gebhart/patrepeval huggingface dataset:
Rapid mapping of digital integrated circuit logic gates via multi-spectral backside imaging (2016)

Modern semiconductor integrated circuits are increasingly fabricated at untrusted third party foundries. There now exist myriad security threats of malicious tampering at the hardware level and hence a clear and pressing need for new tools that enable rapid, robust and low-cost validation of circuit layouts. Optical backside imaging offers an attractive platform, but its limited resolution and throughput cannot cope with the nanoscale sizes of modern circuitry and the need to image over a large area. We propose and demonstrate a multi-spectral imaging approach to overcome these obstacles by identifying key circuit elements on the basis of their spectral response. This obviates the need to directly image the nanoscale components that define them, thereby relaxing resolution and spatial sampling requirements by 1 and 2 - 4 orders of magnitude respectively. Our results directly address critical security needs in the integrated circuit supply chain and highlight the potential of spectroscopic techniques to address fundamental resolution obstacles caused by the need to image ever shrinking feature sizes in semiconductor integrated circuits.
Real-Time Drill Bit Wear Prediction by Combining Rock Energy and Drilling Strength Concepts (2008)

Abstract A central element to reduce drilling cost is to improve drilling operation by analyzing real-time data. Developing advanced real-time analysis tools is one way to improve the drilling operation. Two approaches which currently are used for optimizing the actual rotary drilling process are mechanical specific energy and inverted rate of penetration models. The mechanical specific energy method is defined as the work needed to destroy a given volume of the rock. It can act as a tool during the drilling operation to detect changes in drilling efficiency thus providing a method to optimize the drilling parameters to enhance instatanious rate of penetration. Rate of penetration models, on the other hand, can be used to calculate formation drillability considering the effects of drilling parameters, bits design and bit wear. Drilling optimization using rate of penetration models is done by changing the drilling parameters and/or bit design to find the optimum drilling scenario for an entire bit run. The mechanical specific energy log and the drillability ratio differ when mud weight is changed and when bits are worn. These two differences are due the fact that mechanical specific energy does not include bit wear as well as the effect of changing mud weight. By combining these methods and modifying the mechanical specific energy equations to incorporate these effects and the mechanical specific energy can be used as a real-time trending tool for bit wear estimations. In this analysis, wells from offshore Middle East and onshore North America are analyzed. The field results are very encouraging in that the bit wear for both roller cone and PDC bits can be predicted. The field validation of this new approach shows that the supplementary information on the bit wear status can in some cases benefit in the decision of when to pull the bit while it still is in the hole and thereby possibly improve overall economics of the drilling operation.
Novel analgesics and molecular rearrangements in the morphine-thebaine group. IV. Acid-catalyzed rearrangements of alcohols of the 6,14-endo-ethenotetrahydrothebaine series (1967)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTNovel analgesics and molecular rearrangements in the morphine-thebaine group. IV. Acid-catalyzed rearrangements of alcohols of the 6,14-endo-ethenotetrahydrothebaine seriesKenneth W. Bentley, Denis G. Hardy, and B. MeekCite this: J. Am. Chem. Soc. 1967, 89, 13, 3293–3303Publication Date (Print):June 1, 1967Publication History Published online1 May 2002Published inissue 1 June 1967https://pubs.acs.org/doi/10.1021/ja00989a033https://doi.org/10.1021/ja00989a033research-articleACS PublicationsRequest reuse permissionsArticle Views239Altmetric-Citations24LEARN 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
Population Pharmacokinetic Modelling of Recombinant Factor IX Fc Fusion Protein (rFIXFc) in Patients with Haemophilia B (2014)

This is the first population pharmacokinetic analysis that systematically characterized the pharmacokinetics of long-lasting rFIXFc in patients with haemophilia B. The population pharmacokinetic model for rFIXFc can be utilized to evaluate and optimize dosing regimens for the treatment of patients with haemophilia B.
<title>Overlay and lens distortion in a modified illumination stepper</title> (1994)

Optical lithography, when extended by phase shift mask technology and modified illumination techniques, is a promising technology for sub-half-micron devices. Modified illumination can improve the resolution limit and depth of focus, but the imaging profile is changed, with pattern type, direction, and density having an effect on the result. The uniformity of the illumination system also differs according to aperture type. Because lens distortion may be affected by the aerial image and structure of illumination optics, we can expect that a modified illumination system may affect lens distortion and overlay accuracy in a real process. A comparison of changes in overlay and lens distortion was done for different illumination conditions. Focus was varied for each combination. As a result, we can observe the variation of overlay error in a modified illumination system relative to the conventional system. To use modified illumination in sub-half-micron processes distortion error must be reduced.
Enzymic properties of recombinant BACE2 (2002)

BACE2 (Memapsin 1) is a membrane-bound aspartic protease that is highly homologous with BACE1 (Memapsin 2). While BACE1 processes the amyloid precursor protein (APP) at a key step in generating the beta-amyloid peptide and presumably causes Alzheimer's disease (AD), BACE2 has not been demonstrated to be directly involved in APP processing, and its physiological functions remain to be determined. In vivo, BACE2 is expressed as a precursor protein containing pre-, pro-, protease, transmembrane, and cytosolic domains/peptides. To determine the enzymatic properties of BACE2, two variants of its pro-protease domain, pro-BACE2-T1 (PB2-T1) and pro-BACE2-T2 (PB2-T2), were constructed. They have been expressed in Escherichia coli as inclusion bodies, refolded and purified. These two recombinant proteins have the same N terminus but differ at their C-terminal ends: PB2-T1 ends at Pro466, on the boundary of the postulated transmembrane domain, and PB2-T2 ends at Ser431, close to the homologous ends of other aspartic proteases such as pepsin. While PB2-T1 shares similar substrate specificities with BACE1 and other 'general' aspartic proteases, the specificity of PB2-T2 is more constrained, apparently preferring to cleave at the NH2-terminal side of paired basic residues. Unlike other 'typical' aspartic proteases, which are active only under acidic conditions, the recombinant BACE2, PB2-T1, was active at a broad pH range. In addition, pro-BACE2 can be processed at its in vivo maturation site by BACE1.
Stem Cells for Drug Screening (2011)

Current drug screening methods are insufficiently predictive of clinical toxicity and efficacy. Recent advances in stem cell technology have the potential to improve drug screening. For tests of cardiotoxicity and efficacy of cardioactive drugs, cardiomyocytes derived from human embryonic stem cells and/or human induced pluripotent stem cells, collectively termed human pluripotent stem cells (hPSCs), have been utilized as model alternatives to current drug screening platforms. In this review, we report on recent advances in the differentiation of hPSCs to cardiomyocytes and summarize the evidence for pharmacological responses in hPSC-derived cardiomyocytes.
Application of CVD graphene as transparent front electrode in Cu(In,Ga)Se<inf>2</inf> solar cell (2014)

Graphene is a promising material to be used as transparent conducting electrode (TCE) due to its high optical transmittance and conductivity. In this work, we present a novel TCE structure for the Cu(In,Ga)Se <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> (CIGS) solar cell in which a AuCl <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> doped graphene film grown by chemical vapor deposition (CVD) with a thin layer of PMMA coating was used to replace the ZnO:Al (AZO) film. The Ni/Al/Ni metal grid was directly deposited on the intrinsic high resistivity ZnO (i-ZnO) buffer layer. And large area (~ 0.5 cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> ) PMMA/graphene layer was transferred to contact both metal grid and i-ZnO. Our findings demonstrate that FF, J <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">sc</sub> and PCE will be improved when silver nanowires are present at the graphene/i-ZnO interface in the CIGS solar cell. To further increase the solar cell performance, the pattern of the metal grid was also simulated and optimized.
Alpha‐synuclein in Lewy Body Disease and Alzheimer's Disease (1999)

Alzheimer's disease (AD) and Lewy body disease (LBD) are the most common causes of dementia in the elderly population. Previous studies have shown that cognitive alterations in these disorders are associated with synaptic loss. Injury and loss of synapses might be associated with altered function of synaptic proteins. Among them, recent studies have shown that abnormal aggregation and accumulation of synaptic proteins, such as alpha-synuclein, might be associated with plaque formation in AD and Lewy body formation in LBD. Further reinforcing the hypothesis that alpha-synuclein plays a major role in the pathogenesis of these disorders, recent work has shown that mutations that alter the conformation of this molecule are associated with familial forms of Parkinson's disease. The mechanisms by which altered function or aggregation of alpha-synuclein might lead to neurodegeneration are not completely clear; however, new evidence points to a potential role for this molecule in synaptic damage and neurotoxicity via amyloid-like fibril formation and mitochondrial dysfunction. In this manuscript we review the data linking alpha-synuclein to the pathogenesis of AD and LBD.
Epithelial Cell Adhesion Molecule (KSA) Expression (2004)

EpCAM is a novel prognostic molecular marker in RCC patients, and its positive expression is an independent predictor associated with improved survival. However, high expression in morphologically normal renal tissues and minimal or absent expression in clear cell carcinomas will likely limit the utility of this epithelial marker in targeted treatments of this most common RCC type.
Expression of fibronectin receptor, integrin alpha 5 beta 1 of hepatic stellate cells in rat liver fibrosis. (2000)

These data suggest that HSCs normally express FN receptor alpha 5 beta 1. The activation of HSCs during liver fibrogenesis leads to an increase of FN, alpha 5 and beta 1 mRNA expression. The expression of FN and alpha 5 beta 1 of HSCs in vitro is up-regulated by TFG-alpha 5 beta 1. The detection of gene transcription of FN and its receptor by Northern blot analysis suggests the activation and proliferation of HSCs and thereby provides a sensitive signal of liver fibrosis.
Meeting of the minds: creating the market-based enterprise (1996)

Despite much talk of being market oriented, few companies have harnessed the full range of their capabilities to serve the customer. In fact, the traditional organization of corporate activities into separate functions with marketing controlling primary access to the customer has widened the gulf of knowledge and understanding between the enterprise and its markets, and within the firm itself. This book provides a practical blueprint for creating dynamic, market-based decision-making mechanisms that lead to competitive advantage. Drawing on his thirty years of executive experience at Eastman Kodak, Xerox, General Motors, and in the public sector, Vincent P. Barabba demonstrates that when companies use systems thinking to view customers and the market as an extension of the firm, they achieve a meeting of the minds - creating value for customer, community, and enterprise. Barabba rejects the path of organizational restructuring and instead presents a unique framework for creating unity of knowledge and purpose across functions and for linking them with the markets they serve.
Interactions between HMG boxes (2001)

Many proteins consist of subdomains that can fold and function independently. We investigate here the interaction between the two high mobility group (HMG) box subdomains of the nuclear protein rHMG1. An HMG box is a conserved amino acid sequence of approximately 80 amino acids rich in basic, aromatic and proline side chains that is active in binding DNA in a sequence or structure-specific manner. In the case of HMG1, each box can bind structural DNA substrates including four-way junctions (4WJs) and branched or kinked DNA duplexes. Since proteins containing up to six HMG boxes are known, the question arises whether linking subdomains together influences the folding or function of individual boxes. In an effort to understand interactions between individual DNA-binding domains in HMG1, we created new fusion proteins: one is an inversion of the order of the AB di-domain in HMG1 (BA); in the second, we added a third A domain C-terminal to the AB di-domain (ABA). Pairs of boxes, AB or BA, behave similarly and are functionally active. By contrast, the ABA triple subdomain construct is partially unfolded and is less active than individual boxes or di-domains. Thus, long-range inter-domain effects can influence the activity of HMG boxes.
Mutation of ribosomal protein RPS24 in Diamond-Blackfan anemia results in a ribosome biogenesis disorder (2008)

Diamond-Blackfan anemia (DBA) is a rare congenital disease affecting erythroid precursor differentiation. DBA is emerging as a paradigm for a new class of pathologies potentially linked to disorders in ribosome biogenesis. Three genes encoding ribosomal proteins have been associated to DBA: after RPS19, mutations in genes RPS24 and RPS17 were recently identified in a fraction of the patients. Here, we show that cells from patients carrying mutations in RPS24 have defective pre-rRNA maturation, as in the case of RPS19 mutations. However, in contrast to RPS19 involvement in the maturation of the internal transcribed spacer 1, RPS24 is required for processing of the 5' external transcribed spacer. Remarkably, epistasis experiments with small interfering RNAs indicate that the functions of RPS19 and RPS24 in pre-rRNA processing are connected. Resolution of the crystal structure of RPS24e from the archeon Pyroccocus abyssi reveals domains of RPS24 potentially involved in interactions with pre-ribosomes. Based on these data, we discuss the impact of RPS24 mutations and speculate that RPS19 and RPS24 cooperate at a particular stage of ribosome biogenesis connected to a cell cycle checkpoint, thus affecting differentiation of erythroid precursors as well as developmental processes.
Chemical Composition of the Essential Oil ofLippia alba(Mill.) N.E. Brown from Cuba (1996)

ABSTRACT The essential oil of Lippia alba (Mil.) N. E. Brown of Cuban origin has been analyzed by a combination of column chromatography, GC and GC/MS. Forty-two compounds were identified, of which limonene (6.50%), carvone (28.95%), piperitenone (6.35%) and β-guaiene (11.53%) were the major constituents.
Translation of Sindbis virus mRNA: analysis of sequences downstream of the initiating AUG codon that enhance translation (1996)

Alphaviruses, particularly Sinbis virus and Semliki Forest virus, are proving to be useful vectors for the expression of heterologous genes. In infected cells, these self-replicating vectors (replicons) transcribe a subgenomic mRNA that codes for a heterologous protein instead of the structural proteins. We reported recently that translation of the reporter gene lacZ is enhanced 10-fold when the coding sequences of this gene are fused downstream of and in frame with the 5' half of the capsid gene (I. Frolov and S. Schlesinger, J. Virol. 68:8111-8117, 1994). The enhancing sequences, located downstream of the AUG codon that initiates translation of the capsid protein, have a predicted hairpin structure. We have mutated this region by making changes in the codons which do not affect the protein sequence but should destabilize the putative hairpin structure. These changes caused a decrease in the accumulation of the capsid-beta-galactosidase fusion protein. When these alterations were inserted into the capsid gene in the context of the intact Sindbis virus genome, they led to a decrease in the rate of virus formation but did not affect the final yield. We also altered the original sequence to one that has 12 contiguous G.C base pairs and should form a stable hairpin. The new sequence was essentially as effective as the original had been in enhancement of translation and in the rate of virus formation. The position of the predicted hairpin structure is important for its function; an insertion of 9 nucleotides or a deletion of 9 nucleotides decreased the level of translation. The insertion of a hairpin structure at a particular location downstream of the initiating AUG appears to be a way that alphaviruses have evolved to enhance translation of their mRNA, and, as a consequence, they produce high levels of the structural proteins which are needed for virus assembly. This high level of translation requires an intracellular environment in which host cell protein synthesis is inhibited.
Efficiency and Fidelity in a Click‐Chemistry Route to Triazole Dendrimers by the Copper(I)‐Catalyzed Ligation of Azides and Alkynes (2004)

Components that click: A large number of diverse dendrimers (see scheme) was prepared in almost quantitative yield by the click-chemistry transformation described in the title. In some cases filtration or solvent extraction was the only method required for purification in this highly efficient construction of the triazole units of the dendrimers.
Polarization effect on the depth resolution of optical coherence tomography (2008)

We find for the first time that polarization mismatch of the sample and reference arms in optical-fiber-based optical coherence tomography (OCT) has critical effect on its depth resolution when the light source is partially polarized. When the polarization states of the two arms are matched, the measured point spread function (PSF) is almost identical to the theoretical prediction. When their polarization states are mismatched, the PSF can be so distorted that the depth resolution is degraded to several times the theoretical value. When we polarize the source light with a polarizer, then the degree of polarization (DOP) is unity, and the depth resolution becomes independent of the polarization mismatch. This discovery has fundamental importance for high-resolution OCT imaging of biological tissues. With DOP<1, the depth resolution can be quickly degraded by either birefringence or scattering in the sample. Adjusting polarization controllers can only improve the depth resolution at a certain depth in a sample if the polarization state of light changes along the depth. When DOP=1, uniform resolution along the depth of a sample can be achieved.
Multiple Signal Transduction Pathways Link Na+/K+-ATPase to Growth-related Genes in Cardiac Myocytes (1998)

We showed before that in neonatal rat cardiac myocytes partial inhibition of Na+/K+-ATPase by nontoxic concentrations of ouabain causes hypertrophic growth and transcriptional regulations of genes that are markers of cardiac hypertrophy. In view of the suggested roles of Ras and p42/44 mitogen-activated protein kinases (MAPKs) as key mediators of cardiac hypertrophy, the aim of this work was to explore their roles in ouabain-initiated signal pathways regulating four growth-related genes of these myocytes, i.e. those for c-Fos, skeletal alpha-actin, atrial natriuretic factor, and the alpha3-subunit of Na+/K+-ATPase. Ouabain caused rapid activations of Ras and p42/44 MAPKs; the latter was sustained longer than 90 min. Using high efficiency adenoviral-mediated expression of a dominant-negative Ras mutant, and a specific inhibitor of MAPK kinase (MEK), activation of Ras-Raf-MEK-p42/44 MAPK cascade by ouabain was shown. The effects of the mutant Ras, an inhibitor of Ras farnesylation, and the MEK inhibitor on ouabain-induced changes in mRNAs of the four genes indicated that (a) skeletal alpha-actin induction was dependent on Ras but not on p42/44 MAPKs, (b) alpha3 repression was dependent on the Ras-p42/44 MAPK cascade, and (c) induction of c-fos or atrial natriuretic factor gene occurred partly through the Ras-p42/44 MAPK cascade, and partly through pathways independent of Ras and p42/44 MAPKs. All ouabain effects required extracellular Ca2+, and were attenuated by a Ca2+/calmodulin antagonist or a protein kinase C inhibitor. The findings show that (a) signal pathways linked to sarcolemmal Na+/K+-ATPase share early segments involving Ca2+ and protein kinase C, but diverge into multiple branches only some of which involve Ras, or p42/44 MAPKs, or both; and (b) there are significant differences between this network and the related gene regulatory pathways activated by other hypertrophic stimuli, including those whose responses involve increases in intracellular free Ca2+ through different mechanisms.
Validation of Immunoglobulin G Enzyme‐Linked Immunosorbent Assay for Antibodies to Pneumococcal Surface Adhesin A in the Diagnosis of Pneumococcal Pneumonia among Adults in Kenya (2002)

Epidemiologic studies of pneumococcal pneumonia, including vaccine efficacy trials, are hampered by a lack of sensitive and specific diagnostic tests. Pneumococcal surface adhesin A (PsaA) is a genetically conserved, surface-expressed protein common to all serotypes of Streptococcus pneumoniae and is highly immunogenic. Detection of anti-PsaA immunoglobulin G by recombinant PsaA enzyme-linked immunosorbent assay was evaluated for diagnosis of pneumococcal pneumonia in paired serum samples from 4 adult populations: 47 healthy control subjects, 56 clinic control subjects without pneumococcal disease syndromes, 109 patients with pneumococcal pneumonia, and 93 pneumonia patients with no evidence of pneumococcal etiology. By considering a 2-fold increase in antibody concentration as positive, sensitivity was 0.70, and specificity was 0.98. With a 1.3-fold increase, these were 0.89 and 0.98, respectively. The test's performance was not affected by the patients' human immunodeficiency virus status or by the pneumococcal serotype. The combination of high sensitivity and high specificity makes this an ideal assay for epidemiologic studies of pneumococcal pneumonia.
Recent advancements in chemometrics for smart sensors (2004)

The first page of this article is displayed as the abstract.