gebhart/patrepeval huggingface dataset:
Recent advances in understanding proteasome function. (1999)

The proteasome is present in all cells, from yeast to man, where it is central to the proteolytic degradation of the vast majority of intracellular proteins. As such, many groups have examined the role of the proteasome with respect to their own specific protein(s) of interest. Consequently, literally hundreds of papers have flooded the literature. Our current review is restricted to selective proteins that play critical roles in particular disease states where major advances have been made since 1998.
Enhanced coexpression of YB‐1 and DNA topoisomerase II α genes in human colorectal carcinomas (1999)

The transcription factor YB-1 is expressed in a wide range of cell types and has been implicated in the regulation of various genes involved in cell proliferation. Nuclear expression of YB-1 is correlated with MDR-1 gene expression in breast cancer and osteosarcoma. In this study, we asked whether YB-1 expression is enhanced in human colorectral carcinoma and if it is associated with the expression of target genes such as MDR-1, DNA topoisomerase II alpha and PCNA. YB-1, DNA topoisomerase II alpha, PCNA and MDR-1 expression were assessed by Western blotting, Northern blotting and immunohistochemistry in 26 human colorectal carcinomas. The involvement of YB-1 in DNA topoisomerase II alpha gene expression was examined by transient DNA transfection assays. YB-1 was overexpressed in almost all cancerous lesions in comparison with normal mucosa in surgically resected colorectal carcinomas of 26 patients. YB-1 expression correlated well with both DNA topoisomerase II alpha and PCNA expression. In contrast, no correlation was observed between YB-1 and MDR-1 expression. We also found that a transient co-transfection with a DNA topoisomerase II alpha promoter-luciferase plasmid and an antisense YB-1 expression construct resulted in a significant reduction of the promoter activity in KM12C human colon cancer cells. YB-1 may be an excellent proliferation-associated marker and may be a transcription factor regulating DNA topoisomerase II alpha gene expression in human colorectal carcinoma.
Distinct Interactions Between c-Src and c-Met in Mediating Resistance to c-Src Inhibition in Head and Neck Cancer (2010)

Sustained c-Met activation can mediate resistance to c-Src inhibition. These data suggest that the differences between c-Met and c-Src signaling in sensitive and resistant cells are due to distinct factors promoting or inhibiting interactions, respectively, rather than to intrinsic structural changes in c-Src or c-Met. The synergistic cytotoxic effects of c-Src and c-Met inhibition may be important for the treatment of head and neck cancers.
A real-time PC-based video phone system on ISDN/LAN (1995)

A low-cost video phone system has been developed with a graphical interface on a personal computer platform. The system is based on a novel high-speed variable frame sizing approach which enables it to achieve economical, real-time performance giving "jerk-free" motion images in an integrated services digital network or local area network environment. The hardware and software design issues are presented in this paper.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Increased thermal stability of proteins in the presence of sugars and polyols (1979)

Sugars and polyols stablize proteins against heat denaturation. Scanning calorimetry was used to obtain a quantitative estimate of the degree of stabilization. Solutions of ovalbumin, lysozyme, conalbumin, and alpha-chymotrypsinogen were heated at a constant rate, and the temperature of the maximum rate of denaturation was estimated (Tm). Addition of a sugar or polyol raised Tm. The magnitude of the stabilizing effect (delta Tm) depended on both the nature of the protein and the nature of the sugar or polyol, ranging from 18.5 degrees C for lysozyme at pH 3 in the presence of 50% (w/w) sorbitol to 0 degrees C for conalbumin at pH 7 in 50% glycerol solution. It is argued that this stablization is due to the effects of sugars and polyols on hydrophobic interactions. The strength of the hydrophobic interaction was measured in model systems in sucrose and glycerol solutions. Sucrose and glycerol strengthened the pairwise hydrophobic interaction between hydrophobic groups; however, they reduced the tendency for complete transfer of hydrophobic groups from an aqueous to a nonpolar environment. The extent of stabliziation by different sugars and polyols is explained by their different influences on the structure of water. The difference between the partial molar volume of the sugar or polyol and its van der Waals volume was used as a rough quantitative measure of the structure-making or structure-breaking effect. There was a linear relationship between this quantity and delta Tm.
Multilingual Subject Access: The Linking Approach of MACS (2004)

SUMMARY The MACS (Multilingual access to subjects) project is one of the many projects that are currently exploring solutions to multilingual subject access to online catalogs. Its strategy is to develop a Web-based link and search interface through which equivalents between three Subject Heading Languages–SWD/RSWK (Schlagwortnormdatei/Regeln für den Schlagwortkatalog) for German, RAMEAU (Répertoire d'Autorité-Matière Encyclopédique et Alphabétique Unifié) for French, and LCSH (Library of Congress Subject Headings) for English–can be created and maintained, and by which users can access online databases in the language of their choice. Factors that have led to this approach will be examined and the MACS linking strategy will be explained. The trend to using mapping or linking strategies between different controlled vocabularies to create multilingual access challenges the traditional view of the multilingual thesaurus.
Unsupervised Deep Visual-Inertial Odometry with Online Error Correction for RGB-D Imagery (2019)

While numerous deep approaches to the problem of vision-aided localization have been recently proposed, systems operating in the real world will undoubtedly experience novel sensory states previously unseen even under the most prodigious training regimens. We address the localization problem with online error correction (OEC) modules that are trained to correct a vision-aided localization network's mistakes. We demonstrate the generalizability of the OEC modules and describe our unsupervised deep neural network approach to the fusion of RGB-D imagery with inertial measurements for absolute trajectory estimation. Our network, dubbed the Visual-Inertial-Odometry Learner (VIOLearner), learns to perform visual-inertial odometry (VIO) without inertial measurement unit (IMU) intrinsic parameters or the extrinsic calibration between an IMU and camera. The network learns to integrate IMU measurements and generate hypothesis trajectories which are then corrected online according to the Jacobians of scaled image projection errors with respect to spatial grids of pixel coordinates. We evaluate our network against state-of-the-art (SoA) VIO, visual odometry (VO), and visual simultaneous localization and mapping (VSLAM) approaches on the KITTI Odometry dataset as well as a micro aerial vehicle (MAV) dataset that we collected in the AirSim simulation environment. We demonstrate better than SoA translational localization performance against comparable SoA approaches on our evaluation sequences.
CXCL12 activation of CXCR4 regulates mucosal host defense through stimulation of epithelial cell migration and promotion of intestinal barrier integrity (2004)

Intestinal epithelial cell migration plays a key role in gastrointestinal mucosal barrier formation, enterocyte development, differentiation, turnover, wound healing, and adenocarcinoma metastasis. Chemokines, through engagement of their corresponding receptors, are potent mediators of directed cell migration and are critical in the establishment and regulation of innate and adaptive immune responses. The aim of this study was to define the role for the chemokine CXCL12 and its sole cognate receptor CXCR4 in regulating intestinal epithelial cell migration and to determine its impact on barrier integrity. CXCL12 stimulated the dose-dependent chemotactic migration of human T84 colonic epithelial cells. Epithelial cell migration was inhibited by CXCR4 neutralizing antibody, pertussis toxin, LY-294002, and PD-98059, thereby implicating Galpha(i), phosphatidylinositol 3-kinase (PI3-kinase), and the ERK1/2 MAP kinase pathways in CXCR4-specific signaling. CXCL12 was also shown to increase barrier integrity, as defined by transepithelial resistance and paracellular flux across differentiating T84 monolayers. To determine whether CXCL12 regulated epithelial restitution, we used the normal nontransformed intestinal epithelial cell-6 (IEC-6) wound healing model. By using RT-PCR, immunoblot analysis, and immunofluorescence microscopy, we first showed expression of both CXCR4 and its ligand by IEC-6 cells. We then demonstrated that CXCL12 activated comparable signaling mechanisms to stimulate epithelial migration in the absence of proliferation in wounded IEC-6 monolayers. Taken together, these data indicate that CXCL12 signaling via CXCR4 directs intestinal epithelial cell migration, barrier maturation, and restitution, consistent with an important mechanistic role for these molecules in mucosal barrier integrity and innate host defense.
Quantifying the Dynamics of Bacterial Secondary Metabolites by Spectral Multiphoton Microscopy (2011)

Phenazines, a group of fluorescent small molecules produced by the bacterium Pseudomonas aeruginosa, play a role in maintaining cellular redox homeostasis. Phenazines have been challenging to study in vivo due to their redox activity, presence both intra- and extracellularly, and their diverse chemical properties. Here, we describe a noninvasive in vivo optical technique to monitor phenazine concentrations within bacterial cells using time-lapsed spectral multiphoton fluorescence microscopy. This technique enables simultaneous monitoring of multiple weakly fluorescent molecules (phenazines, siderophores, NAD(P)H) expressed by bacteria in culture. This work provides the first in vivo measurements of reduced phenazine concentration as well as the first description of the temporal dynamics of the phenazine-NAD(P)H redox system in Pseudomonas aeruginosa, illuminating an unanticipated role for 1-hydroxyphenazine. Similar approaches could be used to study the abundance and redox dynamics of a wide range of small molecules within bacteria, both as single cells and in communities.
Ketorolac-dextran conjugates: Synthesis, in vitro and in vivo evaluation (2007)

Ketorolac is a non-steroidal anti-inflammatory drug. Dextran conjugates of ketorolac (KD) were synthesized and characterized to improve ketorolac aqueous solubility and reduce gastrointestinal side effects. An N-acylimidazole derivative of ketorolac (KAI) was condensed with a model carrier polymer, dextran of different molecular masses (40000, 60000, 110000 and 200000). IR spectral data confirmed formation of ester bonding. Ketorolac contents were evaluated by UV-spectrophotometric analysis. The molecular mass was determined by measuring viscosity using the Mark-Howink-Sakurada equation. In vitro hydrolysis studies were performed in aqueous buffers (pH 1.2, 7.4, 9) and in 80% (V/V) human plasma (pH 7.4). At pH 9, a higher rate of ketorolac release from KD was observed as compared to aqueous buffer of pH 7.4 and 80% human plasma (pH 7.4), following first-order kinetics. In vivo biological screening in mice and rats indicated that conjugates retained analgesic and anti-inflammatory activities with significantly reduced ulcerogenicity compared to the parent drug.
Knockdown of STAT3 expression by RNAi induces apoptosis in astrocytoma cells (2003)

These results show that STAT3 is required for the survival of some astrocytomas. These studies suggest STAT3 siRNA could be a useful therapeutic agent for the treatment of astrocytomas.
PlantPAN: Plant promoter analysis navigator, for identifying combinatorial cis-regulatory elements with distance constraint in plant gene groups (2008)

In addition to providing a user-friendly input/output interface, PlantPAN has numerous advantages in the analysis of a plant promoter. Several case studies have established the effectiveness of PlantPAN. This novel analytical resource is now freely available at http://PlantPAN.mbc.nctu.edu.tw.
Surface-enhanced Raman scattering of p-aminobenzoic acid at silver electrode (1990)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSurface-enhanced Raman scattering of p-aminobenzoic acid at silver electrodeHongkun. Park, Sang Bok. Lee, Kwan. Kim, and Myung Soo. KimCite this: J. Phys. Chem. 1990, 94, 19, 7576–7580Publication Date (Print):September 1, 1990Publication History Published online1 May 2002Published inissue 1 September 1990https://pubs.acs.org/doi/10.1021/j100382a049https://doi.org/10.1021/j100382a049research-articleACS PublicationsRequest reuse permissionsArticle Views972Altmetric-Citations117LEARN 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 options Get e-Alerts
The Secure Sockets Layer (SSL) Protocol Version 3.0 (2011)

of the SSL 3.0 protocol.The original Abstract follows.This document specifies version 3.0 of the Secure Sockets Layer (SSL 3.0) protocol, a security protocol that provides communications privacy over the Internet.The protocol allows client/server applications to communicate in a way that is designed to prevent eavesdropping, tampering, or message forgery. ForewordAlthough the SSL 3.0 protocol is a widely implemented protocol, a pioneer in secure communications protocols, and the basis for Transport Layer Security (TLS), it was never formally published by the IETF, except in several expired Internet-Drafts.This allowed no easy referencing to the protocol.We believe a stable reference to the original document should exist and for that reason, this document describes what is known as the last published version of the SSL 3.0 protocol, that is, the November 18, 1996, version of the protocol.There were no changes to the original document other than trivial editorial changes and the addition of a "Security Considerations" section.However, portions of the original document that no longer apply were not included.Such as the "Patent Statement" section, the "Reserved Ports Assignment" section, and the cipher-suite registrator note in the "The CipherSuite" section.The "US export rules" discussed in the document do not apply today but are kept intact to provide context for decisions taken in protocol design.The "Goals of This Document" section indicates the goals for adopters of SSL 3.0, not goals of the IETF.
Why Binaural Cue Coding is Better than Intensity Stereo Coding (2002)

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Goblet Cell Numbers and Epithelial Proliferation in the Conjunctiva of Patients With Dry Eye Syndrome Treated With Cyclosporine (2002)

Treatment of dry eye syndrome for 6 months with topical CsA resulted in an increase in goblet cell numbers in patients with NSS-KCS and SS-KCS and a decrease in epithelial turnover in those with NSS-KCS. Reducing ocular surface inflammation might have an effect on the proliferative activity of the epithelium.
CsBi 4 Te 6 : A High-Performance Thermoelectric Material for Low-Temperature Applications (2000)

Thermoelectric (Peltier) heat pumps are capable of refrigerating solid or fluid objects, and unlike conventional vapor compressor systems, they can be miniaturized without loss of efficiency. More efficient thermoelectric materials need to be identified, especially for low-temperature applications in electronics and devices. The material CsBi(4)Te(6) has been synthesized and its properties have been studied. When doped appropriately, it exhibits a high thermoelectric figure of merit below room temperature (ZT(max) approximately 0.8 at 225 kelvin). At cryogenic temperatures, the thermoelectric properties of CsBi(4)Te(6) appear to match or exceed those of Bi(2-x)Sb(x)Te(3-y)Se(y) alloys.
Protein tyrosine phosphatase PTP1B suppresses p210 bcr-abl-induced transformation of Rat-1 fibroblasts and promotes differentiation of K562 cells (1998)

The bcr-abl chimeric oncoprotein exhibits deregulated protein tyrosine kinase activity and is implicated in the pathogenesis of Philadelphia chromosome (Ph)-positive human leukemias, such as chronic myelogenous leukemia (CML). Recently we have shown that the levels of the protein tyrosine phosphatase PTP1B are enhanced in p210 bcr-abl-expressing cell lines. Furthermore, PTP1B recognizes p210 bcr-abl as a substrate, disrupts the formation of a p210 bcr-abl/Grb2 complex, and inhibits signaling events initiated by this oncoprotein PTK. In this report, we have examined whether PTP1B effects transformation induced by p210 bcr-abl. We demonstrate that expression of either wild-type PTP1B or the substrate-trapping mutant form of the enzyme (PTP1B-D181A) in p210 bcr-abl-transformed Rat-1 fibroblasts diminished the ability of these cells to form colonies in soft agar, to grow in reduced serum, and to form tumors in nude mice. In contrast, TCPTP, the closest relative of PTP1B, did not effect p210 bcr-abl-induced transformation. Furthermore, neither PTP1B nor TCPTP inhibited transformation induced by v-Abl. In addition, overexpression of PTP1B or treatment with CGP57148, a small molecule inhibitor of p210 bcr-abl, induced erythroid differentiation of K562 cells, a CML cell line derived from a patient in blast crisis. These data suggest that PTP1B is a selective, endogenous inhibitor of p210 bcr-abl and is likely to be important in the pathogenesis of CML.
Polyploidy and Crop Improvement (2006)

All crop plants are polyploid and some genomes have been duplicated more recently than others. Advancements in cytogenetic and molecular tools, including high‐density genetic mapping, florescent in situ hybridization, and genome and EST sequencing, have enabled new insights into genome composition and the history of genome duplications in crop plants. We review this evidence and discuss the relevance of genome duplication to crop improvement. Polyploidy provides genome buffering, increased allelic diversity and heterozygosity, and permits novel phenotypic variation to be generated. Polyploid formation is often accompanied with loss of duplicated chromatin, changes in gene expression, novel epistatic interactions, and endosperm effects. All of these factors need be considered in a genome‐wide context for optimizing marker assisted selection and crop plant improvement.
Heavy metal ions inhibit molybdoenzyme activity by binding to the dithiolene moiety of molybdopterin in Escherichia coli (2008)

Molybdenum insertion into the dithiolene group on the 6-alkyl side-chain of molybdopterin is a highly specific process that is catalysed by the MoeA and MogA proteins in Escherichia coli. Ligation of molybdate to molybdopterin generates the molybdenum cofactor, which can be inserted directly into molybdoenzymes binding the molybdopterin form of the molybdenum cofactor, or is further modified in bacteria to form the dinucleotide form of the molybdenum cofactor. The ability of various metals to bind tightly to sulfur-rich sites raised the question of whether other metal ions could be inserted in place of molybdenum at the dithiolene moiety of molybdopterin in molybdoenzymes. We used the heterologous expression systems of human sulfite oxidase and Rhodobacter sphaeroides dimethylsulfoxide reductase in E. coli to study the incorporation of different metal ions into the molybdopterin site of these enzymes. From the added metal-containing compounds Na(2)MoO(4), Na(2)WO(4), NaVO(3), Cu(NO(3))(2), CdSO(4) and NaAsO(2) during the growth of E. coli, only molybdate and tungstate were specifically inserted into sulfite oxidase and dimethylsulfoxide reductase. Other metals, such as copper, cadmium and arsenite, were nonspecifically inserted into sulfite oxidase, but not into dimethylsulfoxide reductase. We showed that metal insertion into molybdopterin occurs beyond the step of molybdopterin synthase and is independent of MoeA and MogA proteins. Our study shows that the activity of molybdoenzymes, such as sulfite oxidase, is inhibited by high concentrations of heavy metals in the cell, which will help to further the understanding of metal toxicity in E. coli.
Logical Computation on Stochastic Bit Streams with Linear Finite-State Machines (2012)

Most digital systems operate on a positional representation of data, such as binary radix. An alternative is to operate on random bit streams where the signal value is encoded by the probability of obtaining a one versus a zero. This representation is much less compact than binary radix. However, complex operations can be performed with very simple logic. Furthermore, since the representation is uniform, with all bits weighted equally, it is highly tolerant of soft errors (i.e., bit flips). Both combinational and sequential constructs have been proposed for operating on stochastic bit streams. Prior work has shown that combinational logic can implement multiplication and scaled addition effectively while linear finite-state machines (FSMs) can implement complex functions such as exponentiation and tanh effectively. Prior work on stochastic computation has largely been validated empirically.This paper provides a rigorous mathematical treatment of stochastic implementation of complex functions such as exponentiation and tanh implemented using linear FSMs. It presents two new functions, an absolute value function and exponentiation based on an absolute value, motivated by specific applications. Experimental results show that the linear FSM-based constructs for these functions have smaller area-delay products than the corresponding deterministic constructs. They also are much more tolerant of soft errors.
Structures and Mechanisms of Viral Membrane Fusion Proteins: Multiple Variations on a Common Theme (2008)

Recent work has identified three distinct classes of viral membrane fusion proteins based on structural criteria. In addition, there are at least four distinct mechanisms by which viral fusion proteins can be triggered to undergo fusion-inducing conformational changes. Viral fusion proteins also contain different types of fusion peptides and vary in their reliance on accessory proteins. These differing features combine to yield a rich diversity of fusion proteins. Yet despite this staggering diversity, all characterized viral fusion proteins convert from a fusion-competent state (dimers or trimers, depending on the class) to a membrane-embedded homotrimeric prehairpin, and then to a trimer-of-hairpins that brings the fusion peptide, attached to the target membrane, and the transmembrane domain, attached to the viral membrane, into close proximity thereby facilitating the union of viral and target membranes. During these conformational conversions, the fusion proteins induce membranes to progress through stages of close apposition, hemifusion, and then the formation of small, and finally large, fusion pores. Clearly, highly divergent proteins have converged on the same overall strategy to mediate fusion, an essential step in the life cycle of every enveloped virus.