gebhart/patrepeval huggingface dataset:
Role of Hypoxia-Inducible Factor (HIF)-1α versus HIF-2α in the Regulation of HIF Target Genes in Response to Hypoxia, Insulin-Like Growth Factor-I, or Loss of von Hippel-Lindau Function: Implications for Targeting the HIF Pathway (2006)

Overexpression of hypoxia-inducible factors (HIF), HIF-1alpha and HIF-2alpha, leads to the up-regulation of genes involved in proliferation, angiogenesis, and glucose metabolism and is associated with tumor progression in several cancers. However, the contribution of HIF-1alpha versus HIF-2alpha to vascular endothelial growth factor (VEGF) expression and other HIF-regulated target genes under different conditions is unclear. To address this, we used small interfering RNA (siRNA) techniques to knockdown HIF-1alpha and/or HIF-2alpha expression in response to hypoxia, insulin-like growth factor (IGF)-I, or renal carcinoma cells expressing constitutively high basal levels of HIF-1alpha and/or HIF-2alpha due to loss of von Hippel-Lindau (VHL) function. We found that HIF-1alpha primarily regulates transcriptional activation of VEGF in response to hypoxia and IGF-I compared with HIF-2alpha in MCF-7 cells. We also observed a reciprocal relationship between HIF-1alpha and HIF-2alpha expression in hypoxia in these cells: HIF-2alpha siRNA enhanced HIF-1alpha-mediated VEGF expression in MCF-7 cells in response to hypoxia, which could be completely blocked by cotransfection with HIF-1alpha siRNA. In contrast, in renal carcinoma cells that constitutively express HIF-1alpha and HIF-2alpha due to loss of VHL function, we found that high basal VEGF, glucose transporter-1, urokinase-type plasminogen activator receptor, and plasminogen activator inhibitor-1 expression was predominantly dependent on HIF-2alpha. Finally, we showed that a newly identified small-molecule inhibitor of HIF-1, NSC-134754, is also able to significantly decrease HIF-2alpha protein expression and HIF-2alpha-regulated VEGF levels in renal carcinoma cells. Our data have important implications for how we target the HIF pathway therapeutically.
GPMB—software pipelining branch-intensive loops (1993)

To achieve higher instruction-level parallelism, the constraint imposed by a single control flow must be relaxed. Control operations should execute in parallel just like data operations. We present a new software pipelining method called GPMB (Global Pipelining with Multiple Branches) which is based on architectures supporting multi-way branching and multiple control flows. Preliminary experimental results show that, for IFless loops, GPMB performs as well as modulo scheduling, and for branch-intensive loops, GPMB performs much better than software pipelining assuming the constraint of one two-way branch per cycle. >
Various Physico-chemical Properties of Dietary Fiber Sources of Poultry Diets (2013)

This study was carry out to investigated the proximate composition together with some water and oil functional characteristics of wheat bran (WB), barley bran (BB), and soybean hulls (SH) as poultry dietary fiber (DF) sources. The results showed that moisture contents (range 6.04 to 7.71%) were similar between tested DF sources. The SH had notably higher crude protein content rather that of WB and BB (P BB > WW (P WB>SH (P BB>WB, respectively (P<0.05). The emulsifying activity of the tested DF sources for corn and olive oils was similar. The measured emulsion stability for corn oil was similar between SH and BB but both were higher than ES of WB. The results of current study indicated that the physico-chemical properties of various tested DF sources are dependent on their composition, especially fiber content. These data provide a clear insight into how fiber fraction of poultry diets interacts with water and oil and how the
A Study of Feeding Responses to Bacterial Prey by Estuarine Ciliates (1976)

S. G. Berk, R. R. Colwell, E. B. Small, A Study of Feeding Responses to Bacterial Prey by Estuarine Ciliates, Transactions of the American Microscopical Society, Vol. 95, No. 3 (Jul., 1976), pp. 514-520
Performance comparison of intrusive objective speech intelligibility and quality metrics for cochlear implant users (2012)

In this paper, we evaluate the performance of six intrusive objective measures as intelligibility predictors of degraded speech for cochlear implant (CI) users. Three practical environmental degradation scenarios are considered: reverberation alone, additive noise alone, and noise-plus-reverberation. A subjective intelligibility test was performed with eleven cochlear implant users and objective measures were evaluated using four performance metrics: Pearson, Spearman rank, and sigmoid-fitted correlation coefficients, and the root mean square error. It was observed that existing metrics performed well in the noise-alone scenarios, but obtained lower performance in the reverberationalone scenario and in many cases, unacceptable results in the noise-plus-reverberation scenario. It is concluded that further work is still needed in order to accurately predict speech intelligibility ratings for CI users, particularly in environments corrupted by reverberation.
Process Mining of RFID-Based Supply Chains (2009)

Process mining facilitates the analysis of business processes by extracting a process model from event logs. Most mining algorithms perform well on single-system event logs that explicitly refer to a process instance or case. However, in many operational environments such case identifiers are not directly recorded. In supply chain processes there are even further challenges, since different identification numbers and numerous aggregation steps prevent individual work items to become traceable as a case. In this paper, we investigate how the EPCglobal standard for processing Radio Frequency Identification (RFID) events can make supply chain data accessible for process mining. Our contribution is an algorithm that is able to deal with challenges of case identification and focus shifts. We present a prototypical implementation and use a process based on the Supply Chain Operations Reference (SCOR) Model to evaluate our implementation.
Delipidated Retroviruses as Potential Autologous Therapeutic Vaccines—A Pilot Experiment (2008)

This pilot experiment in a simian immunodeficiency virus (SIV) chronic infection model aimed at extending our previous findings that vaccination with delipidated SIV resulted in more potent and diversified antiviral responses (1). Macaques chronically infected with SIVmac239 treated with antiretroviral therapy (ART) were vaccinated with autologous delipidated virus via consecutive lymph node targeted immunizations-1, 1 and 10 mug of virus spaced monthly. Results showed all animals had lasting viral load reduction approaching 1 log compared to set-point, and disease delay. Delipidation may enhance processing/ presentation of viral antigen eliciting potent antiviral control even at such late infection stage.
A General Method for Producing Bioaffinity MALDI Probes (1999)

A bioaffinity probe based on the idea of immobilizing avidin on the probe surface to extract biotinylated oligosaccharide is described. The probe is produced by taking advantage of the natural affinity of proteins for hydrophobic polymer films. The avidin is immobilized by simply drying the solution on a polymer film surface. This produces a bioaffinity probe that shows enhanced activity for biotin-labeled oligosaccharides. The probe is produced in a matter of minutes but is highly effective for concentrating biotinylated oligosaccharide on the surface. The best matrix for the analysis is DHB, and the best film for the probe is a polyester material commonly used for transparency film. The efficacy of the probe is illustrated with neutral and anionic oligosaccharides. Oligosaccharides derivatized with biotin are retained while those that are unlabeled are washed away. No trace of the unlabeled oligosaccharide is observed in the mass spectrum.
A Method For Determining Corrosion Rates From Linear Polarization Data (1958)

A method for determining corrosion rate from electrochemical polarization data obtained in the region of the corrosion potential is described. The technique has foundation in theory, is supported by experimental evidence, and appears to have widespread application. The advantages and limitations of the method are discussed. It would appear that the use of linear polarization measurements can supply valuable information regarding: (1.) Studies of the effect of environment variables on corrosion rate. These include changes in composition, velocity, and temperature, (2.) Evaluations of inhibitors in controlling corrosion, (3.) Comparison of the corrosion rates of various alloys of similar composition in a given environment, and (4.) Determination of changes in corrosion rate with time, including studies of underground structures as well as materials in aqueous solutions. It also may be possible to use this method in evaluating the condition of coatings in service which cannot be inspected by visual methods. 2.3.5
A 126mW 56Gb/s NRZ wireline transceiver for synchronous short-reach applications in 16nm FinFET (2018)

The industry has recently proposed standards for synchronous high-speed interfaces targeting chip-to-chip communication across a very short PCB trace [1]. Figure 16.7.1 shows an example of such an interface. Eight 56Gb/s NRZ lanes provide a total of 448Gb/s aggregate bandwidth in each direction. The channel insertion loss and propagation delay varies from lane to lane, with a maximum insertion loss of 8dB at 28GHz from BGA to BGA. The routing inside the two packages adds an additional 3dB insertion loss at 28GHz. Taking advantage of the relatively low channel loss, the interface is expected to adopt simple transmitter/receiver circuits with low power consumption. However, a per-lane deskewing scheme is still required due to the propagation delay variations between lanes.
Tandem catalytic aromatization of volatile fatty acids (2020)

The transition towards a circular economy requires closing the carbon loop, <italic>e.g.</italic> by the development of new synthesis routes to valuable intermediates and products from organic-rich waste streams.
Light-Emitting Self-Assembled Materials Based on d<sup>8</sup> and d<sup>10</sup> Transition Metal Complexes (2015)

ADVERTISEMENT RETURN TO ISSUEPREVReviewNEXTLight-Emitting Self-Assembled Materials Based on d8 and d10 Transition Metal ComplexesVivian Wing-Wah Yam*, Vonika Ka-Man Au, and Sammual Yu-Lut LeungView Author Information Institute of Molecular Functional Materials (Areas of Excellence Scheme, University Grants Committee (Hong Kong)) and Department of Chemistry, The University of Hong Kong, Pokfulam Road, Hong Kong, P. R. China*E-mail: [email protected]Cite this: Chem. Rev. 2015, 115, 15, 7589–7728Publication Date (Web):July 9, 2015Publication History Received5 February 2015Published online9 July 2015Published inissue 12 August 2015https://pubs.acs.org/doi/10.1021/acs.chemrev.5b00074https://doi.org/10.1021/acs.chemrev.5b00074review-articleACS PublicationsCopyright © 2015 American Chemical SocietyRequest reuse permissionsArticle Views23994Altmetric-Citations1311LEARN 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 SUBJECTS:Crystal structure,Excited states,Gold,Ligands,Luminescence Get e-Alerts
Multiplication of Mycobacterium lepraemurium in Cell-free Medium Containing  -Ketoglutaric Acid and Cytochrome c (1972)

Microbiology Society journals contain high-quality research papers and topical review articles. We are a not-for-profit publisher and we support and invest in the microbiology community, to the benefit of everyone. This supports our principal goal to develop, expand and strengthen the networks available to our members so that they can generate new knowledge about microbes and ensure that it is shared with other communities.
Modeling and validation of carsickness mechanism (2007)

Numbers of researches on carsickness are less than researches on seasickness and space sickness. However, the clarification and applications of carsickness mechanism is a serious problem for the developers in pursuing vehicle comfort ability. We developed prediction model of carsickness incidence and verified to simulate Griffin's horizontal oscillation experiment. Our model could predict distribution characteristics of Griffin's "mild nausea" basically. In add ition, we tried to improve prediction accuracy by reformatting model and parameter study.
Extending the operating system to support an object-oriented environment (1989)

Comandos is a project within the European Strategic Programme for Research on Information Technology - ESPRIT and it stems from the identified need of providing simpler and more integrated environments for application development in large distributed systems. The fundamental goal of the project is the definition of an integrated platform providing support for distributed and concurrent processing in a LAN environment, extensible and distributed data management and tools for monitoring and administrating the distributed environment. An object oriented approach was used as the ground level for the integration of the multidisciplinary concepts addressed in the project. This paper starts by describing the basic model and architecture of Comandos, which results from a common effort by all the partners in the project. We focus then on the description of a first prototype of the system, which implements a subset of the architecture and is currently running on a set of personal computers and workstations at INESC. The prototype is a testbed for the architecture, providing dynamic linking, access to persistent objects and transparent distribution. Special attention is given to the performance aspects of object invocation in virtual memory.
Structural, Physicochemical, and Pasting Properties of Starches from Potato Plants with Repressed <i>r</i><i>1</i>-Gene (2001)

The aim of this work was to investigate the effect on starch molecular and physicochemical properties of down regulation of the R1 protein in potato (Solanum tuberosum L. cv. "Dianella") tubers. Most prominent is a 90% suppression of the phosphate content in the isolated potato tuber starch. The amylopectin chain length distribution profile as determined by HPAEC/PAD was not affected, but the amylose content was increased in the most down-regulated plants. The pasting properties of the transgenic starch revealed a pronounced decrease in peak viscosity and increased setback viscosity as measured using a rapid Visco analyzer. The starch gels displayed an increased hardness and stickiness with a maximum at 1.7 nmol of Glc-6P mg-1 of starch compared to the control lines. At very low phosphate levels (1.4 nmol of Glc-6P mg-1 of starch), the gel hardness was decreased as a result of increased gel brittleness. The increase in gel brittleness is believed to be an effect of an increased proportion of free amylopectin blocklets in the starch as determined by SEC/RI. The possible links between the structural and physicochemical parameters are discussed.
A gene regulatory motif that generates oscillatory or multiway switch outputs (2012)

The pattern of gene expression in a developing tissue determines the spatial organization of cell type generation. We previously defined regulatory interactions between a set of transcription factors that specify the pattern of gene expression in progenitors of different neuronal subtypes of the vertebrate neural tube. These transcription factors form a circuit that acts as a multistate switch, patterning the tissue in response to a gradient of Sonic Hedgehog. Here, by simplifying aspects of the regulatory interactions, we found that the topology of the circuit allows either switch-like or oscillatory behaviour depending on parameter values. The qualitative dynamics appear to be controlled by a simpler sub-circuit, which we term the AC-DC motif. We argue that its topology provides a natural way to implement a multistate gene expression switch and we show that the circuit is readily extendable to produce more distinct stripes of gene expression. Our analysis also suggests that AC-DC motifs could be deployed in tissues patterned by oscillatory mechanisms, thus blurring the distinction between pattern-formation mechanisms relying on temporal oscillations or graded signals. Furthermore, during evolution, mechanisms of gradient interpretation might have arisen from oscillatory circuits, or vice versa.
Metalation of unsaturated polymers by using activated organolithium compounds and the formation of graft copolymers. II (1976)

Abstract Polybutadiene was successfully metalated by use of tert ‐butyllithium activated with alkoxides of Group I metals without chain degradation. The metalated polymer was grafted with styrene and 1,3‐butadiene to give novel graft copolymers of varying microstructure. This metalating system was found to be highly efficient; however, its catalyst effectiveness is less than that of organolithium‐TMEDA metalation agent.
MEC-8 regulates alternative splicing of<i>unc-52</i>transcripts in<i>C. elegans</i>hypodermal cells (2002)

Previous work has shown that C. elegans MEC-8 is a putative RNA-binding protein that promotes specific alternative splices of unc-52 transcripts. unc-52 encodes homologs of mammalian perlecan that are located extracellularly between muscle and hypodermis and are essential for muscle development in both embryos and larvae. We show that MEC-8 is a nuclear protein found in hypodermis at most stages of development and not in most late embryonic or larval body-wall muscle. We have also found that overexpression of MEC-8 in hypodermis but not muscle can suppress certain unc-52 mutant phenotypes. These are unexpected results because it has been proposed that UNC-52 is produced exclusively by muscle. We have constructed various tissue-specific unc-52 minigenes fused to a gene for green fluorescent protein that have allowed us to monitor tissue-specific mec-8-dependent alternative splicing; we show that mec-8 must be expressed in the same cell type as the unc-52 minigene in order to regulate its expression, supporting the view that MEC-8 acts directly on unc-52 transcripts and that UNC-52 must be synthesized primarily by the hypodermis. Indeed, our analysis of unc-52 genetic mosaics has shown that the focus of unc-52 action is not in body-wall muscle but most likely is in hypodermis.
In Situ Hybridization (2003)

The application of conventional hybridization methods to detect gene sequences and their messenger RNAs in cytochemical and histological preparations was introduced 20 years ago With the aid of several biological systems to provide model systems and abundant gene products, these early studies established in situ hybridization as a sensitive technique to resolve and quantitate nucleic-acid sequences at the cellular level. For example, the first demonstrations of in situ hybridization to genomic DNA, pioneered by Gall and Pardue (1969) , John et al. (1969) , and Buongiorno-Nardelli and Amaldi (1970) , used in vivo labeled ribosomal RNA as a probe to visualize the several hundred reiterated copies of ribosomal genes clustered within the nucleolus of a variety of cell lines and tissues, including brain. In the early exploitation of viral systems, in situ hybridization was made feasible by the availability of viral genomes to provide probes and was used to demonstrate successfully viral sequences in individual tumor cells (Orth et al., 1970 ; zur Hausen and Schulte-Holthausen, 1972 ; Dunn et al., 1973 . Similarly, the ability to synthesize complementary DNA (cDNA) from an enriched fraction of 9S globin mRNA with viral reverse transcriptase allowed for the first detection of a cellular mRNA (Harrison et al., 1973 ).
Bilayer Segmentation of Live Video. (2006)

a input sequence b automatic layer separation and background substitution in three different frames Figure 1: An example of automatic foreground/background segmentation in monocular image sequences. Despite the challenging foreground motion the person is accurately extracted from the sequence and then composited free of aliasing upon a different background; a useful tool in video-conferencing applications. The sequences and ground truth data used throughout this paper are available from [1]. This paper presents an algorithm capable of real-time separation of foreground from background in monocular video sequences. Automatic segmentation of layers from colour/contrast or from motion alone is known to be error-prone. Here motion, colour and contrast cues are probabilistically fused together with spatial and temporal priors to infer layers accurately and efficiently. Central to our algorithm is the fact that pixel velocities are not needed, thus removing the need for optical flow estimation, with its tendency to error and computational expense. Instead, an efficient motion vs nonmotion classifier is trained to operate directly and jointly on intensity-change and contrast. Its output is then fused with colour information. The prior on segmentation is represented by a second order, temporal, Hidden Markov Model, together with a spatial MRF favouring coherence except where contrast is high. Finally, accurate layer segmentation and explicit occlusion detection are efficiently achieved by binary graph cut. The segmentation accuracy of the proposed algorithm is quantitatively evaluated with respect to existing groundtruth data and found to be comparable to the accuracy of a state of the art stereo segmentation algorithm. Foreground/background segmentation is demonstrated in the application of live background substitution and shown to generate convincingly good quality composite video. 1 1.
Survival and relapse in patients with thrombotic thrombocytopenic purpura (2009)

Survival of patients with thrombotic thrombocytopenic purpura (TTP) improved dramatically with plasma exchange treatment, revealing risk for relapse. The Oklahoma TTP Registry is a population-based inception cohort of all 376 consecutive patients with an initial episode of clinically diagnosed TTP (defined as microangiopathic hemolytic anemia and thrombocytopenia with or without signs and symptoms of ischemic organ dysfunctions) for whom plasma exchange was requested, 1989 to 2008. Survival was not different between the first and second 10-year periods for all patients (68% and 69%, P = .83) and for patients with idiopathic TTP (83% and 77%, P = .33). ADAMTS13 activity was measured in 261 (93%) of 282 patients since 1995. Survival was not different between patients with ADAMTS13 activity < 10% (47 of 60, 78%) and patients with 10% or more (136 of 201, 68%, P = .11). Among patients with ADAMTS13 activity < 10%, an inhibitor titer of 2 or more Bethesda units/mL was associated with lower survival (P = .05). Relapse rate was greater among survivors with ADAMTS13 activity < 10% (16 of 47, 34%; estimated risk for relapse at 7.5 years, 41%) than among survivors with ADAMTS13 activity of 10% or more (5 of 136, 4%; P < .001). In 41 (93%) of 44 survivors, ADAMTS13 deficiency during remission was not clearly related to subsequent relapse.