gebhart/patrepeval huggingface dataset:
Controlled Functionalization and Multistep Chemical Manipulation of Covalently Modified Si(111) Surfaces1 (1999)

A hydrogen-terminated Si(111) surface has been covalently modified by UV irradiation in the presence of ethyl undecylenate leading to a Si(111)-C10H20CO2Et surface. It is possible to carry out a diverse range of chemical manipulations of the ester group on the surface. For example, reduction with sodium borohydride provides a surface terminated with a primary alcohol. Reaction with an alkyl Grignard reagent gives a tertiary alcohol that can be acylated with acetyl chloride. Finally, hydrolysis of the ester leads to a carboxylic acid terminated surface that can be coupled to an amino acid using a standard solid phase amide coupling protocol. The surface density of the ester function can be controlled by dilution of the reacting ester with a long-chain alkene. This has the beneficial effects of minimizing the disruption of the alkyl chain packing in the monolayers and avoiding steric blocking of the ester group. It is expected that the ability to precisely control the average distance between large biomolecules on surfaces will impact on future molecular electronic, sensor, and biochip technologies.
Autoimmune response and target autoantigens in Sjogren’s syndrome (2010)

Autoantigen alterations in a microenvironment of local inflammation with increased in situ apoptosis, Toll-like receptor (TLR) signalling and antigen presentation may drive the autoimmune response and local autoantibody production in pSS.
Consensus Nomenclature for in vivo Imaging of Reversibly Binding Radioligands (2007)

An international group of experts in pharmacokinetic modeling recommends a consensus nomenclature to describe in vivo molecular imaging of reversibly binding radioligands.
Measurement of the 3-D shape of specular polyhedrons using an M-array coded light source (2002)

In this paper we describe a method for measuring three-dimensional shape of specular polyhedron by using an M-array coded light source. Determination of a shape of specular surface is important especially for industrial applications. However, owing to specular reflection, it is difficult to measure the shape of specular surfaces by applying the methods for diffusing surfaces. We reconstruct the shape of specular objects from the image of M-array coded light source observed after being reflected by the object. Using the "window property" of M-array, the correspondence is found between a point on the image of reflected light source and a point on light source. By assuming that the surface is locally a plane, normal vectors of the surface are determined from the correspondence, and three-dimensional shape of the surface is reconstructed. This method enables us to measure the shape of specular polyhedron by using a simple equipment. The method was tested for a polyhedron of 10 cm of each side, 50 cm apart from the camera. The shape of the polyhedron was reconstructed correctly. The precision of the measurement was about 1 mm.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Bipyridine- and Phenanthroline-Based Metal–Organic Frameworks for Highly Efficient and Tandem Catalytic Organic Transformations via Directed C–H Activation (2015)

We report here the synthesis of a series of robust and porous bipyridyl- and phenanthryl-based metal-organic frameworks (MOFs) of UiO topology (BPV-MOF, mBPV-MOF, and mPT-MOF) and their postsynthetic metalation to afford highly active single-site solid catalysts. While BPV-MOF was constructed from only bipyridyl-functionalized dicarboxylate linker, both mBPV- and mPT-MOF were built with a mixture of bipyridyl- or phenanthryl-functionalized and unfunctionalized dicarboxylate linkers. The postsynthetic metalation of these MOFs with [Ir(COD)(OMe)]2 provided Ir-functionalized MOFs (BPV-MOF-Ir, mBPV-MOF-Ir, and mPT-MOF-Ir), which are highly active catalysts for tandem hydrosilylation of aryl ketones and aldehydes followed by dehydrogenative ortho-silylation of benzylicsilyl ethers as well as C-H borylation of arenes using B2pin2. Both mBPV-MOF-Ir and mPT-MOF-Ir catalysts displayed superior activities compared to BPV-MOF-Ir due to the presence of larger open channels in the mixed-linker MOFs. Impressively, mBPV-MOF-Ir exhibited high TONs of up to 17,000 for C-H borylation reactions and was recycled more than 15 times. The mPT-MOF-Ir system is also active in catalyzing tandem dehydrosilylation/dehydrogenative cyclization of N-methylbenzyl amines to azasilolanes in the absence of a hydrogen acceptor. Importantly, MOF-Ir catalysts are significantly more active (up to 95 times) and stable than their homogeneous counterparts for all three reactions, strongly supporting the beneficial effects of active site isolation within MOFs. This work illustrates the ability to increase MOF open channel sizes by using the mixed linker approach and shows the enormous potential of developing highly active and robust single-site solid catalysts based on MOFs containing nitrogen-donor ligands for important organic transformations.
Nonequilibrium static diverging length scales on approaching a prototypical model glassy state (2012)

Maximally random jammed states of hard spheres are prototypical glasses. We study the small wavenumber k behavior of the structure factor S(k) of overcompressed million-sphere packings as a function of density up to the jammed state. We find both a precursor to the glassy jammed state evident long before the jamming density is reached and two associated growing length scales, one extracted from the volume integral of the direct correlation function c(r) and the other from the small-k behavior of the structure factor S(k), that can diverge at the "critical" jammed state. We also define a nonequilibrium index X and use it to demonstrate that the packings studied are intrinsically nonequilibrium in nature well before the critical state is reached. The extension of the results reported in the present work to supercooled atomic-liquid models in which the atoms interact with both repulsive and attractive forces is also discussed.
Cutaneous rat wounds express C49a, a novel gene with homology to the human melanoma differentiation associated gene, Mda7 (1999)

We have used DD-PCR (differential display-polymerase chain reaction) to identify new genes that are over- or underexpressed during wound repair. DD-PCR performed on excisional wounds identified the expression of rat c49a. Cloning and sequence analysis of the rat c49a gene revealed high homology to a novel human melanoma differentiation associated gene, mda-7. The human mda-7 gene isolated from melanoma cell lines, has been linked with human melanoma differentiation, and growth suppression. Moreover, transfection of human mda-7 constructs into human tumor cells suppresses the growth and colony formation of tumor cells from diverse origins. To confirm and relatively quantitate expression of rat c49a gene during repair, specific primer, reduced cycle RT-PCR (reverse transcription-PCR) was performed. RT-PCR showed an ∼9 to 12-fold elevation of rat c49a mRNA at 12 h to 5 days above nonwounded controls that gradually decreased to ∼1.5 to 3-fold by day 14. Cloning and sequence analysis of the entire 1200 base pair c49a gene product showed 78% nucleotide homology to human mda-7. Immunohistochemistry studies localized rat C49A expression primarily to fibroblast-like cells at the wound edge and base. The marked up-regulation of rat c49a transcripts during the inflammatory and early granulation tissue phases of wound repair where cellular processes such as re-epithelialization, angiogenesis, and fibroplasia predominate—suggest that c49a is associated with proliferation of fibroblasts in wound healing. J. Cell. Biochem. 74:1–10, 1999. © 1999 Wiley-Liss, Inc.
New Advances in Iron Chelation Therapy (2006)

The emergence of new chelators is likely to have a major impact on the treatment of thalassemia major, sickle cell disease and other hematologic disorders for which regular red cell transfusions are required either to correct severe anemia or to prevent major complications of the underlying disease. In comparison with deferoxamine, which requires prolonged parenteral infusion to achieve negative iron balance, orally active chelators offer the promise of easier administration and better compliance. Moreover, the availability of more than one iron chelator opens up the possibility of combination therapy to target iron in specific organs and to enhance overall iron excretion. Long-term studies, employing new technologies to measure tissue iron, are required to determine whether the new chelators will be as safe and effective as deferoxamine in maintaining control of iron stores and preventing iron-induced cardiac disease, the major complication of transfusional iron overload.
Low-loss, low-cross-talk crossings for silicon-on-insulator nanophotonic waveguides (2007)

We present compact crossings for silicon-on-insulator photonic wires. The waveguides are broadened using a 3 microm parabolic taper in each arm. By locally applying a lower index contrast using a double-etch technique, loss of confinement is reduced and 97.5% transmission (-1.7 dB) is achieved with only -40 dB cross talk.
Chimeric TALE recombinases with programmable DNA sequence specificity (2012)

Site-specific recombinases are powerful tools for genome engineering. Hyperactivated variants of the resolvase/invertase family of serine recombinases function without accessory factors, and thus can be re-targeted to sequences of interest by replacing native DNA-binding domains (DBDs) with engineered zinc-finger proteins (ZFPs). However, imperfect modularity with particular domains, lack of high-affinity binding to all DNA triplets, and difficulty in construction has hindered the widespread adoption of ZFPs in unspecialized laboratories. The discovery of a novel type of DBD in transcription activator-like effector (TALE) proteins from Xanthomonas provides an alternative to ZFPs. Here we describe chimeric TALE recombinases (TALERs): engineered fusions between a hyperactivated catalytic domain from the DNA invertase Gin and an optimized TALE architecture. We use a library of incrementally truncated TALE variants to identify TALER fusions that modify DNA with efficiency and specificity comparable to zinc-finger recombinases in bacterial cells. We also show that TALERs recombine DNA in mammalian cells. The TALER architecture described herein provides a platform for insertion of customized TALE domains, thus significantly expanding the targeting capacity of engineered recombinases and their potential applications in biotechnology and medicine.
Structure-activity relationships in prazosin-related compounds. Effect of replacing a piperazine ring with an alkanediamine moiety on .alpha.1-adrenoreceptor blocking activity (1989)

Several prazosin-related compounds were synthesized in which the piperazine ring of prazosin (1) was replaced by an alkanediamine chain and were evaluated for their blocking activity on alpha 1- and alpha 2-adrenoreceptors in isolated rat vas deferens. All the compounds investigated proved highly selective toward the alpha 1-adrenoreceptor owing to a very low affinity for alpha 2-adrenoreceptors. Furthermore, compounds 2, 9, and 13 were also investigated in vivo to determine their hypotensive effect on anesthetized rats, which were compared with that of prazosin (1). It was confirmed that the piperazine moiety of 1 is not essential for potency. However, optimum activity depends on two parameters: carbon-chain length of the alkanediamine moiety and N-methylation of both the amide and the 2-amino functions. In the desmethyl series, optimum activity was associated with the lower homologues (2-4) bearing a chain of two to four methylenes whereas in the N,N'-dimethyl series peak potency was observed with a six-carbon chain as in 13. Compound 13 proved the most active of the series and was more potent than prazosin (1) in both in vivo and in vitro assays. It is hypothesized that the alpha 1-adrenoreceptor incorporates a lipophilic area that is located between the binding sites for the quinazoline and the furoyl moieties and is able to accommodate a polymethylene chain.
Characterization of c-kit positive intrathymic stem cells that are restricted to lymphoid differentiation. (1993)

We found that c-kit-positive, lineage marker-negative, Thy-1lo cells are present in both bone marrow and thymus ("BM c-kit" and "thymus c-kit" cells). Although the two cell types are phenotypically similar, only BM c-kit cells showed the potential to form colonies in vitro as well as in vivo. However, both of them revealed extensive growth and differentiation potential to T cells after direct transfer into an irradiated adult thymus, or a deoxyguanosine-treated fetal thymus. Time course analysis showed that thymus c-kit cells differentiated into CD4CD8 double-positive cells approximately 4 d earlier than BM c-kit cells did. In addition, anti-c-kit antibody blocked T cell generation of BM c-kit cells but not of thymus c-kit cells. Intravenous injection of thymus c-kit resulted in the generation of not only T cells, but B as well as NK1.1+ cells. These data provide evidence that thymus c-kit cells represent common lymphoid progenitors with the differentiation potential to T, B, and possibly NK cells. The c-kit-mediated signaling appears to be essential in the transition from BM c-kit to thymus c-kit cells.
Monitoring of aspirin (ASA) pharmacodynamics with the platelet function analyzer PFA-100. (2000)

Thus, the PFA-100 system appears suitable to demonstrate an aspirin-induced platelet effect in a longitudinal study, and may be adequate to monitor a patient's compliance. However, prospective trials have to be conducted to demonstrate whether the EPI-CT achieved under ASA-intake has predictive value for cardiovascular outcome.
Investigation of radiation-induced photodarkening in passive erbium-, ytterbium-, and Yb/Er co-doped optical fibers (2007)

The deployment of optical fibers in adverse radiation environments, such as those encountered in a low-Earth-orbit space setting, makes critical the development of an understanding of the effect of large accumulated ionizing-radiation doses on optical components and systems. In particular, gamma radiation is known to considerably affect the performance of optical components by inducing absorbing centers in the materials. Such radiation is present both as primary background radiation and as secondary radiation induced by proton collisions with space-craft material. This paper examines the effects of gamma radiation on erbium-, ytterbium-, and Yb/Er co-doped optical fibers by exposing a suite of such fibers to radiation from a Co-60 source over long periods of time while monitoring the temporal and spectral decrease in transmittance of a reference signal. For same total doses, results show increased photodarkening in erbium-doped fibers relative to ytterbium-doped fibers, as well as significant radiation resistance of the co-doped fibers over wavelengths of 1.0 - 1.6 microns. All three types of fibers were seen to exhibit dose-rate dependences.
Multigene Editing in the Escherichia coli Genome via the CRISPR-Cas9 System (2015)

An efficient genome-scale editing tool is required for construction of industrially useful microbes. We describe a targeted, continual multigene editing strategy that was applied to the Escherichia coli genome by using the Streptococcus pyogenes type II CRISPR-Cas9 system to realize a variety of precise genome modifications, including gene deletion and insertion, with a highest efficiency of 100%, which was able to achieve simultaneous multigene editing of up to three targets. The system also demonstrated successful targeted chromosomal deletions in Tatumella citrea, another species of the Enterobacteriaceae, with highest efficiency of 100%.
Effects of Website Interactivity on e-Loyalty (2010)

This study examines the impact of major considerations of commercial website design and management, website interactivity, the important performance factor, and customer loyalty. Meaningful interactions with existing and potential customers allow e-commerce firms to enhance customer loyalty by providing satisfactory customer experience. Customer loyalty is a composite construct, yet consists of multiple dimensions that do not necessarily contribute to repeat purchase in the same manner. Guided by the concept of social exchange in social psychology, this study investigates the causal effect of website interactivity on two conceptually distinctive types of website loyalty—transactional loyalty and relational loyalty. This paper finds positive effects of website loyalty on both types of loyalty, while revealing positive effects of transactional loyalty on relational loyalty and overall loyalty. Furthermore, relational loyalty is found to contribute more to overall loyalty than transactional loyalty. E-commerce firms are advised to offer attractive incentives in a systematical manner to gradually convert more temporary transactional loyalty to more long-term relational loyalty. Finally, firms must devise a portfolio of different marketing strategies to cater to the customers located on different points on transactional loyalty.
Paclitaxel–Carboplatin Alone or with Bevacizumab for Non–Small-Cell Lung Cancer (2006)

The addition of bevacizumab to paclitaxel plus carboplatin in the treatment of selected patients with non-small-cell lung cancer has a significant survival benefit with the risk of increased treatment-related deaths. (ClinicalTrials.gov number, NCT00021060.)
Digital image forensics via intrinsic fingerprints (2008)

Digital imaging has experienced tremendous growth in recent decades, and digital camera images have been used in a growing number of applications. With such increasing popularity and the availability of low-cost image editing software, the integrity of digital image content can no longer be taken for granted. This paper introduces a new methodology for the forensic analysis of digital camera images. The proposed method is based on the observation that many processing operations, both inside and outside acquisition devices, leave distinct intrinsic traces on digital images, and these intrinsic fingerprints can be identified and employed to verify the integrity of digital data. The intrinsic fingerprints of the various in-camera processing operations can be estimated through a detailed imaging model and its component analysis. Further processing applied to the camera captured image is modelled as a manipulation filter, for which a blind deconvolution technique is applied to obtain a linear time-invariant approximation and to estimate the intrinsic fingerprints associated with these postcamera operations. The absence of camera-imposed fingerprints from a test image indicates that the test image is not a camera output and is possibly generated by other image production processes. Any change or inconsistencies among the estimated camera-imposed fingerprints, or the presence of new types of fingerprints suggest that the image has undergone some kind of processing after the initial capture, such as tampering or steganographic embedding. Through analysis and extensive experimental studies, this paper demonstrates the effectiveness of the proposed framework for nonintrusive digital image forensics.
Preparation and Evaluation of a Time-Controlled Release Capsule Made of Ethylcellulose for Colon Delivery of Drugs (1995)

A novel ethylcellulose (EC) capsule which releases drug with a time-controlled fashion has been prepared. This capsule is composed of four parts, drug container, swellable substance, capsule body and cap. At the bottom of the body, micropores are made. As water penetrates through these micropores, the swellable substance such as low substituted hydroxypropyl cellulose (L-HPC) swells. When the cap made of water-insoluble macromolecular substance such as EC cannot persist the swelling pressure, the EC cap disintegrates and the drug in the container is released from the capsule. The lag-time is utilized for the delivery of drug to the colon. The release time of the drug from the capsule was measured both in vitro and in vivo experiments. In the case of an in vitro experiment, after 12mg of fluorescein as a model drug and 238mg of starch were filled into the container, caps having different thickness were attached to the capsule body and release study was performed. The release time of the drug was mainly dependent on the thickness of the cap. Using test capsules of which mean cap thickness were 39.1 +/- 2.3 (SE)microns, 63.1 +/- 5.0 microns and 75.6 +/- 4.1 microns, the in vivo release time was estimated after administration to beagle dogs. As a parameter, the peak time (tmax) when plasma fluorescein concentration reached to its maximum level was determined for the estimation of the release time of the drug from the capsule in the gastrointestinal tract. The in vivo tmax was well correlated with the cap thickness.(ABSTRACT TRUNCATED AT 250 WORDS)
Partial regression, yet incomplete eradication of mammary tumors in transgenic mice by retrovirally mediated HSVtk transfer 'in vivo'. (1996)

Mice transgenic for the activated rat neu oncogene under the control of the mouse mammary tumor virus long terminal repeat (MMTV-LTR) (neu+ mice), develop breast tumors in 100% of cases. We have previously reported that double transgenic mice obtained from crossing neu+ mice with mice transgenic for the herpes simplex virus thymidine kinase (HSVtk) gene can be used as a suitable model to test the 'suicide gene' strategy for mammary tumor gene therapy in vivo. In the present study, we evaluated the efficacy of the HSVtk/ganciclovir (GCV) system in the neu+ mice by inoculating cells producing a retroviral vector bearing the HSVtk gene in the mammary tumors on one side of the animals, and comparing their weight with that of the contralateral tumors, after systemic GCV administration. A statistically significant effect of this therapy was clearly seen (P < 0.001) but complete eradication of the tumors could not be achieved. This was not due to the inefficient delivery of GCV, as no HSVtk expression was detected in the residual tumors, but could be related to the low transduction efficiency (< 10%) and to inability of the 'bystander effect' (probably due to the absence of functional gap-junctions among mammary tumor cells) to kill nontransduced neoplastic cells. These data suggest that results obtained by in vivo models using transplanted tumor cell lines as targets for gene therapy might not be immediately transferable to spontaneously arising tumors in animals or humans.