gebhart/patrepeval huggingface dataset:
NLRX1 Mediates MAVS Degradation To Attenuate the Hepatitis C Virus-Induced Innate Immune Response through PCBP2 (2017)

Activation of innate immunity is essential for host cells to restrict the spread of invading viruses and other pathogens. However, attenuation or termination of signaling is also necessary for preventing immune-mediated tissue damage and spontaneous autoimmunity. Here, we identify nucleotide binding oligomerization domain (NOD)-like receptor X1 (NLRX1) as a negative regulator of the mitochondrial antiviral signaling protein (MAVS)-mediated signaling pathway during hepatitis C virus (HCV) infection. The depletion of NLRX1 enhances the HCV-triggered activation of interferon (IFN) signaling and causes the suppression of HCV propagation in hepatocytes. NLRX1, a HCV-inducible protein, interacts with MAVS and mediates the K48-linked polyubiquitination and subsequent degradation of MAVS via the proteasomal pathway. Moreover, poly(rC) binding protein 2 (PCBP2) interacts with NLRX1 to participate in the NLRX1-induced degradation of MAVS and the inhibition of antiviral responses during HCV infection. Mutagenic analyses further revealed that the NOD of NLRX1 is essential for NLRX1 to interact with PCBP2 and subsequently induce MAVS degradation. Our study unlocks a key mechanism of the fine-tuning of innate immunity by which NLRX1 restrains the retinoic acid-inducible gene I-like receptor (RLR)-MAVS signaling cascade by recruiting PCBP2 to MAVS for inducing MAVS degradation through the proteasomal pathway. NLRX1, a negative regulator of innate immunity, is a pivotal host factor for HCV to establish persistent infection.<b>IMPORTANCE</b> Innate immunity needs to be tightly regulated to maximize the antiviral response and minimize immune-mediated pathology, but the underlying mechanisms are poorly understood. In this study, we report that NLRX1 is a proviral host factor for HCV infection and functions as a negative regulator of the HCV-triggered innate immune response. NLRX1 recruits PCBP2 to MAVS and induces the K48-linked polyubiquitination and degradation of MAVS, leading to the negative regulation of the IFN signaling pathway and promoting HCV infection. Overall, this study provides intriguing insights into how innate immunity is regulated during viral infection.
Markerless gesture-based motion control and programming of industrial robots (2011)

Gesture-based control systems for industrial robotics benefit from a natural form of human machine interaction. Among the high costs of such systems, there are high requirements for safety, robustness of the gesture recognition and general applicability in the industrial environment. Novel consumer electronic sensors provide a robust recognition, reliability and adequate accuracies at low costs. We present our work on gesture-based control and programming with an emphasis on a natural definition of complex trajectories. Besides standard online programming methods, we introduce a programming technique, which enables the worker to define a movement by his body parts, e.g. the hand. Imitating the human movement, the robot can move its end-effector relatively from a starting point.
Culturing and xenografting of primary colorectal carcinoma cells: comparison of in vitro, and in vivo model and primary tumor. (1989)

In a series of 61 primary colorectal carcinomas, we attempted to determine which primary tumor characteristics correlated with the possibility to continuously maintain tumor cells in vitro or in vivo, and to what extent the characteristics of a primary tumor were maintained in vitro or as xenograft. Four continuous cell lines and 10 serially transplantable tumors were obtained. Only one cell line could be maintained both in vitro and in vivo. Tumors that had metastized and tumors in the proximal colon showed a higher success for in vivo and in vitro growth. DNA analysis showed that in most xenografts the DNA index was identical to that the primary tumor. However, in some cases tumor cell subpopulations were lost or genetically variant new subpopulations were generated. In general, the degree of differentiation in the xenografts corresponded with the least differentiated areas in the primary tumor. Xenografts appeared to display comparable of antigen expression.
Defining the Molecular Recognition of MBr1 (Human Breast Cancer) Antigen by the MBr1 Antibody through Probe Structures Prepared by Total Synthesis (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDefining the Molecular Recognition of MBr1 (Human Breast Cancer) Antigen by the MBr1 Antibody through Probe Structures Prepared by Total SynthesisIn Jong Kim, Tae Kyo Park, Shuanghua Hu, Kofi Abrampah, Shengle Zhang, Philip Livingston, and Samuel J. DanishefskyCite this: J. Org. Chem. 1995, 60, 24, 7716–7717Publication Date (Print):December 1, 1995Publication History Published online1 May 2002Published inissue 1 December 1995https://doi.org/10.1021/jo00129a004RIGHTS & PERMISSIONSArticle Views249Altmetric-Citations26LEARN 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 InReddit PDF (258 KB) Get e-AlertscloseSupporting Info (3)»Supporting Information Supporting Information Get e-Alerts
Activation of NLRP3 inflammasome enhances the proliferation and migration of A549 lung cancer cells (2016)

Lung cancer is the leading cause of cancer death, and it is widely accepted that chronic inflammation is an important risk for the development of lung cancer. Now, it is recognized that the nucleotide-binding and oligomerization domain (NOD) like receptors (NLRs)-containing inflammasomes are involved in cancer-related inflammation. This study was designed to investigate the effects of NLR family pyrin domain containing protein 3 (NLRP3) inflammasome on the proliferation and migration of lung adenocarcinoma cell line A549. Using 5-ethynyl-2'-deoxyuridine (EdU) incorporation assay, scratch assay, and Transwell migration assay, we showed that activation of the NLRP3 inflammasome by LPS+ATP enhanced the proliferation and migration of A549 cells. Western blot analysis showed that activation of phosphorylation of Akt, ERK1/2, CREB and the expression of Snail increased, while the expression of E-cadherin decreased after the activation of NLRP3 inflammasome. Moreover, these effects were inhibited by the following treatments: i) downregulating the expression of NLRP3 by short hairpin RNA (shRNA) interference, ii) inhibiting the activation of NLRP3 inflammasome with a caspase-1 inhibitor, iii) blocking the interleukin-1β (IL-1β) and IL-18 signal transduction with IL-1 receptor antagonist (IL-1Ra) and IL-18 binding protein (IL-18BP). Collectively, these results indicate that NLRP3 inflammasome plays a vital role in regulating the proliferation and migration of A549 cells and it might be a potential target for the treatment of lung cancer.
The Viscosity of Air, Water, Natural Gas, Crude Oil and Its Associated Gases at Oil Field Temperatures and Pressures (1946)

Abstract This paper presents useful charts for conversion of various viscosimeter unitsinto centipoises and graphically summarizes published investigations of theviscosity of air, water and natural gas at high temperatures and pressures.Where possible, charts and correlations were constructed to cover a range oftemperature (60'F. to 300'F.) and pressure (14.7 lb. per sq. in. abs. to 8000lb. per sq. in. gauge) encountered in oil fields. Correlation charts, for the purpose of predicting crude oil viscosity andsolubility behavior at oil field temperatures and pressures, were constructedfrom an analysis and correlation of 1332 viscosity and solubility observationsfrom 953 crude oil samples taken from 747 oil fields. Of these fields, 501 arein the United States, including 75 in California. Of the 1332 observations,12I5 were viscosity values, including 786 of gas-free crude oil, 351 of oilsaturated with gas, and 78 undersaturated with gas at pressures above thebubble point. Results show that crude oil viscosity at various reservoir conditions can bepredicted with average deviations varying from 24.2 per cent for gas-free crudeoil to as little as 2.7 per cent for under saturated crude oil "above thebubble point." The solubility of crude oil may be predicted from oilgravity and saturation pressure with an average deviation of 22.0 per cent fromobserved values. In conclusion, it is shown that the viscosity of a gas andgas-saturated crude oil may be predicted within the accuracy of most reservoircomputations. Introduction Viscosity is a measure of flow resistance; common units are in centipoises(cp.). The object of this report is to present conversion charts and simplifiedcorrelation charts showing the viscosity behavior of air, water, gas and crudeoil and gas-saturated crude oil under oil field temperatures and pressures, which have been known to be as high as 300'F. and 8000 lb. per sq. in. gaugeunder subsurface conditions. The viscosity of a liquid or gas is important because it is a measure of itsfluidity, or its ability to flow through pipe lines or oil sands. Viscosity ofair has become important because it is being used in secondary recoveryprojects. The viscosity of natural gas and water at reservoir conditions isuseful because they are almost universally associated and produced with crudeoil. The viscosity of gas-saturated crude oil at reservoir pressures andtemperatures is of particular value in making estimates of oil reserves andrate of oil recovery from flush pools when production decline data arelimited. Instruments Used to Measure Viscosity There are many types of viscosimeters, and the instruments most commonly usedto measure the atmospheric viscosity of liquids at moderate temperatures andtheir practical working ranges have been described in detail.
Enzymic asymmetrization in organic media: synthesis of unnatural glucose from cycloheptatriene. (1992)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTEnzymic asymmetrization in organic media: synthesis of unnatural glucose from cycloheptatriene.Carl R. Johnson, Adam Golebiowski, and Darryl H. SteensmaCite this: J. Am. Chem. Soc. 1992, 114, 24, 9414–9418Publication Date (Print):November 1, 1992Publication History Published online1 May 2002Published inissue 1 November 1992https://pubs.acs.org/doi/10.1021/ja00050a022https://doi.org/10.1021/ja00050a022research-articleACS PublicationsRequest reuse permissionsArticle Views891Altmetric-Citations56LEARN 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
Synthesis and Photostability of Unimolecular Submersible Nanomachines: Toward Single-Molecule Tracking in Solution (2016)

The synthesis and photophysical properties of a series of photostable unimolecular submersible nanomachines (USNs) are reported as a first step toward the analysis of their trajectories in solution. The USNs have a light-driven rotatory motor for propulsion in solution and photostable cy5-COT fluorophores for their tracking. These cy5-COT fluorophores are found to provide an almost 2-fold increase in photostability compared to the previous USN versions and do not affect the rotation of the motor.
New Method of Hepatocyte Transplantation and Extracorporeal Liver Support (1986)

A technique has been developed by the authors that allows hepatocyte attachment on collagen-coated microcarriers resulting in prolonged hepatocyte viability and function both in vivo and in vitro. Rat hepatocytes were obtained by portal vein collagenase perfusion. Intraperitoneally transplanted microcarrier-attached normal hepatocytes into congeneic Gunn rats were functioning 3-4 weeks later, as shown by the presence and persistence of conjugated bilirubin in recipient bile, sustained decrease in serum bilirubin, uptake of Tc99m-DESIDA, and morphologic criteria. Intraperitoneal transplantation of normal microcarrier-attached hepatocytes into genetically albumin deficient rats (NAR) resulted in marked increase in plasma albumin levels (6 days without and 21 days with Cyclosporin A immunosuppression). Microcarrier-attached hepatocytes transplanted after 2 weeks of storage at -80 C into congeneic Gunn rats were viable and functional as assessed by criteria outlined above. An extracorporeal liver perfusion system was developed using the microcarrier-attached hepatocytes that was capable of synthesizing and conjugating bilirubin and synthesizing liver-specific proteins.
Nanoparticulate systems for polynucleotide delivery. (2007)

Nanotechnology has tremendously influenced gene therapy research in recent years. Nanometer-size systems have been extensively investigated for delivering genes at both local and systemic levels. These systems offer several advantages in terms of tissue penetrability, cellular uptake, systemic circulation, and cell targeting as compared to larger systems. They can protect the polynucleotide from a variety of degradative and destabilizing factors and enhance delivery efficiency to the cells. A variety of polymeric and non-polymeric nanoparticles have been investigated in an effort to maximize the delivery efficiency while minimizing the toxic effects. This article provides a review on the most commonly used nanoparticulate systems for gene delivery. We have discussed frequently used polymers, such as, polyethyleneimine, poly (lactide-co-glycolide), chitosan, as well as non-polymeric materials such as cationic lipids and metallic nanoparticles. The advantages and limitations of each system have been elaborated.
Protein intake in Parkinsonian patients using the EPIC food frequency questionnaire (2006)

The dietary habits of 45 Italian patients with Parkinson's disease (PD) and their spouses were investigated using the EPIC food frequency questionnaire. Average daily energy intake was similar, but PD patients consumed significantly more vegetable proteins and carbohydrates (both +18%; P = 0.01 and P = 0.001, respectively). Daily protein intake, which interferes with levodopa absorption, was 50% higher than the recommended daily allowance (1.2 vs. 0.8 g/kg) in both PD patients and spouses and was significantly higher in patients with moderate/severe symptoms (1.27 +/- 0.29 vs. 1.07 +/- 0.28 g/kg; P < 0.001). In patients taking levodopa, there was a correlation between daily levodopa dosage and protein intake (P = 0.027). Dietary habits of patients with advanced and/or fluctuating PD should always be checked, with particular reference to protein intake.
Proteases of enhanced stability: Characteization of a thermostable variant of subtilisin (1986)

A procedure has been developed for the isolation and identification of mutants in the bacterial serine protease subtilisin that exhibit enhanced thermal stability. The cloned subtilisin BPN' gene from Bacillus amyloliquefaciens was treated with bisulfite, a chemical mutagen that deaminates cytosine to uracil in single-stranded DNA. Strains containing the cloned, mutagenized subtilisin gene which produced subtilisin with enhanced thermal stability were selected by a simple plate assay procedure which screens for esterase activity on nitrocellulose filters after preincubation at elevated temperatures. One thermostable subtilisin variant, designated 7150, has been fully characterized and found to differ from wild-type subtilisin by a single substitution of Ser for Asn at position 218. The 7150 enzyme was found to undergo thermal inactivation at one-fourth the rate of the wild-type enzyme when incubated at elevated temperatures. Moreover, the mid-point in the thermally induced transition from the folded to unfolded state was found to be 2.4-3.9 degrees C higher for 7150 as determined by differential scanning calorimetry under a variety of conditions. The refined, 1.8-A crystal structures of the wild-type and 7150 subtilisin have been compared in detail, leading to the conclusion that slight improvements in hydrogen bond parameters in the vicinity of position 218 result in the enhanced thermal stability of 7150.
An Experimentally Determined Evolutionary Model Dramatically Improves Phylogenetic Fit (2014)

All modern approaches to molecular phylogenetics require a quantitative model for how genes evolve. Unfortunately, existing evolutionary models do not realistically represent the site-heterogeneous selection that governs actual sequence change. Attempts to remedy this problem have involved augmenting these models with a burgeoning number of free parameters. Here, I demonstrate an alternative: Experimental determination of a parameter-free evolutionary model via mutagenesis, functional selection, and deep sequencing. Using this strategy, I create an evolutionary model for influenza nucleoprotein that describes the gene phylogeny far better than existing models with dozens or even hundreds of free parameters. Emerging high-throughput experimental strategies such as the one employed here provide fundamentally new information that has the potential to transform the sensitivity of phylogenetic and genetic analyses.
A New Virus Isolated from the Human Respiratory Tract. (1966)

SummaryA new ether sensitive RNA virus was isolated during surveillance of URI among medical students in the winter of 1962. This virus is antigenically unrelated to all known human myxoviruses.
Image watermarking-a spread spectrum application (2002)

This paper discusses the feasibility of coding a robust, undetectable, digital watermark on a standard 512*512 intensity image with an 24 bit RGB format. The watermark is capable of carrying such information as authentication or authorisation codes, or a legend essential for image interpretation. This capability is envisaged to find application in image tagging, copyright enforcement, counterfeit protection, and controlled access. The method chosen is based on linear addition of the watermark to the image data. The patterns adopted to carry the watermark are adaptations of m-sequences in one and two dimensions. The recovery process is based on correlation, just as in standard spread spectrum receivers. The technique is quite successful for one dimensional encoding with binary patterns, as shown for a variety of gray scale test images. A discussion of extensions of the method to two dimensions, RGB format and non-binary alphabets is presented. A critical review of other watermarking techniques is included.
Aberrant promoter methylation profile of bladder cancer and its relationship to clinicopathological features. (2001)

We investigated the aberrant promoter methylation profile of bladder cancers and correlated the data with clinicopathological findings. The methylation status of 10 genes was determined in 98 surgically resected bladder cancers, and we calculated the median methylation index (MI), a reflection of the methylated fraction of the genes tested. Methylation frequencies of the genes tested in bladder cancers were 36% for CDH1, 35% for RASSF1A and APC, 29% for CDH13, 16% for FHIT, 15% for RAR beta, 11% for GSTP1, 7% for p16(INK4A), 4% for DAPK, and 2% for MGMT. Methylation of four of the individual genes (CDH1, RASSF1A, APC, and CDH13) and the MI were significantly correlated with several parameters of poor prognosis (tumor grade, growth pattern, muscle invasion, tumor stage, and ploidy pattern). Methylation of CDH1, FHIT, and a high MI were associated with shortened survival. CDH1 methylation positive status was independently associated with poor survival in multivariate analyses. Our results suggest that the methylation profile may be a potential new biomarker of risk prediction in bladder cancer.
Capacity-Approaching Turbo Coding and Iterative Decoding for Relay Channels (2005)

In this paper, we design turbo-based coding schemes for relay systems together with iterative decoding algorithms. In the proposed schemes, the source node sends coded information bits to both the relay and the destination nodes, while the relay simultaneously forwards its estimate for the previous coded block to the destination after decoding and re-encoding. The destination observes a superposition of the codewords and uses an iterative decoding algorithm to estimate the transmitted messages. Different from the block-by-block decoding techniques used in the literature, this decoding scheme operates over all the transmitted blocks jointly. Various encoding and decoding approaches are proposed for both single-input single-output and multi-input multi-output systems over several different channel models. Capacity bounds and information-rate bounds with binary inputs are also provided, and it is shown that the performance of the proposed practical scheme is typically about 1.0-1.5 dB away from the theoretical limits, and a remarkable advantage can be achieved over the direct and multihop transmission alternatives.
Parallel Plasma Field Directed Sputter Sharpening of Field Emitters (2009)

Many of the current methods to sharpen field emitters are time consuming and can only process one field emitter at a time. In this thesis, a method is proposed to parallel process multiple field emitters using a DC glow discharge plasma as the ion source in conjunction with field directed sputter sharpening methodology. With field directed sputter sharpening, a positive voltage bias is applied to the field emitter and impinging ions are repelled away from the apex of the tip to the shank of the tip. This produces a very sharp tip with radius of curvature of approximately 1 nm. A plasma system was designed and built, and tungsten tips for use in scanning tunneling microscopy (STM) applications were sputtered with argon ions. The result is that as the tip voltage bias to plasma voltage bias ratio is increased above approximately 0.1, the cone angle of the tungsten tip decreases. The radius of curvature of the tip also decreases, but the result is not always consistent and does not reach the same order of magnitude as the result achieved by field directed sputter sharpening with an ion gun. This result shows much promise and further work is necessary to refine the process and achieve consistent results.