gebhart/patrepeval huggingface dataset:
Gas6 and protein S (2006)

Gas6 and protein S are two homologous secreted proteins that depend on vitamin K for their execution of a range of biological functions. A discrete subset of these functions is mediated through their binding to and activation of the receptor tyrosine kinases Axl, Sky and Mer. Furthermore, a hallmark of the Gas6-Axl system is the unique ability of Gas6 and protein S to tether their non receptor-binding regions to the negatively charged membranes of apoptotic cells. Numerous studies have shown the Gas6-Axl system to regulate cell survival, proliferation, migration, adhesion and phagocytosis. Consequently, altered activity/expression of its components has been detected in a variety of pathologies such as cancer and vascular, autoimmune and kidney disorders. Moreover, Axl overactivation can equally occur without ligand binding, which has implications for tumorigenesis. Further knowledge of this exquisite ligand-receptor system and the circumstances of its activation should provide the basis for development of novel therapies for the above diseases.
IgG or IgM monoclonal antibodies reactive with different determinants on the molecular complex bearing Lyt 2 antigen block T cell-mediated cytolysis in the absence of complement. (1980)

Five rat monoclonal antibodies have been derived that express specificities for determinants present on the molecular complex bearing the Lyt 2 antigen. SDS-polyacrylamide gel electrophoresis of 125I-labeled polypeptides precipitated by each of these antibodies reveal 3 components (150,000, 75,000, and 33,000 daltons), and 2 components (44,000 and 33,000 daltons) when analyzed under nonreducing and reducing conditions, respectively. Two of these antibodies are IgG and are specific for the Lyt 2.2 determinant; the other 3 are IgM and react with determinants other than Lyt 2.2, which are nonpolymorphic. Each of the 5 antibodies can block the cytolytic activities of 5-day MLC cells or of cloned cytolytic T cells in the absence of C. Treatment of responding spleen cells with any of these antibodies and C inhibits the generation of cytolytic activity in MLC.
Properties of antitumor anthracyclines and new developments in their application: Cain memorial award lecture. (1985)

The established efficacy of doxorubicin in the medical treatment of cancer is hampered by dose limiting side effects and lack of activity on major clinical tumors. The new derivative epirubicin (4'-epidoxorubicin) is already available clinically as a better tolerated drug, with confirmed efficacy on doxorubicin responsive diseases. Because of the different orientation of the 4'-hydroxyl, the compound is partially detoxified in the human body by beta-glucuronidation. The other clinically studied analogue, idarubicin (4-demethoxydaunorubicin), has shown clinical activity in leukemias and in breast tumors also when given p.o. The properties of idarubicin may be related to electronic factors and to the extensive bioconversion to 13(S)-idarubicinol. New lines of investigation are introduced. The first is represented by the irreversible DNA binding derivatives and is exemplified by the highly potent cyanomorpholino analogues. The second is based on the finding that certain structural modifications, such as in the 6-deoxy derivatives, are accompanied by resistance to enzymic reductive deglycosidation, a reaction that converts the anthracyclines to inactive compounds in hypoxic conditions. The third line of investigation deals with the very lipophilic doxorubicin analogues, among which 4'-deoxy-4'-iododoxorubicin has been selected for further preclinical development because of the extended spectrum of activity also after p.o. administration and of the cytotoxicity exhibited on doxorubicin-resistant murine leukemia cells.
Audio Signal Processing for Next-Generation Multimedia Communication Systems (2004)

Preface. Contributing Authors. 1: Introduction Yiteng (Arden) Huang, J. Benesty. 1. Multimedia Communications. 2. Challenges and Opportunities. 3. Organization of the Book. I: Speech Acquisition and Enhancement. 2: Differential Microphone Arrays G.W. Elko. 1. Introduction. 2. Differential Microphone Arrays. 3. Array Directional Gain. 4. Optimal Arrays for Isotropic Fields. 5. Design Examples. 6. Sensitivity to Microphone Mismatch and Noise. 7. Conclusions. 3: Spherical Microphone Arrays for 3D Sound Recording J. Meyer, G.W. Elko. 1. Introduction. 2. Fundamental Concept. 3. The Eigenbeamformer. 4. Modal-Beamformer. 5. Robustness Measure. 6. Beampattern Design. 7. Measurements. 8. Summary. 9. Appendix A. 4: Subband Noise Reduction Methods for Speech Enhancement E.J. Diethorn. 1. Introduction. 2. Wiener Filtering. 3. Speech Enhancement by Short-Time Spectral Modification. 4. Averaging Techniques for Envelope Estimation. 5. Example Implementation. 6. Conclusion. II: Acoustic Echo Cancellation. 5: Adaptive Algorithms for MIMO Acoustic Echo Cancellation J. Benesty, T. Gansler, Yiteng (Arden) Huang, M. Rupp. 1. Introduction. 2. Normal Equations and Identification of a MIMO System. 3. The Classical and Factorized Multichannel RLS. 4. The Multichannel Fast RLS. 5. TheMultichannel LMS Algorithm. 6. The Multichannel APA. 7. The Multichannel Exponentiated Gradient Algorithm. 8. The Multichannel Frequency-domain Adaptive Algorithm. 9. Conclusions. 6: Double-talk Detectors for Acoustic Echo Cancellers T. Gansler, J. Benesty. 1. Introduction. 2. Basics of AEC and DTD. 3. Double-talk Detection Algorithms. 4. Comparison of DTDs by Means of the ROC. 5. Discussion. 7: The WinEC: A Real-Time Hands-Free Stereo Communication System T. Gansler, V. Fischer, E.J. Diethorn, J. Benesty. 1. Introduction. 2. System Description. 3. Algorithms of the Echo Canceller Module. 4. Residual Echo and Noise Suppression. 5. Simulations. 6. Real-Time Tests with Different Modes of Operation. 7. Discussion. III: Sound Source Tracking and Separation. 8: Time Delay Estimation Jingdong Chen, Yiteng (Arden) Huang, J. Benesty. 1. Introduction. 2. Signal Models. 3. Generalized Cross-Correlation Method. 4. The Multichannel Cross-Correlation Algorithm. 5. Adaptive Eigenvalue Decomposition Algorithm. 6. Adaptive Multichannel Time Delay Estimation. 7. Experiments. 8. Conclusions. 9: Source Localization Yiteng (Arden) Huang, J. Benesty, G.W. Elko. 1. Introduction. 2. Source Localization Problem. 3. Measurement Model and Cramer-Rao lower Bound for Source Localization. 4. Maximum Liklihood Estimator. 5. Least Squares Estimate. 6. Example
Saline hydrides and superbases in organic reactions. IX. Acetylene zipper. Exceptionally facile contrathermodynamic multipositional isomeriazation of alkynes with potassium 3-aminopropylamide (1975)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSaline hydrides and superbases in organic reactions. IX. Acetylene zipper. Exceptionally facile contrathermodynamic multipositional isomeriazation of alkynes with potassium 3-aminopropylamideCharles Allan Brown and Ayako YamashitaCite this: J. Am. Chem. Soc. 1975, 97, 4, 891–892Publication Date (Print):February 1, 1975Publication History Published online1 May 2002Published inissue 1 February 1975https://pubs.acs.org/doi/10.1021/ja00837a034https://doi.org/10.1021/ja00837a034research-articleACS PublicationsRequest reuse permissionsArticle Views4011Altmetric-Citations173LEARN 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
Age-Related Changes in Vascular Endothelial Growth Factor Dependency and Angiopoietin-1-Induced Plasticity of Adult Blood Vessels (2004)

Vascular endothelial growth factor (VEGF) and angiopoietin-1 (Ang1) are essential for vascular development, but this dependency has been assumed not to persist into adult life. In this study, we report that after 10 days of systemic treatment of 4-, 8-, and 16-week-old mice with VEGF-Trap, an inhibitor of VEGF, the number of capillaries in the tracheal mucosa was reduced by 39%, 28%, and 14%, respectively. The magnitude of the reduction decreased with age (r2=0.6, P<0.001), but was still significant at 16 weeks. A corresponding age-related decrease in vascular endothelial growth factor receptor-2 (VEGFR-2) immunoreactivity suggests that diminished VEGFR-2 expression may contribute to resistance to VEGF signaling inhibition. VEGF-Trap further reduced VEGFR-2 expression in tracheal capillaries. By comparison, systemic treatment with adenovirus encoding Ang1 led to a significant enlargement of tracheal venules with little age effect (64%, 56%, and 49% increase in diameter at 10 days). When Ang1 was given in combination with VEGF-Trap, tracheal vessels presented the typical response to each factor, showing that the Ang1 effect was not VEGF-mediated, yet Ang1 seems to have a protective effect, as judged by prevention of VEGF-Trap-induced reduction in tracheal capillaries in the oldest group. Together, these findings indicate that VEGF and Ang1 participate in blood vessel survival and plasticity in adult life.
Response of human dendritic cells to different immunomodulatory polysaccharides derived from mushroom and barley (2007)

Polysaccharides derived from fungi and plants have been increasingly used as dietary supplement with therapeutic intention for cancer. However, whether these polysaccharides from different sources and structures can elicit similar immunological effects remain unknown. This study aims to investigate and compare the effects of selected groups of purified and crude polysaccharides on human dendritic cells (DCs), the most potent antigen-presenting cells. The selected polysaccharides were from Ganoderma lucidum [(GL) Lingzhi, Reishi], a medicinal mushroom commonly used by oriental; and barley glucan, a purified polysaccharide with known in vivo immunomodulating effect. We found that purified polysaccharides from GL mycelium could induce human PBMC proliferation and phenotypic and functional maturation of DCs with significant IL-12 and IL-10 production. Polysaccharides of GL spore and barley were both rather weak immunostimulator in vitro. In general, all these polysaccharides did not polarize T cells into either T(h)1 or T(h)2 or regulatory T cells, except for crude spore polysaccharides-treated DCs which could suppress T cell proliferation with IL-10 production. This study revealed the polysaccharides of different sources have different immune potency and effect on human immune cells including DCs. Our study also provides a reproducible biological platform for comparing the potential therapeutic effects of different herbal-derived polysaccharides in the future.
Noninvasive Alcohol Monitoring Using a Wearable Tattoo-Based Iontophoretic-Biosensing System (2016)

In this paper we demonstrate a wearable tattoo-based alcohol biosensing system for noninvasive alcohol monitoring in induced sweat. The skin-worn alcohol monitoring platform integrates an iontophoretic-biosensing temporary tattoo system along with flexible wireless electronics. The wearable prototype enables the transdermal delivery of the pilocarpine drug to induce sweat via iontophoresis and amperometric detection of ethanol in the generated sweat using the alcohol-oxidase enzyme and the Prussian Blue electrode transducer. The new skin-compliant biosensor displays a highly selective and sensitive response to ethanol. On-body results with human subjects show distinct differences in the current response before and after alcohol consumption, reflecting the increase of ethanol levels. The skin-worn alcohol sensor is coupled with a flexible electronics board, which controls the iontophoresis/amperometry operation and transmits data wirelessly in real time via Bluetooth communication. The new wireless epidermal iontophoretic-biosensing system offers considerable promise for noninvasive monitoring of alcohol consumption in practical settings and can be readily expanded toward the monitoring of additional analytes.
Phylogenetic and phylogenomic overview of the Polyporales (2013)

We present a phylogenetic and phylogenomic overview of the Polyporales. The newly sequenced genomes of Bjerkandera adusta, Ganoderma sp., and Phlebia brevispora are introduced and an overview of 10 currently available Polyporales genomes is provided. The new genomes are 39 500 000-49 900 00 bp and encode for 12 910-16 170 genes. We searched available genomes for single-copy genes and performed phylogenetic informativeness analyses to evaluate their potential for phylogenetic systematics of the Polyporales. Phylogenomic datasets (25, 71, 356 genes) were assembled for the 10 Polyporales species with genome data and compared with the most comprehensive dataset of Polyporales to date (six-gene dataset for 373 taxa, including taxa with missing data). Maximum likelihood and Bayesian phylogenetic analyses of genomic datasets yielded identical topologies, and the corresponding clades also were recovered in the 373-taxa dataset although with different support values in some datasets. Three previously recognized lineages of Polyporales, antrodia, core polyporoid and phlebioid clades, are supported in most datasets, while the status of the residual polyporoid clade remains uncertain and certain taxa (e.g. Gelatoporia, Grifola, Tyromyces) apparently do not belong to any of the major lineages of Polyporales. The most promising candidate single-copy genes are presented, and nodes in the Polyporales phylogeny critical for the suprageneric taxonomy of the order are identified and discussed.
Coupling Desorption Electrospray Ionization with Ion Mobility/Mass Spectrometry for Analysis of Protein Structure:  Evidence for Desorption of Folded and Denatured States (2006)

A desorption electrospray ionization (DESI) source has been coupled to an ion mobility time-of-flight mass spectrometer for the analysis of proteins. Analysis of solid-phase horse heart cytochrome c and chicken egg white lysozyme proteins with different DESI solvents and conditions shows similar mass spectra and charge state distributions to those formed when using electrospray to analyze these proteins in solution. The ion mobility data show evidence for compact ion structures [when the surface is exposed to a spray that favors retention of "nativelike" structures (50:50 water:methanol)] or elongated structures [when the surface is exposed to a spray that favors "denatured" structures (49:49:2 water:methanol:acetic acid)]. The results suggest that the DESI experiment is somewhat gentler than ESI and under appropriate conditions, it is possible to preserve structural information throughout the DESI process. Mechanisms that are consistent with these results are discussed.
RNA abundance measured by a lysate RNase protection assay. (1992)

We describe a sensitive ribonuclease protection assay that we have used to measure the amount of interferon-beta RNA directly in lysates of human cells. Cell lysates were prepared in concentrated guanidine thiocyanate. Molecular hybridization with RNA probes was then performed directly in crude cell lysate, and native RNase-resistant duplexes were characterized by polyacrylamide gel electrophoresis. Comparison of interferon-beta RNA abundance by quantitative solution hybridization and lysate RNase protection showed that lysate RNase protection was highly quantitative. A high degree of reproducibility of the method was determined with a glyceraldehyde-3-phosphate dehydrogenase "housekeeping" gene probe. Sensitivity of lysate RNase protection was determined using both induced interferon-beta RNA and synthetic human endogenous reverse transcriptase RNA as target. The lysate RNase protection method was able to measure as few as 10(4)-10(5) RNA molecules.
Development of autonomous mobile humanoid robot (2003)

The authors built a humanoid robot which behaves the same as the human in the space concerned. The mechanism and functions, such as vision sensor, acoustic sensor and loudspeaker, are mounted on this robot in order that the multi modal bidirectional communication between the robot and the human is possible. The authors adopted parallel processing by multi CPUs. The computers in the robot body are mutually connected by an Ethernet LAN. This LAN consists of the cerebrum system LAN and the motion system LAN in which a robot can quickly perform conditioned reflex actions as well as a human does. By using a wireless LAN, the LAN in a robot is connected to the outside LAN connecting the computers for software development and system support. In this paper, the outline of the developed humanoid robot is described.
Interaction of Calcium with Native and Decarboxylated Human Factor X. (1997)

Human factor X is a two-chain, 58-kDa, vitamin K-dependent blood coagulation zymogen. The light chain of factor X consists of an NH2-terminal gamma-carboxyglutamic acid (Gla) domain, followed by a few helical hydrophobic residues and the two epidermal growth factor-like domains, whereas the heavy chain contains the serine protease domain. In this study, native factor X was found to contain three classes of Ca2+-binding sites: two high affinity (Kd 100 +/- 30 microM), four intermediate affinity (Kd 450 +/- 70 microM), and five to six low affinity (Kd 2 +/- 0.2 mM). Decarboxylated factor X in which the Gla residues were converted to Glu retained the two high affinity sites (Kd 140 +/- 20 microM). In contrast, factor X lacking the Gla domain as well as a part of the helical hydrophobic residues (des-44-X) retained only one high affinity Ca2+-binding site (Kd 130 +/- 20 microM). Moreover, a synthetic peptide composed of residues 238-277 (58-97 in chymotrypsinogen numbering) from the protease domain of factor X bound one Ca2+ with high affinity (Kd 150 +/- 20 microM). From competitive inhibition assays for binding of active site-blocked factor Xa to factor Va in the prothrombinase complex, the Kd for peptide-Va interaction was calculated to be approximately 10 microM as compared with 30 pM for factor Xa and approximately 1.5 microM for decarboxylated factor Xa. A peptide containing residues 238-262(58-82) bound Ca2+ with reduced affinity (Kd approximately 600 microM) and did not inhibit Xa:Va interaction. In contrast, a peptide containing residues 253-277(73-97) inhibited Xa:Va interaction (Kd approximately 10 microM) but did not bind Ca2+. In additional studies, Ca2+ increased the amidolytic activity of native and des-44-Xa toward a tetrapeptide substrate (benzoyl-Ile-Glu-Gly-Arg-p-nitroanilide) by approximately 1.6-fold. The half-maximal increase was observed at approximately 150 microM Ca2+ and the effect was primarily on the kcat. Ca2+ also significantly protected cleavage at Arg-332-Gln-333(150-151) in the protease domain autolysis loop. Des-44-Xa in which the autolysis loop was cleaved possessed </=5% of the amidolytic activity of the noncleaved form; however, the S1 binding site was not affected, as determined by the p-aminobenzamidine binding. Additionally, autolysis loop-cleaved, active site-blocked native factor Xa was calculated to have approximately 10-fold reduced affinity for factor Va as compared with that of the noncleaved form.
Graded reoxygenation with chemical inhibition of oxidative phosphorylation improves posthypoxic recovery in murine hippocampal slices (2003)

Rapid and complete tissue reoxygenation is a prime goal of present stroke therapy. However, reoxygenation may trigger detrimental cascades that partially antagonize beneficial effects. It was our goal to investigate selective grading of reoxygenation with targeting of single mitochondrial complexes in murine hippocampal slices. Population spike amplitude (PSAP) and NADH were measured during hypoxic hypoxia (15 min) and recovery (45 min). With onset of reoxygenation, slices were treated for different times with amobarbital (1 mM), malonate (2 mM), or cyanide (1 mM), inhibitors of mitochondrial complex I, II, or IV, respectively. Other slices were treated with nicotinamide (1 mM). Posthypoxic recovery of PSAP increased from 32% +/- 43% of onset in control slices to 52% +/- 59% (P <.05) upon treatment with amobarbital for 1 min and to 62% +/- 37% (P <.05) upon treatment with malonate. With nicotinamide, posthypoxic recovery improved to 73% +/- 25% (P <.05). Oxidation of NADH was prolonged upon treatment with amobarbital, whereas no change in NADH oxidation was observed with malonate and nicotinamide. Thus, grading of reoxygenation with selective targeting of mitochondrial complex I or II but not of complex IV improves outcome upon reoxygenation in murine hippocampal slices.
Development of a microfluidic device for the maintenance and interrogation of viable tissue biopsies (2008)

A microfluidic based experimental methodology has been developed that offers a biomimetic microenvironment in which pseudo in vivo tissue studies can be carried out under in vitro conditions. Using this innovative technique, which utilizes the inherent advantages of microfluidic technology, liver tissue has been kept in a viable and functional state for over 70 h during which time on-chip cell lysis has been repeatedly performed. Tissue samples were also disaggregated in situ on-chip into individual primary cells, using a collagenase digestion procedure, enabling further cell analysis to be carried out off-line. It is anticipated that this methodology will have a wide impact on biological and clinical research in fields such as cancer prognosis and treatment, drug development and toxicity, as well as enabling better fundamental research into tissue/cell processes.