gebhart/patrepeval huggingface dataset:
Cannabis and the brain (2003)

The active compound in herbal cannabis, Delta(9)-tetrahydrocannabinol, exerts all of its known central effects through the CB(1) cannabinoid receptor. Research on cannabinoid mechanisms has been facilitated by the availability of selective antagonists acting at CB(1) receptors and the generation of CB(1) receptor knockout mice. Particularly important classes of neurons that express high levels of CB(1) receptors are GABAergic interneurons in hippocampus, amygdala and cerebral cortex, which also contain the neuropeptides cholecystokinin. Activation of CB(1) receptors leads to inhibition of the release of amino acid and monoamine neurotransmitters. The lipid derivatives anandamide and 2-arachidonylglycerol act as endogenous ligands for CB(1) receptors (endocannabinoids). They may act as retrograde synaptic mediators of the phenomena of depolarization-induced suppression of inhibition or excitation in hippocampus and cerebellum. Central effects of cannabinoids include disruption of psychomotor behaviour, short-term memory impairment, intoxication, stimulation of appetite, antinociceptive actions (particularly against pain of neuropathic origin) and anti-emetic effects. Although there are signs of mild cognitive impairment in chronic cannabis users there is little evidence that such impairments are irreversible, or that they are accompanied by drug-induced neuropathology. A proportion of regular users of cannabis develop tolerance and dependence on the drug. Some studies have linked chronic use of cannabis with an increased risk of psychiatric illness, but there is little evidence for any causal link. The potential medical applications of cannabis in the treatment of painful muscle spasms and other symptoms of multiple sclerosis are currently being tested in clinical trials. Medicines based on drugs that enhance the function of endocannabinoids may offer novel therapeutic approaches in the future.
Carbohydrate Binding Modules: Biochemical Properties and Novel Applications (2006)

Polysaccharide-degrading microorganisms express a repertoire of hydrolytic enzymes that act in synergy on plant cell wall and other natural polysaccharides to elicit the degradation of often-recalcitrant substrates. These enzymes, particularly those that hydrolyze cellulose and hemicellulose, have a complex molecular architecture comprising discrete modules which are normally joined by relatively unstructured linker sequences. This structure is typically comprised of a catalytic module and one or more carbohydrate binding modules (CBMs) that bind to the polysaccharide. CBMs, by bringing the biocatalyst into intimate and prolonged association with its substrate, allow and promote catalysis. Based on their properties, CBMs are grouped into 43 families that display substantial variation in substrate specificity, along with other properties that make them a gold mine for biotechnologists who seek natural molecular "Velcro" for diverse and unusual applications. In this article, we review recent progress in the field of CBMs and provide an up-to-date summary of the latest developments in CBM applications.
An 88-way multiprocessor within an FPGA with customizable instructions (2004)

Summary form only given. The architecture of modern FPGAs contain over one thousand small memory banks, over five hundred 4k-bit memory banks, and over one hundred thousand logic elements. This inherent parallelism of an FPGA makes it an ideal platform for a multiprocessor architecture. In addition to embedded memory, numerous ASIC multipliers are embedded into the FPGA architecture. This paper introduces a single-instruction-multiple-data (SIMD) system comprised of 2, 4, 8, 16, 32, 64 and 88 processing elements that are built around the ASIC multipliers and controlled by a central instruction stream. In addition to the function of the ASIC multiplier, we have augmented each PE with "custom instructions" to show how the instruction set can be extended. The 88 processors SIMD design utilizes 100% of the DSP blocks available in the Altera Stratix EPS80F1508C6 device, but only 17% of the look-up table logic, which leaves 83% of the logic cells available for custom instructions.
Prostaglandin A Compounds as Antiviral Agents (1980)

Prostaglandins of the A series strongly inhibit the production of Sendai virus in African green monkey kidney cells and are able to prevent the establishment of persistent infection ("carrier" state). This action is specific for prostaglandin A and is not due to alteration in the host cell metabolism or in the virus infectivity. The possibility that this effect is mediated by interferon is discussed.
Mechanically Tuneable, Cavity-Stabilized, Millimeter-Wave IMPATT Oscillators (2005)

The paper describes prototype results on mechanically-tuneable, cavity-stabilized, V-band and W-band impatt oscillators. The oscillators are easily tuned over a wide range of frequencies. The V-band oscillator has a 20% tuneable bandwith (54 GHz to 66 GHz) with 200 mW minimum output power. The W-band oscillator has a 14% tuneable bandwidth (95 GHz to 110 GHz) with 50mW minimum output power.
Antiviral Immune Responses in the Absence of Organized Lymphoid T Cell Zones in plt/plt Mice (2002)

The paucity of lymph node (LN) T cells (plt) mutation in mice results in strongly reduced T cell numbers in LNs and homing defects of both dendritic cells (DCs) and naive T cells. In this study, we investigated the functional significance of the plt phenotype for the generation of antiviral immune responses against cytopathic and noncytopathic viruses. We found that DC-CD8(+) T cell contacts and the initial priming of virus-specific T cells in plt/plt mice occurred mainly in the marginal zone of the spleen and in the superficial cortex of LNs. The magnitude of the initial response and the maintenance of protective memory responses in plt/plt mice was only slightly reduced compared with plt/+ controls. Furthermore, plt/plt mice mounted rapid neutralizing antiviral B cell responses and displayed normal Ig class switch. Our data indicate that the defective homing of DCs and naive T cells resulting from the plt/plt mutation results in a small, but not significant, effect on the induction of protective antiviral T and B cell immunity. Overall, we conclude that the spatial organization of secondary lymphoid T cell zones via the CCR7-CC chemokine ligand 19/CC chemokine ligand 21 pathway is not an absolute requirement for the initial priming and the maintenance of protective antiviral T and B cell responses.
Targeting of EBNA1 for Rapid Intracellular Degradation Overrides the Inhibitory Effects of the Gly-Ala Repeat Domain and Restores CD8+ T Cell Recognition (2001)

Epstein-Barr virus (EBV)-encoded nuclear antigen 1 (EBNA1) includes a unique glycine-alanine repeat domain that inhibits the endogenous presentation of cytotoxic T lymphocyte (CTL) epitopes through the class I pathway by blocking proteasome-dependent degradation of this antigen. This immune evasion mechanism has been implicated in the pathogenesis of EBV-associated diseases. Here, we show that cotranslational ubiquitination combined with N-end rule targeting enhances the intracellular degradation of EBNA1, thus resulting in a dramatic reduction in the half-life of the antigen. Using DNA expression vectors encoding different forms of ubiquitinated EBNA1 for in vivo studies revealed that this rapid degradation, remarkably, leads to induction of a very strong CTL response to an EBNA1-specific CTL epitope. Furthermore, this targeting also restored the endogenous processing of HLA class I-restricted CTL epitopes within EBNA1 for immune recognition by human EBV-specific CTLs. These observations provide, for the first time, evidence that the glycine-alanine repeat-mediated proteasomal block on EBNA1 can be reversed by specifically targeting this antigen for rapid degradation resulting in enhanced CD8+ T cell-mediated recognition in vitro and in vivo.
Shattering the diffraction limit of light: A revolution in fluorescence microscopy? (2000)

Identifying and cataloging all gene sequences and their corresponding protein high-resolution structures will serve only as a prelude to the real challenge of future biological inquiry—the deciphering of the cell circuitry and its detailed time-dependent responses to various stimuli. Most of the central functions of the cell are performed by highly organized self-assembled cellular machines that are controlled and regulated by a complex set of dynamic interactions between multiple molecular building blocks. Analytical tools will need to be developed to identify and measure these molecular interactions. Alongside the traditional methods of molecular biology, electron and x-ray microscopies, crystallography, immunocytochemistry, and many others, optical microscopy, and in particular fluorescence microscopy, will play a vital role in this endeavor.
Phase II study of panobinostat and bortezomib in patients with pancreatic cancer progressing on gemcitabine-based therapy. (2012)

Treatment of advanced pancreatic cancer with bortezomib in combination with panobinostat is not supported by our clinical study.
Can Delay-Period Activity Explain Working Memory? (2004)

Working-memory tasks often lead to elevated delay-period discharge rates in cortical neurons. When this altered neuronal discharge rate, called delay activity, shows stimulus specificity, it is a good candidate for a neuronal mechanism of working memory. If the delay activity is indeed the carrier of memory, then experimental manipulation during the delay period that disrupts delay activity should also disrupt behavioral performance. We tested this hypothesis in two macaque monkeys with a delayed matching-to-sample task (delay time: 8 or 10 s) in which only two visual images were used. In each trial, one of the images was randomly chosen as the sample. In control trials (without disruptive stimulation), the monkeys performed at the level of 74.3% correct recognition. Three electrical stimulation levels (mild: a 0.25-s train of electrical pulses; medium: 1-s train; strong: 4 s), delivered to the hippocampal formation or to the orbito-frontal and inferotemporal cortices during delay period, decreased the performance to 71.4, 66.8, and 58.0% respectively (all are significantly less than control performance, P < 0.05 for mild stimulation and P < 0.0001 for other stimulation levels). Three hundred and thirty-four cells were recorded from inferotemporal (211 cells) and prefrontal (123 cells) cortices. Significant (P < 0.05) stimulus-specific delay activity was found in about one-third of recorded cells. For these cells in control trials, the mean difference in delay-period spike rates between preferred and nonpreferred images was 26%. The electrical stimulation reduced this difference to 20% (not a statistically significant reduction) in trials with mild stimulation, to 14% (P < 0.05) with medium stimulation, and just to 4% (P < 0.0005) with strong stimulation. These results, that increasing electrical stimulation reduced neuronal selectivity and at the same time reduced behavioral performance, directly support the hypothesis that delay activity is the carrier of memory through the delay period.
Multivision oblique photogrammetry system calibration through the combination of 2D point and line control (2011)

This paper presents our initial research on calibrating developed Multi-vision Oblique Photogrammetry System (MOPS). First, 2D point control from so-called Radial Alignment Constrain (RAC) by Tsai's two-stage calibration is outlined and its potential issues to camera calibration accuracy are discussed as well. Second, we make well study on image radial distortion when principle point parameters are ignored and with perspective invariant of space line, one new radial distortion correctness algorithm is proposed based on 2D line control. Third, procedure of Tsai's two-stage calibration is modified to corporate with proposed radial distortion correctness algorithm and new steps to calibrate digital cameras are summarized in detail. Finally, calibration test was implemented on selected digital camera Nikon P5100 by means of 2D chessboard as reference object. The comparison of proposed approach with Tsai's two-stage calibration is also given in this paper and valuable conclusions are conducted as well.
UPF1 is required for nonsense‐mediated mRNA decay (NMD) and RNAi in Arabidopsis (2006)

Aberrant mRNAs containing premature termination codons (PTCs) have the potential to be translated into truncated proteins, which could act to the detriment of the organism by interfering with normal cellular processes. Eukaryotes have mechanisms of mRNA quality control that identify PTC-containing transcripts and target them for destruction, a process known as nonsense-mediated mRNA decay (NMD). Surprising differences have been reported in the mechanisms of NMD between different organisms. UPF1 and UPF3 are structurally unrelated proteins, which function in the NMD pathway in yeast, mammals, Drosophila and Caenorhabditis elegans. Here we show that NMD in plants requires UPF1, as mRNAs containing PTCs become stabilized in upf1-5 mutants. However, in contrast to NMD in mammals, UPF1-dependent NMD is capable of targeting both spliced and unspliced PTC-containing mRNAs. An allelic series of upf1 mutants exhibits a range of unexpected vegetative and floral abnormalities, including jagged leaves, late flowering, fused flowers and seedling lethality. We also show that mutants in UPF3 share these abnormalities. As both UPF1 and UPF3 are required for NMD, the similar phenotypes of the upf1 and upf3 mutants suggest that NMD regulates a common set of genes required for plant development and survival. Finally, gene silencing by an inverted repeat transgene is impaired in upf1-5 mutants, indicating a connection between UPF1 and RNA interference in plants.
Method for Estimating Polymer-Coated Acoustic Wave Vapor Sensor Responses (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTMethod for Estimating Polymer-Coated Acoustic Wave Vapor Sensor ResponsesJay W. Grate, Samuel J. Patrash, and Michael H. AbrahamCite this: Anal. Chem. 1995, 67, 13, 2162–2169Publication Date (Print):July 1, 1995Publication History Published online1 May 2002Published inissue 1 July 1995https://pubs.acs.org/doi/10.1021/ac00109a040https://doi.org/10.1021/ac00109a040research-articleACS PublicationsRequest reuse permissionsArticle Views513Altmetric-Citations90LEARN 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
Solution of a 20-Variable 3-SAT Problem on a DNA Computer (2002)

A 20-variable instance of the NP-complete three-satisfiability (3-SAT) problem was solved on a simple DNA computer. The unique answer was found after an exhaustive search of more than 1 million (2(20)) possibilities. This computational problem may be the largest yet solved by nonelectronic means. Problems of this size appear to be beyond the normal range of unaided human computation.
Biochemical and Structural Characterization of the trans-Enoyl-CoA Reductase from Treponema denticola (2012)

The production of fatty acids is an important cellular pathway for both cellular function and the development of engineered pathways for the synthesis of advanced biofuels. Despite the conserved reaction chemistry of various fatty acid synthase systems, the individual isozymes that catalyze these steps are quite diverse in their structural and biochemical features and are important for controlling differences at the cellular level. One of the key steps in the fatty acid elongation cycle is the enoyl-ACP (CoA) reductase function that drives the equilibrium forward toward chain extension. In this work, we report the structural and biochemical characterization of the trans-enoyl-CoA reductase from Treponema denticola (tdTer), which has been utilized for the engineering of synthetic biofuel pathways with an order of magnitude increase in product titers compared to those of pathways constructed with other enoyl-CoA reductase components. The crystal structure of tdTer was determined to 2.00 Å resolution and shows that the Ter enzymes are distinct from members of the FabI, FabK, and FabL families but are highly similar to members of the FabV family. Further biochemical studies show that tdTer uses an ordered bi-bi mechanism initiated by binding of the NADH redox cofactor, which is consistent with the behavior of other enoyl-ACP (CoA) reductases. Mutagenesis of the substrate binding loop, characterization of enzyme activity with respect to crotonyl-CoA, hexenoyl-CoA, and dodecenoyl-CoA substrates, and product inhibition by lauroyl-CoA suggest that this region is important for controlling chain length specificity, with the major portal playing a more important role for longer chain length substrates.
Genomic structure and promoter analysis of the human 1,6-fucosyltransferase gene (FUT8) (2000)

GDP-L-Fuc:N-acetyl-beta-D-glucosaminide alpha1,6-fucosyltransferase (alpha1,6FucT) catalyzes the transfer of a fucosyl moiety from GDP-fucose to the asparagine-linked GlcNAc residue of complex N-glycans via alpha1,6-linkage. We have cloned the genomic DNA which encodes the human alpha1,6FucT gene ( FUT8 ) and analyzed its structure. It was found that the gene consists of at least nine exons spanning more than a 50 kbp genomic region, and the coding sequence is divided into eight exons. The translation initiation codon was located at exon 2, and thus exon 1 encodes only 5'-untranslated sequences. Transcription initiation site of FUT8 was determined by 5'-rapid amplification of the cDNA end and a primer-extension analysis using the total RNA isolated from SK-OV-3 cells, which have a high level of alpha1,6FucT activity. We then characterized the FUT8 promoter region by a reporter gene assay. The luciferase reporter assay indicated that the 5'-flanking region of exon 1, which covered about 1 kbp, conferred the promoter activity in SK-OV-3 cells. This region contains potential binding sites for some transcription factors, such as bHLH, cMyb, GATA-1, as well as a TATA-box, but not a CCAAT motif. 5'-Untranslated sequences found in ESTs and the cDNA for the FUT8 suggest the presence of an additional exon(s) at the upstream of the first exon identified in this study, and therefore, the transcription of the gene would be regulated by multiple promoters.
Scalable reader-writer locks for parallel systems (2003)

Current algorithms for reader-writer synchronization do not scale for readers: readers cannot acquire locks in parallel. The authors describe two new algorithms that allow parallelism among readers during lock acquisition; this is achieved by distributing the lock state among different processors, and by trading reader throughput for writer throughput. Their experiments show that when reads are a large percentage of lock requests, the throughput of each of their algorithms scales significantly better than current algorithms.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Of Homicide generally (2014)

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Reduced Antibody Responses to Vaccinations in Children Exposed to Polychlorinated Biphenyls (2006)

Increased perinatal exposure to PCBs may adversely impact on immune responses to childhood vaccinations. The clinical implications of insufficient antibody production emphasize the need for prevention of immunotoxicant exposures.
A Point Mutation in Interleukin-2 That Alters Ligand Internalization (1996)

In previous studies, we have identified an interleukin-2 (IL-2) analog containing a point mutation at position 51 (T51P) that expresses nearly wild-type bioactivity, yet has approximately 10-fold lower receptor binding affinity. Since ligand-dependent receptor internalization may be the rate-limiting step controlling the duration of IL-2 receptor signaling, a reduction in the receptor internalization rate could contribute to the observed response enhancement for this analog. To evaluate this possibility, we compared the internalization of IL-2 and T51P in three separate assays. While the internalization rate for IL-2 agreed with values determined by others, the internalization of T51P was markedly reduced. The receptor binding rate constants for this analog were only slightly different; thus, altered binding kinetics could not explain the decreased internalization rate. The effects of reduced internalization were also observable in bioassays, where T51P maintained T-cell proliferation for a longer period compared with IL-2. These results indicate that the T51P point mutation reduces the receptor internalization rate compared with IL-2 in a fashion that is independent of the dissociation rate. This analog may represent a new approach to the preparation of cytokine analogs with potentiated agonist and antagonist properties.
Poised for Contagion: Evolutionary Origins of the Infectious Abilities of Invertebrate Retroviruses (2000)

Phylogenetic analyses suggest that long-terminal repeat (LTR) bearing retrotransposable elements can acquire additional open-reading frames that can enable them to mediate infection. Whereas this process is best documented in the origin of the vertebrate retroviruses and their acquisition of an envelope (env) gene, similar independent events may have occurred in insects, nematodes, and plants. The origins of env-like genes are unclear, and are often masked by the antiquity of the original acquisitions and by their rapid rate of evolution. In this report, we present evidence that in three other possible transitions of LTR retrotransposons to retroviruses, an envelope-like gene was acquired from a viral source. First, the gypsy and related LTR retrotransposable elements (the insect errantiviruses) have acquired their envelope-like gene from a class of insect baculoviruses (double-stranded DNA viruses with no RNA stage). Second, the Cer retroviruses in the Caenorhabditis elegans genome acquired their envelope gene from a Phleboviral (single ambisense-stranded RNA viruses) source. Third, the Tas retroviral envelope (Ascaris lumricoides) may have been obtained from Herpesviridae (double-stranded DNA viruses, no RNA stage). These represent the only cases in which the env gene of a retrovirus has been traced back to its original source. This has implications for the evolutionary history of retroviruses as well as for the potential ability of all LTR-retrotransposable elements to become infectious agents.