gebhart/patrepeval huggingface dataset:
Increased Cardiac Angiotensin II Levels Induce Right and Left Ventricular Hypertrophy in Normotensive Mice (2000)

Angiotensin II is a potent arterial vasoconstrictor and induces hypertension. Angiotensin II also exerts a trophic effect on cardiomyocytes in vitro. The goals of the present study were to document an in vivo increase in cardiac angiotensins in the absence of elevated plasma levels or hypertension and to investigate prevention or regression of ventricular hypertrophy by renin-angiotensin system blockade. We demonstrate that high cardiac angiotensin II is directly responsible for right and left ventricular hypertrophy. We used transgenic mice overexpressing angiotensinogen in cardiomyocytes characterized by cardiac hypertrophy without fibrosis and normal blood pressure. Angiotensin-converting enzyme inhibition and angiotensin II type 1 receptor blockade prevent or normalize ventricular hypertrophy. Surprisingly, in control mice, receptor blockade decreases tissue angiotensin II despite increased plasma levels. This suggests that angiotensin II may be protected from metabolization by binding to its receptor. Blocking of the angiotensin II type 1 receptor rather than enhanced stimulation of the angiotensin II type 2 receptor may prevent remodeling and account for the beneficial effects of angiotensin antagonists.
Nucleocapsid Protein Recruitment to Replication-Transcription Complexes Plays a Crucial Role in Coronaviral Life Cycle (2019)

Coronavirus (CoV) nucleocapsid (N) proteins are key for incorporating genomic RNA into progeny viral particles. In infected cells, N proteins are present at the replication-transcription complexes (RTCs), the sites of CoV RNA synthesis. It has been shown that N proteins are important for viral replication and that the one of mouse hepatitis virus (MHV), a commonly used model CoV, interacts with nonstructural protein 3 (nsp3), a component of the RTCs. These two aspects of the CoV life cycle, however, have not been linked. We found that the MHV N protein binds exclusively to nsp3 and not other RTC components by using a systematic yeast two-hybrid approach, and we identified two distinct regions in the N protein that redundantly mediate this interaction. A selective N protein variant carrying point mutations in these two regions fails to bind nsp3 <i>in vitro</i>, resulting in inhibition of its recruitment to RTCs <i>in vivo</i> Furthermore, in contrast to the wild-type N protein, this N protein variant impairs the stimulation of genomic RNA and viral mRNA transcription <i>in vivo</i> and <i>in vitro</i>, which in turn leads to impairment of MHV replication and progeny production. Altogether, our results show that N protein recruitment to RTCs, via binding to nsp3, is an essential step in the CoV life cycle because it is critical for optimal viral RNA synthesis.<b>IMPORTANCE</b> CoVs have long been regarded as relatively harmless pathogens for humans. Severe respiratory tract infection outbreaks caused by severe acute respiratory syndrome CoV and Middle East respiratory syndrome CoV, however, have caused high pathogenicity and mortality rates in humans. These outbreaks highlighted the relevance of being able to control CoV infections. We used a model CoV, MHV, to investigate the importance of the recruitment of N protein, a central component of CoV virions, to intracellular platforms where CoVs replicate, transcribe, and translate their genomes. By identifying the principal binding partner at these intracellular platforms and generating a specific mutant, we found that N protein recruitment to these locations is crucial for promoting viral RNA synthesis. Moreover, blocking this recruitment strongly inhibits viral infection. Thus, our results explain an important aspect of the CoV life cycle and reveal an interaction of viral proteins that could be targeted in antiviral therapies.
Highly-sensitive Measurements of Changes in Density and Refractive Index of Air using Fiber Laser Polarization Mode Beating Techniques (2010)

We demonstrate a highly-sensitive fiber optic sensor for measuring changes in the refractive index of air. This technique provides an accurate method for monitoring refractive index, density and pressure of gases in an intra-cavity vessel.
Thrombin receptor antagonists as novel therapeutic targets. (2001)

In addition to its pivotal role in hemostasis, thrombin activates various cell types such as platelets and vascular smooth muscle cells via proteolytic processing of specific cell-surface receptors known as proteinase activated receptors (PARs), the prototype of which is PAR-1. Thrombin receptor activation is likely to play a key role in cardiovascular disorders such as arterial thrombosis, atherosclerosis and restenosis, and as such a thrombin receptor antagonist should have potential utility in the treatment of these disorders. Since the fibrin pathway is unaffected by thrombin receptor antagonism, a thrombin receptor antagonist is expected to have minimal bleeding liability, which is a complicating factor in existing antithrombotic therapy. The currently available collection of thrombin receptor antagonists fall into three categories: (i) peptide antagonists; (ii) peptidomimetics; and (iii) non-peptide thrombin receptor antagonists, and this review outlines the development of members of these classes.
Improving Tumor Uptake and Excretion Kinetics of 99mTc-Labeled Cyclic Arginine-Glycine-Aspartic (RGD) Dimers with Triglycine Linkers (2008)

This report describes the synthesis of two new cyclic RGD (Arg-Gly-Asp) dimers, 3 (E[G(3)-c(RGDfK)](2)) and 4 (G(3)-E[G(3)-c(RGDfK)](2)), and their corresponding conjugates 5 (HYNIC-E[G(3)-c(RGDfK)](2): HYNIC = 6-(2-(2-sulfonatobenzaldehyde)hydrazono)nicotinyl) and 6 (HYNIC-G(3)-E[G(3)-c(RGDfK)](2)). Integrin alpha(v)beta(3) binding affinities of 5 and 6 were determined by displacement of (125)I-echistatin bound to U87MG glioma cells. (99)(m)Tc complexes 7 ([(99m)Tc(5)(tricine)(TPPTS)]: TPPTS = trisodium triphenylphosphine-3,3',3''-trisulfonate) and 8 ([(99m)Tc(6)(tricine)(TPPTS)]) were prepared in high yield and high specific activity. Biodistribution and imaging studies were performed in athymic nude mice bearing U87MG glioma and MDA-MB-435 breast cancer xenografts. It was found that G(3) linkers are particularly useful for increasing integrin alpha(v)beta(3) binding affinity of cyclic RGD dimers and improving the tumor uptake and clearance kinetic of their (99)(m)Tc radiotracers. Complex 8 is a very promising radiotracer for the early detection of integrin alpha(v)beta(3)-positive tumors and may have the potential for noninvasive monitoring of tumor growth or shrinkage during antiangiogenic treatment.
Toward publicly auditable secure cloud data storage services (2010)

Cloud computing is the long dreamed vision of computing as a utility, where data owners can remotely store their data in the cloud to enjoy on-demand high-quality applications and services from a shared pool of configurable computing resources. While data outsourcing relieves the owners of the burden of local data storage and maintenance, it also eliminates their physical control of storage dependability and security, which traditionally has been expected by both enterprises and individuals with high service-level requirements. In order to facilitate rapid deployment of cloud data storage service and regain security assurances with outsourced data dependability, efficient methods that enable on-demand data correctness verification on behalf of cloud data owners have to be designed. In this article we propose that publicly auditable cloud data storage is able to help this nascent cloud economy become fully established. With public auditability, a trusted entity with expertise and capabilities data owners do not possess can be delegated as an external audit party to assess the risk of outsourced data when needed. Such an auditing service not only helps save data owners¿ computation resources but also provides a transparent yet cost-effective method for data owners to gain trust in the cloud. We describe approaches and system requirements that should be brought into consideration, and outline challenges that need to be resolved for such a publicly auditable secure cloud storage service to become a reality.
Practical reconstruction method for bioluminescence tomography (2005)

Bioluminescence tomography (BLT) is used to localize and quantify bioluminescent sources in a small living animal. By advancing bioluminescent imaging to a tomographic framework, it helps to diagnose diseases, monitor therapies and facilitate drug development. In this paper, we establish a direct linear relationship between measured surface photon density and an unknown bioluminescence source distribution by using a finite-element method based on the diffusion approximation to the photon propagation in biological tissue. We develop a novel reconstruction algorithm to recover the source distribution. This algorithm incorporates a priori knowledge to define the permissible source region in order to enhance numerical stability and efficiency. Simulations with a numerical mouse chest phantom demonstrate the feasibility of the proposed BLT algorithm and reveal its performance in terms of source location, density, and robustness against noise. Lastly, BLT experiments are performed to identify the location and power of two light sources in a physical mouse chest phantom.
Limb myokymia (1981)

Thirty-eight patients with myokymic discharges localized to limb muscles on needle electromyography had various neurologic lesions, both acute and chronic. Of the 38 patients, 27 had had previous radiation therapy and the clinical diagnosis of radiation-induced plexopathy, myelopathy, or both. For the remaining 11 patients, the diagnoses included multiple sclerosis, inflammatory polyradiculoneuropathy, ischemic neuropathy, inflammatory myopathy, and chronic disorders of the spinal cord and peripheral nerves. The clinical presentations and results of local ischemia, peripheral nerve block, and percutaneous stimulation suggest that most limb myokymic discharges arise focally at the site of a chronic peripheral nerve lesion.
Tagging of plant potyvirus replication and movement by insertion of beta-glucuronidase into the viral polyprotein. (1992)

Infectious RNA transcripts were generated from full-length cDNA clones of the tobacco etch potyvirus genome containing an insertion of the bacterial beta-glucuronidase (GUS) gene between the polyprotein-coding sequences for the N-terminal 35-kDa proteinase and the helper component-proteinase. The recombinant virus was able to spread systemically in plants and accumulated to a level comparable with wild-type tobacco etch potyvirus. Proteolytic processing mediated by the 35-kDa proteinase and helper component-proteinase resulted in production of an enzymatically active GUS-helper component-proteinase fusion protein. A virus passage line that retained the GUS insert after numerous plant-to-plant transfers, as well as a line that sustained a deletion of the GUS sequence, was recovered. Use of an in situ histochemical GUS assay in time-course experiments allowed the visualization of virus activity in single, mechanically inoculated leaf epidermal cells, in neighboring epidermal and mesophyll cells, in phloem-associated cells after long-distance transport, and in cells surrounding vascular tissues of organs above and below the site of inoculation. This system represents a powerful tool to study plant virus replication, short- and long-distance virus movement, and virus-host interactions. Additionally, we show that potyviruses may serve as highly efficient, autonomously replicating vectors for the expression of foreign genes in plants.
Generalized lapped biorthogonal transforms with integer coefficients (2002)

Invertible transforms with integer coefficients are highly desirable because of their fast, efficient, VLSI-suitable implementations and their lossless coding capability. In this paper, a large class of generalized lapped biorthogonal transforms with integer coefficients (IGLBT) is presented. The IGLBT also possesses a fast and efficient lattice that structurally enforces both linear phase and exact reconstruction properties. Preliminary image coding experiments show that the IGLBT yields comparable objective and subjective performance to those of popular state-of-the-art transforms with floating-point coefficients.
Transbilayer mobility and distribution of red cell phospholipids during storage. (1993)

We studied phospholipid topology and transbilayer mobility in red cells during blood storage. The distribution of phospholipids was determined by measuring the reactivity of phosphatidylethanolamine with fluorescamine and the degradation of phospholipids by phospholipase A2 and sphingomyelinase C. Phospholipid mobility was measured by determining transbilayer movements of spin-labeled phospholipids. We were unable to detect a change in the distribution of endogenous membrane phospholipids in stored red cells even after 2-mo storage. The rate of inward movement of spin-labeled phosphatidylethanolamine and phosphatidylserine was progressively reduced, whereas that for phosphatidylcholine was increased. These changes in phospholipid translocation correlated with a fall in cellular ATP. However, following restoration of ATP, neither the rate of aminophospholipid translocation nor the transbilayer movement of phosphatidylcholine were completely corrected. Taken together, our findings demonstrate that red cell storage alters the kinetics of transbilayer mobility of phosphatidylserine, phosphatidylethanolamine, and phosphatidylcholine, the activity of the aminophospholipid translocase, but not the asymmetric distribution of endogenous membrane phospholipids, at least at a level detectable with phospholipases. Thus, if phosphatidylserine appearance on the outer monolayer is a signal for red cell elimination, the amount that triggers macrophage recognition is below the level of detection upon using the phospholipase technique.
Total Synthesis of (−)-Aurantioclavine (2010)

The concise total synthesis of (-)-aurantioclavine has been achieved by taking advantage of strategies for the asymmetric alkenylation of N-tert-butanesulfinyl imines. The enantiomerically pure natural product was prepared in 6 steps and 27% overall yield by using Rh-catalyzed addition of a N-methyliminodiacetic acid (MIDA) boronate and in 5 steps and 29% yield by employing a Grignard reagent addition sequence.
Erythropoietin Mimetics Derived from Solution Phase Combinatorial Libraries (2001)

The erythropoietin receptor (EPOr) is activated by ligand-induced homodimerization, which leads to the proliferation and differentiation of erythroid progenitors. Through the screening of combinatorial libraries of dimeric iminodiacetic acid diamides, novel small molecule binders of EPOr were identified in a protein binding assay. Evaluation of a series of analogues led to optimization of binding subunits, and these were utilized in the synthesis of higher order dimer, trimer, and tetramer libraries. Several of the most active EPOr binders were found to be partial agonists and induced concentration-dependent proliferation of an EPO-dependent cell line (UT-7/EPO) while having no effect on a cell line lacking the EPOr (FDC-P1). An additional compound library, based on a symmetrical isoindoline-5,6-dicarboxylic acid template and including the optimized binding subunits, was synthesized and screened leading to the identification of additional EPO mimetics.
Heteromeric olfactory cyclic nucleotide-gated channels: a subunit that confers increased sensitivity to cAMP. (1994)

Olfactory receptor neurons respond to odorant stimulation with a rapid increase in intracellular cAMP that opens cyclic nucleotide-gated (cng) cation channels. cng channels in rat olfactory neurons are activated by cAMP in the low micromolar range and are outwardly rectifying. The cloned rat olfactory cng channel (rOCNC1), however, is much less sensitive to cAMP and exhibits very weak rectification. Here we describe the cloning and characterization of a second rat cng channel subunit, denoted rOCNC2. rOCNC2 does not form functional channels when expressed alone. When rOCNC1 and rOCNC2 are coexpressed, however, an outwardly rectifying cation conductance with cAMP sensitivity near that of the native channel is observed. In situ hybridization with probes specific for the two subunits shows that they are coexpressed in olfactory receptor neurons. These data indicate that the native olfactory cng channel is likely to be a heterooligomer of the rOCNC1 and rOCNC2 subunits.
Myocardial Protection by Brief Ischemia in Noncardiac Tissue (1996)

Brief ischemia in "remote" organs protects myocardium against infarction as effectively as myocardial preconditioning. The mechanism of protection by MAO differs from that of CAO, because ganglion blockade abolished protection by MAO but not by CAO. The neurogenic pathway is activated during reperfusion after 15-minute MAO, because sustained MAO failed to produce cardioprotection.
[Preliminary study on treating patellar instability guided by arthroscopy]. (2006)

The patellofemoral alignment can be seen directly and dynamically under the arthroscopy. The combinational treatment including anterior transfer of the gracilis in repairing patellar instability can avoid the recurrence effectively and get satisfactory results.
An RSSI-based Scheme for Sybil Attack Detection in Wireless Sensor Networks (2006)

A sybil node impersonates other nodes by broadcasting messages with multiple node identifiers (ID). In contrast to existing solutions which are based on sharing encryption keys, we present a robust and lightweight solution for sybil attack problem based on received signal strength indicator (RSSI) readings of messages. Our solution is robust since it detects all sybil attack cases with 100% completeness and less than a few percent false positives. Our solution is lightweight in the sense that alongside the receiver we need the collaboration of one other node (i.e., only one message communication) for our protocol. We show through experiments that even though RSSI is time-varying and unreliable in general and radio transmission is non-isotropic, using ratio of RSSIs from multiple receivers it is feasible to overcome these problems.
Allele-specific activators and inhibitors for kinesin (1999)

Members of the kinesin superfamily are force-generating ATPases that drive movement and influence cytoskeleton organization in cells. Often, more than one kinesin is implicated in a cellular process, and many kinesins are proposed to have overlapping functions. By using conventional kinesin as a model system, we have developed an approach to activate or inhibit a specific kinesin allele in the presence of other similar motor proteins. Modified ATP analogs are described that do not activate either conventional kinesin or another superfamily member, Eg5. However, a kinesin allele with Arg-14 in its nucleotide binding pocket mutated to alanine can use a subset of these nucleotide analogs to drive microtubule gliding. Cyclopentyl-ATP is one such analog. Cyclopentyl-adenylylimidodiphosphate, a nonhydrolyzable form of this analog, inhibits the mutant allele in microtubule-gliding assays, but not wild-type kinesin or Eg5. We anticipate that the incorporation of kinesin mutants and allele-specific activators and inhibitors in in vitro assays should clarify the role of individual motor proteins in complex cellular processes.
[Construction recombinant adenovirus vector expressing murine endostatin and inhibition of blood endothelial cells growth]. (2006)

We constructed recombinant adenovirus vector expressing murine endostatin and evaluated the Inhibition of human umbilical vein endothelial cells (HUVEC). We proved that endostatin significantly suppressed the S phase fraction, inhibited proliferation and increased the apoptotic index of HUVEC.
Method for Improving Sequence Coverage Uniformity of Targeted Genomic Intervals Amplified by LR-PCR Using Illumina GA Sequencing-by-Synthesis Technology (2009)

One approach for high-throughput population-based sequencing of targeted intervals in the human genome is to amplify the regions using long-range PCR (LR-PCR) followed by sequencing with next-generation sequencing (NGS) technologies. Utilizing this method, we have observed that the 50 bp located at the amplicon ends account for more than 50% of the sequenced bases and that the sequence coverage depth of base pairs within an amplicon is highly variable. Here we propose an explanation for the overrepresentation of the amplicon ends and show that the use of 5'-blocked primers for the LR-PCR reaction reduces their overrepresentation. Furthermore, we demonstrate that using a 600-bp library insert size rather than the standard 200-bp insert size results in more uniform sequence coverage depth. The capability to increase sequence coverage uniformity greatly improves the effective throughput of NGS platforms.
3D Pose Tracking with Multi-Template Warping and SIFT Correspondences (2015)

Template warping is a popular technique in vision-based 3D motion tracking and 3D pose estimation due to its flexibility of being applicable to monocular video sequences. However, the method suffers from two major limitations that hamper its successful use in practice. First, it requires the camera to be calibrated prior to applying the method. Second, it may fail to provide good results if the inter-frame displacements are too large. To overcome the first problem, we propose to estimate the unknown focal length of the camera from several initial frames by an iterative optimization process. To alleviate the second problem, we propose a tracking method based on combining complementary information provided by dense optical flow and tracked scale-invariant feature transform (SIFT) features. While optical flow is good for small displacements and provides accurate local information, tracked SIFT features are better at handling larger displacements or global transformations. To combine these two pieces of complementary information, we introduce a forgetting factor to bootstrap the 3D pose estimates provided by SIFT features, and refine the final results using optical flow. Experiments are performed on three public databases, i.e., the Biwi Head Pose dataset, the BU dataset, and the McGill Faces datasets. The results illustrate that the proposed solution provides more accurate results than baseline methods that rely solely on either template warping or SIFT features. In addition, the approach can be applied in a larger variety of scenarios, due to circumventing the need for camera calibration, thus providing a more flexible solution to the problem than existing methods.
Smart Nanotubes for Bioseparations and Biocatalysis (2002)

Tube-shaped nanostructures (nanotubes) have a number of attributes that make them potentially useful for biomedical applications such as drug delivery/detoxification and enzyme immobilization. Template synthesis provides a route for preparing monodisperse nanotubes of nearly any size and composed of nearly any material. We show here that template-synthesized silica nanotubes can be biochemically functionalized such that they act as biocatalysts and highly selective nano-phase extraction agents for bioseparations. For example, nanotubes containing an enantioselective antibody selectively extract the enantiomer of a drug molecule that binds to the antibody, relative to the enantiomer that has no specific interaction with the antibody. Nanotubes containing the enzyme glucose oxidase function as nanophase bioreactors to catalyze the oxidation of glucose.