gebhart/patrepeval huggingface dataset:
Genetic control of the immune response to staphylococcal nuclease. III. Time-course and correlation between the response to native nuclease and the response to its polypeptide fragments. (1977)

The progression of the Ir gene-controlled antibody response to staphylococcal nuclease in mice with repeated immunizations has been examined. H-2-linked control of the response to a single immunization with 100 mug of nuclease in complete Freund's adjuvant was confirmed. However, among strains of the high responder H-2a haplotype, the response of the A/J mice was about 10-fold higher than that of the B10.A, indicating additional non-H-2-linked control. In addition, the low responder C57BL/10 (H-2b) strain produced antibody levels as high as or higher than those of the congenic high responder B10.A (H-2a) strain when both strains were repeatedly immunized, indicating complexity even in the H-2-linked control of the response to this small monomeric protein. Polypeptide fragments of nuclease were also studied as immunogens. The antibody response to one fragment (residues 99-149) was found to follow the same pattern among five strains tested as that to whole nuclease. However, in this case the C57BL/10 was found to be a nonresponder rather than a low responder, failing to develop a response despite repeated immunizations. In contrast, the C57BL/10 showed a low but significant response to another fragment (residues 1-126) of nuclease. These results suggest that the apparent H-2-linked control of the response to whole nuclease is a reflection of the ability to recognize a determinant(s) in the region from residues 99 to 149, and that the eventual response of the C57BL/10 strain after hyperimmunization reflects the recognition of other determinants. If these observations reflect the common recognition of a determinant on native nuclease and on a random-conformation fragment, they have implications about the conformational specificity of the receptors, or the flexibility of the determinants, involved in H-2-linked Ir-gene control. In addition, evidence is presented for a possible second H-2-linked gene (or genes) controlling the response to other determinants of nuclease expressed on the polypeptide fragments.
Control engineering for computing systems - industry experience and research challenges (2005)

Control theory has an important role to play in developing new computing systems, especially complicated software systems. Control problems that commonly occur in computing systems include regulating service levels, optimizing resources, and rejecting disturbances such as variable workloads. Developing control systems to address these problems involves a number of challenges. The article describes some of the challenges that arise in applying control theory to computing systems.
415: Mutational Analysis of the P63 Gene in Prostate Cancer Cells (2004)

You have accessJournal of UrologyDiscussed Poster, Sunday, May 9, 2004, 8:00 am - 12:00 pm1 Apr 2004415: Mutational Analysis of the P63 Gene in Prostate Cancer Cells J. Kellogg Parsons, Rebecca J. Mitchell, Robert L. Vessella, Charles L. Sawyers, William B. Isaacs, Dennis A. Faith, G. Steven Bova, and Angelo M. De Marzo J. Kellogg ParsonsJ. Kellogg Parsons More articles by this author , Rebecca J. MitchellRebecca J. Mitchell More articles by this author , Robert L. VessellaRobert L. Vessella More articles by this author , Charles L. SawyersCharles L. Sawyers More articles by this author , William B. IsaacsWilliam B. Isaacs More articles by this author , Dennis A. FaithDennis A. Faith More articles by this author , G. Steven BovaG. Steven Bova More articles by this author , and Angelo M. De MarzoAngelo M. De Marzo More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(18)37677-8AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "415: Mutational Analysis of the P63 Gene in Prostate Cancer Cells." The Journal of Urology, 171(4S), p. 110 © 2016 by American Urological AssociationFiguresReferencesRelatedDetails Volume 171Issue 4SApril 2004Page: 110 Advertisement Copyright & Permissions© 2016 by American Urological AssociationMetricsAuthor Information J. Kellogg Parsons More articles by this author Rebecca J. Mitchell More articles by this author Robert L. Vessella More articles by this author Charles L. Sawyers More articles by this author William B. Isaacs More articles by this author Dennis A. Faith More articles by this author G. Steven Bova More articles by this author Angelo M. De Marzo More articles by this author Expand All Advertisement PDF downloadLoading ...
A Theoretical Analysis of the Feasibility of a Singularity-Induced Micro-Electroporation System (2011)

Electroporation, the permeabilization of the cell membrane lipid bilayer due to a pulsed electric field, has important implications in the biotechnology, medicine, and food industries. Traditional macro and micro-electroporation devices have facing electrodes, and require significant potential differences to induce electroporation. The goal of this theoretical study is to investigate the feasibility of singularity-induced micro-electroporation; an electroporation configuration aimed at minimizing the potential differences required to induce electroporation by separating adjacent electrodes with a nanometer-scale insulator. In particular, this study aims to understand the effect of (1) insulator thickness and (2) electrode kinetics on electric field distributions in the singularity-induced micro-electroporation configuration. A non-dimensional primary current distribution model of the micro-electroporation channel shows that while increasing insulator thickness results in smaller electric field magnitudes, electroporation can still be performed with insulators thick enough to be made with microfabrication techniques. Furthermore, a secondary current distribution model of the singularity-induced micro-electroporation configuration with inert platinum electrodes and water electrolyte indicates that electrode kinetics do not inhibit charge transfer to the extent that prohibitively large potential differences are required to perform electroporation. These results indicate that singularity-induced micro-electroporation could be used to develop an electroporation system that consumes minimal power, making it suitable for remote applications such as the sterilization of water and other liquids.
Flying Smartphones: Automated Flight Enabled by Consumer Electronics (2015)

Consumer-grade technology seen in cameras and phones has led to the price-performance ratio falling dramatically over the last decade. We are seeing a similar trend in robots that leverage this technology. A recent development is the interest of companies such as Google, Apple, and Qualcomm in high-end communication devices equipped with such sensors as cameras and inertial measurement units (IMUs) and with significant computational capability. Google, for instance, is developing a customized phone equipped with conventional as well as depth cameras. This article explores the potential for the rapid integration of inexpensive consumer-grade electronics with the off-the-shelf robotics technology for automation in homes and offices. We describe how standard hardware platforms (robots, processors, and smartphones) can be integrated through simple software architecture to build autonomous quadrotors that can navigate and map unknown, indoor environments. We show how the quadrotor can be stabilized and controlled to achieve autonomous flight and the generation of three-dimensional (3-D) maps for exploring and mapping indoor buildings with application to smart homes, search and rescue, and architecture. This opens up the possibility for any consumer to take a commercially available robot platform and a smartphone and automate the process of creating a 3-D map of his/her home or office.
The microbial metabolite p-Cresol induces autistic-like behaviors in mice by remodeling the gut microbiota (2021)

The microbial metabolite p-Cresol induces selectively ASD core behavioral symptoms in mice. Social behavior deficits induced by p-Cresol are dependant on changes in microbiota composition. Our study paves the way for therapeutic interventions targeting the microbiota and p-Cresol production to treat patients with ASD. Video abstract.
Thermoregulation of virB transcription in Shigella flexneri by sensing of changes in local DNA superhelicity (1995)

Transcription of the virB gene, a transcriptional regulator of invasion genes on the large plasmid of Shigella flexneri, is strictly regulated by growth temperature; when bacteria are grown at 37 degrees C, virB transcription is highly activated, while at 30 degrees C the level of virB transcription decreases to less than 5% of that at 37 degrees C. Transcription from the virB promoter is activated by VirF, which is encoded on the same plasmid, in a DNA superhelicity-dependent manner (T. Tobe, M. Yoshikawa, T. Mizuno, and C. Sasakawa, J. Bacteriol. 175:6142-6149, 1993). Here we provide evidence supporting the involvement of negative superhelicity in the thermoregulation of virB transcription. A local negatively supercoiled domain in the virB promoter region was created by activating a divergent transcription from the T7 RNA polymerase-dependent promoter, phi 10, which was placed upstream of the virB promoter in the opposite orientation. Transcription from the virB promoter was activated even at 30 degrees C by induction of divergent transcription. Levels of virB transcription correlated with levels of expressed T7 RNA polymerase. Transcriptional activation of virB by the system depended completely upon VirF function. The level of virB transcription achieved by introducing a negatively supercoiled domain was enough to give rise to expression of invasion capacity at 30 degrees C. These results indicated that the repression of virB transcription at 30 degrees C was caused by a reduction in negative superhelicity around the virB promoter region at 30 degrees C.
Nucleation of bubbles in liquid helium at negative pressure (1989)

We consider the rate at which bubbles form when a negative pressure is applied to liquid $^{4}\mathrm{He}$. We show that at a critical pressure ${\mathrm{P}}_{\mathrm{c}}$ of about -9 bars, the liquid becomes macroscopically unstable and the barrier against nucleation of bubbles becomes zero. The tensile strength of liquid helium is calculated as a function of temperature allowing for these effects.
Direct evidence that the N-terminal extensions of the TAP complex act as autonomous interaction scaffolds for the assembly of the MHC I peptide-loading complex (2012)

The loading of antigenic peptides onto major histocompatibility complex class I (MHC I) molecules is an essential step in the adaptive immune response against virally or malignantly transformed cells. The ER-resident peptide-loading complex (PLC) consists of the transporter associated with antigen processing (TAP1 and TAP2), assembled with the auxiliary factors tapasin and MHC I. Here, we demonstrated that the N-terminal extension of each TAP subunit represents an autonomous domain, named TMD0, which is correctly targeted to and inserted into the ER membrane. In the absence of coreTAP, each TMD0 recruits tapasin in a 1:1 stoichiometry. Although the TMD0s lack known ER retention/retrieval signals, they are localized to the ER membrane even in tapasin-deficient cells. We conclude that the TMD0s of TAP form autonomous interaction hubs linking antigen translocation into the ER with peptide loading onto MHC I, hence ensuring a major function in the integrity of the antigen-processing machinery.
Correction. Properties of Bis(trifluoroacetoxy)borane as a Reducing Agent of Organic Compounds (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCorrection. Properties of Bis(trifluoroacetoxy)borane as a Reducing Agent of Organic CompoundsBruce Maryanoff, David McComsey, and Samuel NorteyCite this: J. Org. Chem. 1981, 46, 12, 2604Publication Date (Print):June 1, 1981Publication History Published online1 May 2003Published inissue 1 June 1981https://pubs.acs.org/doi/10.1021/jo00325a609https://doi.org/10.1021/jo00325a609research-articleACS PublicationsRequest reuse permissionsArticle Views38Altmetric-Citations-LEARN 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
Automated Synthesis of (rac)‐, (R)‐, and (S)‐[18F]Epifluorohydrin and Their Application for Developing PET Radiotracers Containing a 3‐[18F]Fluoro‐2‐hydroxypropyl Moiety (2018)

To introduce the 3-[<sup>18</sup> F]fluoro-2-hydroxypropyl moiety into positron emission tomography (PET) radiotracers, we performed automated synthesis of (rac)-, (R)-, and (S)-[<sup>18</sup> F]epifluorohydrin ([<sup>18</sup> F]1) by nucleophilic displacement of (rac)-, (R)-, or (S)-glycidyl tosylate with <sup>18</sup> F<sup>-</sup> and purification by distillation. The ring-opening reaction of (R)- or (S)-[<sup>18</sup> F]1 with phenol precursors gave enantioenriched [<sup>18</sup> F]fluoroalkylated products without racemisation. We then synthesised (rac)-, (R)-, and (S)- 2-{5-[4-(3-[<sup>18</sup> F]fluoro-2-hydroxypropoxy)phenyl]-2-oxobenzo[d]oxazol-3(2H)-yl}-N-methyl-N-phenylacetamide ([<sup>18</sup> F]6) as novel radiotracers for the PET imaging of translocator protein (18 kDa) and showed that (R)- and (S)-[<sup>18</sup> F]6 had different radioactivity uptake in mouse bone and liver. Thus, (rac)-, (R)-, and (S)-[<sup>18</sup> F]1 are effective radiolabelling reagents and can be used to develop PET radiotracers by examining the effects of chirality on their in vitro binding affinities and in vivo behaviour.
Parallel Deep Neural Network Training for Big Data on Blue Gene/Q (2014)

Deep Neural Networks (DNNs) have recently been shown to significantly outperform existing machine learning techniques in several pattern recognition tasks. DNNs are the state-of-the-art models used in image recognition, object detection, classification and tracking, and speech and language processing applications. The biggest drawback to DNNs has been the enormous cost in computation and time taken to train the parameters of the networks - often a tenfold increase relative to conventional technologies. Such training time costs can be mitigated by the application of parallel computing algorithms and architectures. However, these algorithms often run into difficulties because of the cost of inter-processor communication bottlenecks. In this paper, we describe how to enable Parallel Deep Neural Network Training on the IBM Blue Gene/Q (BG/Q) computer system. Specifically, we explore DNN training using the data parallel Hessian-free 2nd order optimization algorithm. Such an algorithm is particularly well-suited to parallelization across a large set of loosely coupled processors. BG/Q, with its excellent inter-processor communication characteristics, is an ideal match for this type of algorithm. The paper discusses how issues regarding programming model and data-dependent imbalances are addressed. Results on large-scale speech tasks show that the performance on BG/Q scales linearly up to 4096 processes with no loss in accuracy. This allows us to train neural networks using billions of training examples in a few hours.
2019 in review (2020)

Dillon, Michael P1; Ramstrand, Nerrolyn2,; Fatone, Stefania3; Hafner, Brian J4 Author Information
Optimizing the parameters for laser beam welding of aluminum-lithium alloy 2195 (1996)

Aluminum-lithium alloy 2195 is of considerable interest in the aerospace industry because of its high strength, high stiffness, and low density. Laser processing of this material offers potential advantages in processing speed and material cost savings. An investigation was conducted to determine the effect of laser beam process and material parameters on weld characteristics. The issues addressed were coupling efficiency, process stability, solidification cracking, and strengthening mechanisms. The results indicated that coupling of a laser beam with aluminum alloys is enhanced by lithium additions; and process stability and crack sensitivity is improved when using a defocused laser beam and silicon-rich filler alloys. In addition, the fusion zone exhibits a high degree of solute partitioning but not strengthening precipitates.
RAPTOR: A fluoroimmunoassay-based fiber optic sensor for detection of biological threats (2003)

The RAPTOR was developed to meet the need for a small, portable, easily operated biosensor for the detection of biological threats in the field. This device has evolved over a number of years to reach its current level of maturity. This paper describes details of the RAPTOR's design, including the recent upgrades to the fluidics and optics subsystems, as well as design improvements that have increased both system reliability and sensitivity. Working with these system upgrades, we also investigated biochemical methods that further improve assay sensitivity. The use of NeutrAvidin/biotin chemistry to improve immobilization of the capture antibody, coupled with use of the fluorophore Alexa Fluor 647 to label the tracer antibody, has resulted in a two- to four-fold signal enhancement. These gains, in combination with redesigned optics and instrumentation, have resulted in approximately a log-order improvement over earlier systems. These improvements are shown for an assortment of analytes of interest, including Staphylococcal enterotoxin type-B, Francisella tularensis, Bacillus anthracis, and Bacillus globigii spores.
Modélisation de la disponibilité d'une chaîne de GNL sur la base d'une approche bayésienne d'estimation des indices de fiabilité (2003)

Les usines de gaz naturel liquéfié (GNL) se caractérisent par leur nombre relativement réduit dans le monde, la diversité des procédés technologiques utilisés ainsi que des coûts d'investissement et d'exploitation très élevés. L'autoconsommation de ce type d'unité est de l'ordre de 15 % et peut quasiment doubler dans le cas d'une fréquence importante des arrêts intempestifs ou volontaires dus aux pannes des équipements situés sur tout le parcours de la chaîne GNL. En conséquence, l'amélioration de la fiabilité de la chaîne dans sa globalité se traduirait objectivement par une réduction substantielle des coûts d'énergie. Pour le cas des systèmes réparables, on utilise le plus souvent la disponibilité comme indicateur de fiabilité. Dans cet article, la chaîne GNL est assimilée à un système complexe indissociable. Cependant, la modélisation des systèmes complexes, d'un point de vue fiabilité ou autre, est toujours délicate en raison principalement des dimensions astronomiques de l'espace de phase. Ainsi, une approche de type systémique est mise à profit pour ramener l'espace de phase à des dimensions gérables. Une représentation des sous-systèmes par diagrammes de fiabilité permet alors une estimation plus aisée des probabilités associées à chaque état. Enfin, une démarche bottom up autorise la reconstitution du modèle global de disponibilité de la chaîne GNL. En liaison avec la faiblesse manifeste caractérisant le retour d'expérience dans le domaine de la technologie du GNL, une approche d'estimation bayésienne des indices de fiabilité des différents équipements composant la chaîne est mise à profit. Un certain nombre de résultats de l'application de la méthodologie développée à la chaîne Hassi R'mel-Skikda sont fournis.
Computational Study of Turbulent Gas-Particle Flow in a Venturi (1986)

A “two-fluid” model has been applied to predict turbulent dilute gas-particle flow through a Venturi tube. Bulk motion of particles is considered as a secondary fluid flow which exchanges mass and momentum with the primary conveying air stream. Closure of the time-averaged equations is achieved by modelling turbulent second-order correlations with an extended mixing-length theory. Proposed closure model is found to aptly simulate the dependency of the static pressure drop on the particle size, flow rate and the loading ratio.
Board and Advisory Council reports (2001)

Annual Report The Board’s Annual report has been submitted to Parliament and after tabling will be circulated to Forest Practices Officers and others. The Report provides a good snapshot of the operations of the Board, including interesting statistics on forest practices plans and the maintenance of the permanent forest estate, and summaries of the research and advisory work done by the specialists. The results of the audit are also provided. With respect to the audit, the Board noted that very high standards had been achieved across most areas, but there were some problem areas where the nominated standard was not achieved. In particular, the Board noted problems with some site preparation standards on State forest. The Board expects that the new Code will provide clearer guidelines for plantation establishment. FPOs are asked to contact a soils specialist if in doubt about any of the site preparation/ cultivation requirements of the Code.
Time series scRNAseq analysis in mouse and human informs optimization of rapid astrocyte differentiation protocols (2021)

Macroglia (astrocytes and oligodendrocytes) are required for normal development and function of the central nervous system, yet many questions remain about their emergence in the brain and spinal cord. Here we used single-cell RNA sequencing (scRNAseq) to analyze over 298,000 cells and nuclei during macroglia differentiation from mouse embryonic and human induced pluripotent stem cells. We computationally identify candidate genes involved in fate specification of glia in both species, and report heterogeneous expression of astrocyte surface markers across differentiating cells. We then used our scRNAseq data to optimize a previous mouse astrocyte differentiation protocol, decreasing the overall protocol length and complexity. Finally, we used multiomic, dual single nuclei (sn)RNAseq/snATACseq analysis to uncover potential genomic regulatory sites mediating glial differentiation. These datasets enable future optimization of glial differentiation protocols and provide insight into human glial differentiation.
Experimental Analysis of MIMO-OFDM Eigenmode Transmission with MMSE Interference Canceller (2006)

As the wireless channel is constantly changing, MIMO-OFDM eigenmode transmission is extremely vulnerable to the presence of feedback delay which is unavoidable in a practical system. Under such imperfect conditions, the inter-eigenmode interference can be removed through the use of the MMSE interference canceller. However, to the best of our knowledge, the performance of MIMO-OFDM eigenmode with MMSE interference canceller has not been proven by experimental results. In this paper, we present experimental results for the bit error rate (BER) performance of MIMO-OFDM eigenmode transmission with and without MMSE interference canceller. In the experiment, a time-varying channel is synthetically generated in a static environment by exploiting the inherent spatial correlation in a static environment. Our experimental results proved the robustness of MIMO-OFDM eigenmode with MMSE interference canceller in the presence of feedback delay