbations caused by the covalent label to be readily identified and avoided. This MS-based method has been used to study human β2m, a monomeric protein that has been shown to aggregate into amyloid fibrils in dialysis patients leading to dialysis-related amyloidosis. Under conditions that lead to β2m amyloid formation, reactions of β2m with three complementary covalent labels have been used to identify the Cu(II) binding site, metal-induced conformational changes, and the oligomeric interfaces. Results confirm that Cu(II) binds to His31 and the N-terminal amine. Binding to these residues causes several structural changes in the N-terminal region and ABED β-sheet which likely enables formation of oligomeric intermediates. The covalent labeling data indicate that the pre-amyloid β2m dimer has an interface that involves the antiparallel arrangement of ABED sheets from two monomers. Moreover, our covalent labeling data allowed us to develop a model for the tetramer in which the interface is mediated by interactions between D strands of one dimer unit and the G strands of another dimer unit. Lastly, the selective covalent modification approach has been used to delineate the structural changes in β2m after interaction with Cu(II), Ni(II), and Zn(II) and their effect on its aggregation. Our covalent labeling data indicates that the unique effect of Cu(II) appears to be caused by the site at which the metal binds the protein and the conformational changes it induces.
PRESERVATION OF CANINE PANCREAS FOR 96 HOURS BY A MODIFIED TWO-LAYER (UW SOLUTION/ PERFLUOROCHEMICAL) COLD STORAGE METHOD (1991)

FUJINO, YASUHIRO; KURODA, YOSHIKAZU; SUZUKI, YASUYUKI; FUJIWARA, HIDETOSHI; KAWAMURA, TAKASHI; MORITA, AKIO; KU, YONSON; SAITOH, YOICHI Author Information
Movement Variability and the Use of Nonlinear Tools: Principles to Guide Physical Therapist Practice (2009)

Fields studying movement generation, including robotics, psychology, cognitive science, and neuroscience, utilize concepts and tools related to the pervasiveness of variability in biological systems. The concepts of variability and complexity and the nonlinear tools used to measure these concepts open new vistas for physical therapist practice and research in movement dysfunction of all types. Because mounting evidence supports the necessity of variability for health and functional movement, this perspective article argues for changes in the way therapists view variability, both in theory and in action. By providing clinical examples, as well as applying existing knowledge about complex systems, the aim of this article is to create a springboard for new directions in physical therapist research and practice.
Defect Assisted Carrier Multiplication in Amorphous Silicon (2020)

Recent studies show disordered materials such as amorphous silicon (a-Si), in spite of their low mobility, can efficiently amplify photocurrent via carrier multiplication process. Detectors with a thin (~40nm) a-Si multiplication layer has demonstrated single photon sensitivity at high speed under room temperature. It is believed that the abundance of bandtail states that cause low mobility of the amorphous materials actually contribute to the detector's superior performance because carrier impact ionization involving these states, which can be modeled by donor-acceptor pairs (DAPs), relax the k-selection rule of the many-body carrier multiplication process. Our paper presents a theoretical framework to calculate the carrier multiplication process in a-Si or other disordered materials involving DAPs. Our analysis also establishes the relations between detector characteristics and key parameters such as the density of band tail states, layer thickness, and applied electric field. DAP assisted carrier multiplication rate is computed first. Carrier multiplication coefficients for electrons and holes under given applied field are then calculated using a trial distribution function that satisfies both the continuity equation and the energy balance equation. Our analysis shows that thinner a-Si gives rise to higher multiplication efficiency than thicker a-Si because of its higher carrier kinetic energy when the layer thickness is shorter than the length of energy relaxation by phonon scattering. Using the calculated carrier multiplication coefficients, voltage dependent gain of the device is computed and the results agree well with the measured results of a-Si cycling excitation process (CEP) detectors.
CSN5 specifically interacts with CDK2 and controls senescence in a cytoplasmic cyclin E-mediated manner (2013)

The fifth component (CSN5) of the mammalian COP9 signalosome complex plays an essential role in cell proliferation and senescence, but its molecular mediator remains to be determined. Here, we searched for interactors among various cell cycle regulators, and found that CSN5, but not the CSN holo-complex, bound to CDK2 in vivo and in vitro. Depletion of CSN5 enhanced phosphorylation of CDK2 by Akt, resulting in cytoplasmic accumulation of CDK2 together with cyclin E in a leptomycin B-resistant manner, and impaired phosphorylation of the retinoblastoma protein. Additional knockdown of CDK2, which reduced the expression of cyclin E to the normal level, did not restore cell proliferation, but significantly suppressed senescence in CSN5-depleted cells. Enforced expression of cytoplasmic cyclin E induced premature senescence in immortalized cell lines. These results show that CSN5 functions through CDK2 to control premature senescence in a novel way, depending on cyclin E in the cytoplasm.
Phosphate Bonding on Noncrystalline Al/Fe-Hydroxide Coprecipitates (2011)

Poorly crystalline minerals have high sorption capacities for environmentally important chemical species, but molecular-level mechanisms of sorption on complex mineral assemblages remain largely unknown. We determined the distribution of orthophosphate (PO(4)) bonding between Al and Fe in relation to structural properties of Al/Fe-hydroxide coprecipitates. Phosphate was sorbed at concentrations between 0.042 and 0.162 mol P mol(-1) Al+Fe on coprecipitates containing 0, 20, 50, 75, or 100 mol % of metal as Al. Phosphorus XANES analyses showed preferential bonding of PO(4) for Al on coprecipitates with 20 and 50 mol % Al, and no preference for either metal at 75 mol % Al, consistent with X-ray photoelectron spectroscopy (XPS) analyses of near-surface metal distributions. Structural ordering and the Fe-hydroxide domain size in coprecipitates decreased with increasing Al proportion, as shown by X-ray diffraction (XRD) and Fe EXAFS analyses. Structural interactions in coprecipitates imparted unique PO(4) sorption properties compared with isolated Al- or Fe-hydroxide.
ChemInform Abstract: Serendipitous Synthesis of a Cyclopropane‐Containing Taxol Analog (I) via Anchimeric Participation of an Unactivated Angular Methyl Group. (1993)

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.
Polarisation-insensitive widely tunable wavelengthconverterusing a single semiconductor optical amplifier (2000)

A polarisation-insensitive wavelength converter using four-wave mixing (FWM) in a semiconductor optical amplifier (SOA) has been realised. The converter uses a novel polarisation-diversity scheme which requires only one SOA. Polarisation-insensitive wavelength conversion (< 1 dB polarisation sensitivity) and a near constant (< 3 dB variation) conversion efficiency was achieved over a range of 26 nm.