gebhart/patrepeval huggingface dataset:
Bacillus thuringiensis Is an Environmental Pathogen and Host-Specificity Has Developed as an Adaptation to Human-Generated Ecological Niches (2013)

Bacillus thuringiensis (Bt) has been used successfully as a biopesticide for more than 60 years. More recently, genes encoding their toxins have been used to transform plants and other organisms. Despite the large amount of research on this bacterium, its true ecology is still a matter of debate, with two major viewpoints dominating: while some understand Bt as an insect pathogen, others see it as a saprophytic bacteria from soil. In this context, Bt's pathogenicity to other taxa and the possibility that insects may not be the primary targets of Bt are also ideas that further complicate this scenario. The existence of conflicting research results, the difficulty in developing broader ecological and genetics studies, and the great genetic plasticity of this species has cluttered a definitive concept. In this review, we gathered information on the aspects of Bt ecology that are often ignored, in the attempt to clarify the lifestyle, mechanisms of transmission and target host range of this bacterial species. As a result, we propose an integrated view to account for Bt ecology. Although Bt is indeed a pathogenic bacterium that possesses a broad arsenal for virulence and defense mechanisms, as well as a wide range of target hosts, this seems to be an adaptation to specific ecological changes acting on a versatile and cosmopolitan environmental bacterium. Bt pathogenicity and host-specificity was favored evolutionarily by increased populations of certain insect species (or other host animals), whose availability for colonization were mostly caused by anthropogenic activities. These have generated the conditions for ecological imbalances that favored dominance of specific populations of insects, arachnids, nematodes, etc., in certain areas, with narrower genetic backgrounds. These conditions provided the selective pressure for development of new hosts for pathogenic interactions, and so, host specificity of certain strains.
Clinical aspects of the disorders of GABA metabolism in children (2004)

The disorders of GABA metabolism require an increased index of clinical suspicion. Pyridoxine dependent epilepsy is a treatable condition with a potentially widening clinical spectrum, but with a prognosis dependent on early intervention. SSADH deficiency has a heterogeneous spectrum and requires careful urine organic acid testing for screening, followed by enzymatic confirmation allowing appropriate prognostic and genetic counseling.
Baby Ears: a recognition system for affective vocalizations (2002)

We collected more than 500 utterances from adults talking to their infants. We automatically classified 65% of the strongest utterances correctly as approval, attentional bids, or prohibition. We used several pitch and formant measures, and a multidimensional Gaussian mixture-model discriminator to perform this task. As previous studies have shown, changes in pitch are an important cue for affective messages; we found that timbre or cepstral coefficients are also important. The utterances of female speakers, in this test, were easier to classify than were those of male speakers. We hope this research will allow us to build machines that sense the "emotional state" of a user.
Mouse Round Spermatids Developed In Vitro from Preexisting Spermatocytes Can Produce Normal Offspring by Nuclear Injection into In Vivo-Developed Mature Oocytes1 (2003)

It has been shown that mature oocytes injected with nuclei from round spermatids collected from mouse testis can generate normal offspring and that round spermatids can develop in vitro. An undetermined issue is whether spermatids developed in vitro are capable of generating fertile offspring by nuclear injection into oocytes. Herein, we report the production of normal and fertile offspring by nuclear injection using haploid spermatid donors derived from mouse primary spermatocyte precursors cocultured with Sertoli cells. Cocultured spermatogonia and spermatocytes were characterized by their nuclear immunoreactive patterns determined by an antibody to phosphorylated histone H2AX (gamma-H2AX), a marker for DNA double-strand breaks. Cocultured round spermatid progenies display more than one motile flagellum, whose axonemes were recognized by antitubulin immunostaining. Flagellar wavelike movement and flagellar-driven propulsion of round spermatids developed in vitro were documented by videomicroscopy (http://www.sci.ccny.cuny.edu/ approximately kier). We also show that breeding of male and female mouse offspring generated by spermatid nuclear injection produced fertile offspring. In addition to their capacity to produce fertile offspring, cocultured, flagellated round spermatids can facilitate the analysis of the mechanisms of centriolar polarity, duplication, assembly, and flagellar growth, including the intraflagellar transport of cargo proteins.
Anti-Monocyte Chemoattractant Protein-1 Gene Therapy Limits Progression and Destabilization of Established Atherosclerosis in Apolipoprotein E–Knockout Mice (2002)

The results of the present study suggest that the inflammatory responses mediated by MCP-1 are important in atherosclerosis and its complications.
Survey of range improvement of commercial RFID tags with Power Optimized Waveforms (2010)

The power sensitivity of passive Radio Frequency Identification (RFID) tags heavily affects the read reliability and range. Inventory tracking systems rely heavily on strong read reliability while animal tracking in large fields rely heavily on long read range. Power Optimized Waveforms (POWs) provide a solution to improving both read reliability and read range by increasing RFID tag RF to DC power conversion efficiency. This paper presents a survey of the increases and decreases to read range of common RFID tags from Alien and Impinj with Higgs, Higgs 2, Higgs 3, Monza 3, and Monza 4 RFICs. In addition, POWs are explained in detail with examples and methods of integration into a reader.
Theory of spin current in magnetic nanopillars for zero-field microwave generation (2007)

In a magnetic nanopillar, microwave oscillations of the magnetization of one magnetic layer can be driven by spin-polarized current emitted from another magnetic layer. The conditions for this to occur in zero applied field are formulated in terms of the two components of the spin-transfer torque. One simple route to achieve microwave generation is to ensure that these components have opposite sign. Quantum-mechanical calculations are presented that show how this may be achieved by a suitable choice of the oscillating magnet thickness.
End-to-end Continuous Speech Recognition using Attention-based Recurrent NN: First Results (2014)

We replace the Hidden Markov Model (HMM) which is traditionally used in in continuous speech recognition with a bi-directional recurrent neural network encoder coupled to a recurrent neural network decoder that directly emits a stream of phonemes. The alignment between the input and output sequences is established using an attention mechanism: the decoder emits each symbol based on a context created with a subset of input symbols elected by the attention mechanism. We report initial results demonstrating that this new approach achieves phoneme error rates that are comparable to the state-of-the-art HMM-based decoders, on the TIMIT dataset.
Repression of hedgehog signaling and BMP4 expression in growth plate cartilage by fibroblast growth factor receptor 3 (1998)

Fibroblast growth factor receptor 3 (FGFR3) is a key regulator of skeletal growth and activating mutations in Fgfr3 cause achondroplasia, the most common genetic form of dwarfism in humans. Little is known about the mechanism by which FGFR3 inhibits bone growth and how FGFR3 signaling interacts with other signaling pathways that regulate endochondral ossification. To understand these mechanisms, we targeted the expression of an activated FGFR3 to growth plate cartilage in mice using regulatory elements from the collagen II gene. As with humans carrying the achondroplasia mutation, the resulting transgenic mice are dwarfed, with axial, appendicular and craniofacial skeletal hypoplasia. We found that FGFR3 inhibited endochondral bone growth by markedly inhibiting chondrocyte proliferation and by slowing chondrocyte differentiation. Significantly, FGFR3 downregulated the Indian hedgehog (Ihh) signaling pathway and Bmp4 expression in both growth plate chondrocytes and in the perichondrium. Conversely, Bmp4 expression is upregulated in the perichondrium of Fgfr3-/- mice. These data support a model in which Fgfr3 is an upstream negative regulator of the hedgehog (Hh) signaling pathway. Additionally, Fgfr3 may coordinate the growth and differentiation of chondrocytes with the growth and differentiation of osteoprogenitor cells by simultaneously modulating Bmp4 and patched expression in both growth plate cartilage and in the perichondrium.
A Robust Information Hiding Scheme for Protecting Digital Content in DWT-CS Domain (2015)

In information hiding field, the robustness is the important performance.However, due to embedding a larger amount of the watermark into host signal, transparency and robustness of the watermarked image cannot be easily obtained, simultaneously.Utilizing measurement values of original image to produce hiding information block-based Compressed Sensing (BCS) theory in DWT domain, the paper presents a robust information hiding scheme for protecting digital content.When the scheme is achieved, embedding locations of the hiding information will be selected by visual features and relation of DWT coefficients between subbands LH3 and LH2 of the host image.Moreover the mechanism of JND (just-noticeable distortion) was used to adjust the embedding watermark strength.Experimental results show that the scheme is more robust compared with other hiding algorithm reported, and improves effectively the recovery quality of the hidden image.
Isolation and characterization of pokeweed antiviral protein mutations in Saccharomyces cerevisiae: identification of residues important for toxicity. (1995)

Pokeweed antiviral protein (PAP), a 29-kDa protein isolated from Phytolacca americana inhibits translation by catalytically removing a specific adenine residue from the 28S rRNA of eukaryotic ribosomes. PAP has potent antiviral activity against many plant and animal viruses, including human immunodeficiency virus. We describe here development of a positive selection system to isolate PAP mutants with reduced toxicity. In vitro translation in the presence or absence of microsomal membranes shows that PAP is synthesized as a precursor and undergoes at least two different proteolytic processing steps to generate mature PAP. The PAP cDNA was placed under control of the galactose-inducible GAL1 promoter and transformed into Saccharomyces cerevisiae. Induction of PAP expression was lethal to yeast. The PAP expression plasmid was mutagenized and plasmids encoding mutant PAP genes were identified by their failure to kill S. cerevisiae. A number of mutant alleles were sequenced. In one mutant, a point mutation at Glu-177 inactivated enzymatic function in vitro, suggesting that this glutamic acid residue is located at or near the catalytic site. Mutants with either point mutations near the N terminus or a nonsense mutation at residue 237 produced protein that was enzymatically active in vitro, suggesting that the toxicity of PAP is not due solely to enzymatic activity. Toxicity of PAP appears to be a multistep process that involves possibly different domains of the protein.
Vestibular Hair Cell Regeneration and Restoration of Balance Function Induced by Math1 Gene Transfer (2007)

Molecular replacement of math1 may provide a therapeutic means of restoring vestibular function related to vestibular hair cell loss.
Superoxide dismutase in SAS human tongue carcinoma cell line is a factor defining invasiveness and cell motility. (1995)

This article describes an apparent inverse relationship between cell motility and intracellular Cu-Zn superoxide dismutase (SOD) activity of two human squamous carcinoma-derived clones, SAS-H1 with high invasiveness and SAS-L1 with low invasiveness. Clone SAS-H1 exhibited significantly greater motility than SAS-L1 but had significantly lower levels of intracellular Cu-ZnSOD than SAS-L1 cells. We then transfected Cu-ZnSOD antisense cDNA into SAS-L1 to reduce the intracellular Cu-ZnSOD activity. Antisense cDNA transfected SAS-L-AS clones had lower Cu-ZnSOD activity than control vector-transfected SAS-L-Neo clones, and this was associated with increased motility. Invasiveness of SAS-H1 and SAS-L-AS1 was enhanced by superoxide treatment, while the invasiveness of SAS-L1 was unaffected. These findings indicate that intracellular SOD is involved in cell motility by virtue of its action in scavenging superoxide in the cells.
Chemical modification of ansamitocins. III. Synthesis and biological effects of 3-acyl esters of maytansinol. (1984)

Several semisynthetic maytansinoids that differ in the structure of the acyl group at the C3 position were prepared by acylation of maytansinol (3) using appropriate carboxylic acids or their active derivatives, and the effects of the compounds on the growth of Tetrahymena pyriformis and the survival of tumor-bearing mice were determined. Among these analogs, the C3 esters having a straight chain aliphatic acyl (11, 12), cycloalkanecarbonyl (18-20) or phenylacetyl group (22), and those having a 2-(N-acetyl-N-methyl) aminohexanoyl (7) or (2-(N-acetyl-N-methyl) aminophenylpropionyl group (8), strongly inhibited the growth of T. pyriformis and exhibited potent activity against B16 melanoma in mice. The potencies were similar to those of maytansine and ansamitocin P-3. The most striking result was the finding that the phenylglycinate (31) was superior to maytansine in terms of its broader effective dose range against ip B16 melanoma and P388 leukemia in mice ; however, higher doses of the phenylglycinate were required.
Interleukin 2 plays a central role in Th2 differentiation (2004)

Differentiation of naïve CD4 T cells into T helper (Th) 2 cells requires signaling through the T cell receptor and an appropriate cytokine environment. IL-4 is critical for such Th2 differentiation. We show that IL-2 plays a central role in this process. The effect of IL-2 on Th2 generation does not depend on its cell growth or survival effects. Stat5a(-/-) cells show diminished differentiation to IL-4 production, and forced expression of a constitutively active form of Stat5a replaces the need for IL-2. In vivo IL-2 neutralization inhibits IL-4 production in two models. Studies of restriction enzyme accessibility and binding of Stat5 to chromatin indicate that IL-2 mediates its effect by stabilizing the accessibility of the Il4 gene. Thus, IL-2 plays a critical role in the polarization of naive CD4 T cells to the Th2 phenotype.
Contrapuntal Networks of Gene Expression during Arabidopsis Seed Filling[W] (2002)

We have used cDNA microarrays to examine changes in gene expression during Arabidopsis seed development and to compare wild-type and mutant wrinkled1 (wri1) seeds that have an 80% reduction in oil. Between 5 and 13 days after flowering, a period preceding and including the major accumulation of storage oils and proteins, approximately 35% of the genes represented on the array changed at least twofold, but a larger fraction (65%) showed little or no change in expression. Genes whose expression changed most tended to be expressed more in seeds than in other tissues. Genes related to the biosynthesis of storage components showed several distinct temporal expression patterns. For example, a number of genes encoding core fatty acid synthesis enzymes displayed a bell-shaped pattern of expression between 5 and 13 days after flowering. By contrast, the expression of storage proteins, oleosins, and other known abscisic acid-regulated genes increased later and remained high. Genes for photosynthetic proteins followed a pattern very similar to that of fatty acid synthesis proteins, implicating a role in CO(2) refixation and the supply of cofactors for oil synthesis. Expression profiles of key carbon transporters and glycolytic enzymes reflected shifts in flux from cytosolic to plastid metabolism. Despite major changes in metabolism between wri1 and wild-type seeds, <1% of genes differed by more than twofold, and most of these were involved in central lipid and carbohydrate metabolism. Thus, these data define in part the downstream responses to disruption of the WRI1 gene.
Use of a retroviral vector with an internal opsin promoter to direct gene expression to retinal photoreceptor cells (1996)

The internal opsin promoter fragment appears capable of selectively directing gene expression to photoreceptor cells after retroviral-mediated gene transfer. These findings serve as a basis for future studies using the opsin promoter-beta PDE retroviral vector to rescue photoreceptor cells in the rd mutant mouse, in which the beta-PDE gene is mutated resulting in degeneration of photoreceptor cells during the early postnatal period.
Efficient Hand Pose Estimation from a Single Depth Image (2013)

We tackle the practical problem of hand pose estimation from a single noisy depth image. A dedicated three-step pipeline is proposed: Initial estimation step provides an initial estimation of the hand in-plane orientation and 3D location, Candidate generation step produces a set of 3D pose candidate from the Hough voting space with the help of the rotational invariant depth features, Verification step delivers the final 3D hand pose as the solution to an optimization problem. We analyze the depth noises, and suggest tips to minimize their negative impacts on the overall performance. Our approach is able to work with Kinect-type noisy depth images, and reliably produces pose estimations of general motions efficiently (12 frames per second). Extensive experiments are conducted to qualitatively and quantitatively evaluate the performance with respect to the state-of-the-art methods that have access to additional RGB images. Our approach is shown to deliver on par or even better results.
Template-Constrained Cyclic Peptides: Design of High-Affinity Ligands for GPIIb/IIIa (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTemplate-Constrained Cyclic Peptides: Design of High-Affinity Ligands for GPIIb/IIIaSharon Jackson, W. DeGrado, A. Dwivedi, A. Parthasarathy, A. Higley, J. Krywko, A. Rockwell, J. Markwalder, G. Wells, and Cite this: J. Am. Chem. Soc. 1994, 116, 8, 3220–3230Publication Date (Print):April 1, 1994Publication History Published online1 May 2002Published inissue 1 April 1994https://pubs.acs.org/doi/10.1021/ja00087a007https://doi.org/10.1021/ja00087a007research-articleACS PublicationsRequest reuse permissionsArticle Views784Altmetric-Citations154LEARN 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-AlertscloseSupporting Info (2)»Supporting Information Supporting Information Get e-Alerts
Influence of residue 44 on the activity of the M2 proton channel of influenza A virus (2004)

The influenza A virus M2 proton channel plays a role in two stages of virus replication. The proteins of two closely related strains of the avian H7 subtype of influenza A virus, Rostock and Weybridge, were found to differ in their pH-modulating activities and activation characteristics. Of three amino acid differences at residues 27, 38 and 44 within the membrane-spanning domain, substitution at residue 44 was necessary and sufficient to account for differences in trans-Golgi pH-modulating activity, whereas changes in all three were required to switch the activation characteristics of the Weybridge M2 to those of the Rostock M2. These results not only separate the two phenomena genetically, but also indicate that the 'unique' activation characteristics of the Rostock M2 channel were selected specifically. In addition, they point to the importance of functional complementarity between the activation characteristics of the M2 channel and the pH of membrane fusion by haemagglutinin during virus entry.
Adenovirus 2 peptide IX gene is expressed only on replicated DNA molecules. (1986)

Transcription of the adenovirus type 2 peptide IX (pIX) gene was examined in transient expression assays. When a nonreplicating plasmid DNA containing the pIX gene was introduced into HeLa cells by the DEAE-dextran method, no pIX gene transcript was detected. In contrast, efficient transcription was observed in the cells transfected with a replicating plasmid containing the pIX gene. Adenovirus early genes did not affect the level of transcription of the pIX gene on either a nonreplicating or a replicating plasmid. Inhibition of plasmid replication with cytosine arabinoside prevented transcription of the pIX gene. By quantitative analysis of the amount of the pIX gene and its transcript in transfected cells, it was concluded that active transcription of the pIX gene occurred only on DNA molecules replicated in the cell.
Realization of organic pn-homojunction using a novel n-type doping technique (2004)

We present a novel n-type doping technique for organic semiconductors using the metal complex bis(terpyridine)ruthenium as a strong donor. Owing to its low oxidation potential, the reduced neutral form of the donor complex allows an electron transfer to the matrix. This enables n-type conduction that has been seldom reported in metallophthalocyanine systems doped with organic compounds. The n-type zinc-phthalocyanine layers are characterized by the conductivity and the field-effect measurements. By sequential coevaporation of p- and n-doped layers, we have prepared the first stable and reproducible organic homojunction of zinc-phthalocyanine. The diode exhibits surprisingly high built-in voltage attractive e.g. for organic solar cell applications. The temperature dependence of the current-voltage characteristics does not follow the standard Shockley theory of pn-junctions. We explain the behavior of the ideality factor and the saturation current by deviations from the classical Einstein relation at low temperatures.
The influences of skin visco‐elasticity, hydration level and aging on the formation of wrinkles: a comprehensive and objective approach (2012)

The elderly have less elastic skin and more wrinkles. Skin hysteresis most closely related with the degree of wrinkles. Drier skin showed more wrinkles and deeper furrows, with wider intervals. On the basis of these objective findings, we propose several skin parameters associated with wrinkles, and hypothesize the mechanism of wrinkle generation.
Glucose Biosensors: 40 Years of Advances and Challenges (2001)

Forty years have passed since Clark and Lyons proposed the concept of glucose enzyme electrodes. Excellent economic prospects and fascinating potential for basic research have led to many sensor designs and detection principles for the biosensing of glucose. Indeed, the entire field of biosensors can trace its origin to this glucose enzyme electrode. This review examines the history of electrochemical glucose biosensors, discusses their current status and assesses future prospects in connection primarily to the control and management of diabetes.