gebhart/patrepeval huggingface dataset:
Interleukin-7 specifically induces the B7/BB1 antigen on human cord blood and peripheral blood T cells and T cell clones (1993)

B7/BB1 is a cell surface molecule and member of the Ig super family that is constitutively expressed on dendritic cells. In addition, B7 is expressed on B cells, macrophages, T cells, and T cell clones following activation. Interaction of B7 with its natural ligand CD28 is required for optimal stimulation of T cells, activated via the TCR-CD3 complex, which is thought to be due to stabilization of cytokine mRNA. Here we demonstrate that the expression of B7 on T cells can specifically be induced by IL-7. Induction of B7 expression on T cells and T cell clones requires at least 5-7 days of culture and represents a late activation event. Results of studies using T cell clones, as well as resting purified B7- T cells, demonstrate that B7 is induced on a substantial proportion of T cells after IL-7 activation and is not due to an outgrowth of pre-existing B7+ T cells. In addition, CD4+ as well as CD8+ T cells could be induced to express B7. Stimulation of purified cord blood T cells with cross-linked anti-CD3 mAb resulted in a relatively fast (48 h) induction of B7, which could not be inhibited by a neutralizing anti-IL-7 mAb, whereas no endogenous IL-7 production by activated T cells and T cell clones could be detected. Together, these results indicate that the B7 molecule can be induced on T cells by IL-7, but also by an IL-7 independent pathway involving triggering of the TCR-CD3 complex.
SPOOK: A System for Probabilistic Object-Oriented Knowledge Representation (2013)

In previous work, we pointed out the limitations of standard Bayesian networks as a modeling framework for large, complex domains. We proposed a new, richly structured modeling language, {em Object-oriented Bayesian Netorks}, that we argued would be able to deal with such domains. However, it turns out that OOBNs are not expressive enough to model many interesting aspects of complex domains: the existence of specific named objects, arbitrary relations between objects, and uncertainty over domain structure. These aspects are crucial in real-world domains such as battlefield awareness. In this paper, we present SPOOK, an implemented system that addresses these limitations. SPOOK implements a more expressive language that allows it to represent the battlespace domain naturally and compactly. We present a new inference algorithm that utilizes the model structure in a fundamental way, and show empirically that it achieves orders of magnitude speedup over existing approaches.
Progress Toward a Staphylococcus aureus Vaccine (2011)

High attack rates and the ability of Staphylococcus aureus to develop resistance to all antibiotics in medical practice heightens the urgency for vaccine development. S. aureus causes many disease syndromes, including invasive disease, pneumonia, and skin and soft tissue infections. It remains unclear whether a single vaccine could protect against all of these. Vaccine composition is also challenging. Active immunization with conjugated types 5 and 8 capsular polysaccharides, an iron scavenging protein, isdB, and passive immunization against clumping factor A and lipoteichoic acid have all proven unsuccessful in clinical trials. Many experts advocate an approach using multiple antigens and have suggested that the right combination of antigens has not yet been identified. Others advocate that a successful vaccine will require antigens that work by multiple immunologic mechanisms. Targeting staphylococcal protein A and stimulating the T-helper 17 lymphocyte pathway have each received recent attention as alternative approaches to vaccination in addition to the more traditional identification of opsonophagocytic antibodies. Many questions remain as to how to successfully formulate a successful vaccine and to whom it should be deployed.
Immunocytochemical characterization of the endocytic and phagolysosomal compartments in peritoneal macrophages. (1992)

We have used endocytic and phagocytic tracers in an EM immunocytochemical study to define the compartments of the phagocytic and endocytic pathways in mouse peritoneal macrophages. Endocytosed BSA-gold appeared successively in early endosomes, spherical endosomal vesicles, a late endosomal tubuloreticular compartment (TC), and terminal lysosomes. The TC appeared as an elaborate structure enriched for the lysosomal membrane glycoproteins Lamp 1 and Lamp 2, and expressing significant levels of rab7, a late endosome-specific GTP-binding protein. The cation-independent mannose-6-phosphate receptor was restricted to specialized regions of the TC that were predominantly adjacent to the Golgi complex. Both the early endosome and the TC had coated bud structures whose composition and function are presently unknown. Phagolysosomes containing latex beads expressed the same membrane antigens and received endocytic tracers simultaneously with the TC. Since the membrane surrounding both organelles was also in direct continuity, we assume that both structures form one functional compartment. Macrosialin, an antigen confined to macrophages and dendritic cells, was heavily expressed in TC and phagolysosomal membranes with low levels being detected in other endosomal compartments and on the cell surface. Treatment of cells with wheat germ agglutinin drastically altered the morphology of the TC, giving rise to sheets of tightly adherent membrane and greatly expanded vesicles, in which cell-associated wheat germ agglutinin was concentrated. The spherical endosomal carrier vesicles loaded with internalized gold tracers clustered nearby, often making contact without fusing. Since the delivery of endocytic tracer to the TC was significantly delayed these experiments suggest that the lectin is somehow preventing the endosome vesicles from fusing with the TC. Collectively, our data argue first that the PLC is equivalent to the "tubular lysosomes" commonly described in macrophages, and second that the meeting of the phagocytic and endocytic pathway occurs in this compartment.
Importance of timing in cyclophosphamide therapy of MOPC-315 tumor-bearing mice. (1980)

The timing of cyclophosphamide (CY) administration after tumor inoculation was found to be critical for successful therapy of MOPC-315 tumor-bearing mice. Following inoculation with 3.5 × 106 viable tumor cells, a single i.p. injection of CY (15 mg/kg) into mice bearing 10- to 25-mm (Days 8 to 14) tumors cured most mice, whereas injection into mice bearing nonpalpable (Day 4) tumors cured only a few of the mice. The time interval between tumor inoculation and CY administration rather than the tumor size was critical for successful therapy since mice bearing nonpalpable tumors 12 to 13 days postinoculation with 105 viable tumor cells were cured by CY therapy. Furthermore, CY therapy of mice bearing large (19-mm) tumors was not curative for mice that had been treated previously when their tumors were nonpalpable. A curative injection of CY into mice bearing large tumors resulted in an augmented ability of their spleen cells to mount a cytotoxic antitumor response upon in vitro immunization with mitomycin C-treated stimulator tumor cells. This was not further augmented by depletion of glass-adherent cells and was accompanied by a decrease in the percentage of cells bearing surface MOPC-315 myeloma protein in the spleen. The level of antitumor cytotoxicity exhibited by in vitro -immunized spleen cells from CY-treated mice was equivalent to that exhibited by in vitro -immunized spleen cells from untreated tumor-bearing mice that prior to in vitro immunization were depleted of glass-adherent cells. Since depletion of glass-adherent cells from tumor bearer spleen cells prior to in vitro immunization was shown to result in greater augmentation of antitumor cytotoxicity than that obtained by depletion of tumor cells (25), the present data suggest that in addition to the drug's tumoricidal activity, it also eliminates other suppressor elements in the spleen. Mice cured of tumors following CY therapy exhibited a high degree of antitumor immunity as judged in vivo by their ability to reject a large tumor challenge and in vitro by the ability of their spleen cells to mount a “secondary type” antitumor response upon in vitro immunization.
An Enhancer Element in the EphA2 (Eck) Gene Sufficient for Rhombomere-specific Expression Is Activated by HOXA1 and HOXB1 Homeobox Proteins (1998)

In the hindbrain of the mouse embryo, there is often coincident rhombomere-restricted expression of Eph receptor tyrosine kinases and Hox homeobox genes, raising the possibility of regulatory interactions. In this paper, we have identified cis-acting regulatory sequences of the EphA2 (Eck) gene, which direct node and hindbrain-specific expression in transgenic embryos. An 8-kilobase region of mouse genomic DNA element was sufficient to drive rhombomere 4 (r4)-specific expression while conferring patchy expression in the node. Further analysis localized the rhombomere-specific enhancer to a 0.9-kilobase sequence. This element contains multiple Hox-Pbx consensus binding sites that bind to both HOXA1/Pbx1 and HOXB1/Pbx1 proteins in vitro. Co-expression of either HOXA1 or HOXB1 with Pbx1 transactivated EphA2 enhancer-dependent reporter gene expression. These results, together with observations of reduced EphA2 expression in hoxa1 and hoxb1 double mutant mice, suggest that expression of EphA2 gene in rhombomere 4 is directly regulated by Hoxa1 and Hoxb1 homeobox transcription factors.
Emitter Location Accuracy Using TDOA and Differential Doppler (1982)

Two methods for locating a radio or sonar transmitter are briefly described: time difference of arrival (TDOA). d differential Doppler. Two formulas are derived which relate the accuracy of the time and frequency measurements the "one-sigma widths" of the lines of constant TDOA onstant differential Doppler on the surface of the FDOA.
Overexpression of D-Xylose Reductase (xyl1) Gene and Antisense Inhibition of D-Xylulokinase (xyiH) Gene Increase Xylitol Production inTrichoderma reesei (2014)

T. reesei is an efficient cellulase producer and biomass degrader. To improve xylitol production in Trichoderma reesei strains by genetic engineering, two approaches were used in this study. First, the presumptive D-xylulokinase gene in T. reesei (xyiH), which has high homology to known fungi D-xylulokinase genes, was silenced by transformation of T. reesei QM9414 strain with an antisense construct to create strain S6-2-2. The expression of the xyiH gene in the transformed strain S6-2-2 decreased at the mRNA level, and D-xylulokinase activity decreased after 48 h of incubation. This led to an increase in xylitol production from undetectable levels in wild-type T. reesei QM9414 to 8.6 mM in S6-2-2. The T. reesei Δxdh is a xylose dehydrogenase knockout strain with increased xylitol production compared to the wild-type T. reesei QM9414 (22.8 mM versus undetectable). The copy number of the xylose reductase gene (xyl1) in T. reesei Δxdh strain was increased by genetic engineering to create a new strain Δ9-5-1. The Δ9-5-1 strain showed a higher xyl1 expression and a higher yield of xylose reductase, and xylitol production was increased from 22.8 mM to 24.8 mM. Two novel strains S6-2-2 and Δ9-5-1 are capable of producing higher yields of xylitol. T. reesei has great potential in the industrial production of xylitol.
Scan Compression Implementation in Industrial Design - Case Study (2009)

Embedded scan test compression is used to enable high test quality and has become a standard practice on many designs. This paper describes power and timing experiences related to embedded compression technology. A commercial tool was used to implement EDT compression technology in three wireless designs. The case study and results demonstrate the effect of power reduction methods and timing closure considerations.
Radioisotope Dating with a Cyclotron (1977)

By considering radioisotope dating as a problem in trace element detection, and by using the cyclotron as a high-energy mass spectrometer for this purpose, we have shown that one can greatly increase the maximum age that can be determined while simultaneously reducing the size of the sample required. The cyclotron can be used to detect atoms or simple molecules that are present at the 10(-16) level or greater. For (14)C dating one should be able to go back 40,000 to 100,000 years with 1- to 100-mg carbon samples; for (10)Be dating, 10 to 30 million years with 1-mm(3) to 10-cm(3) rock samples; for tritium dating, 160 years with a 1-liter water sample. The feasibility of the technique has been demonstrated experimentally by measuring the tritium/deuterium ratio in a sample 24 years old. For samples many half-lives old, the fractional error in the age is small even if rates of production or deposition of the isotopes. Although cyclotrons are expensive to build, their operating costs are relatively low. If several samples are dated per hour the cost per date may not be substantially higher than it is today for decay dating. There are already more than 50 cyclotrons in operation which have the potential to do radioisotope dating, and their application to important problems of dating and trace element analysis should prove very fruitful.
The Relative Power of Family-Based and Case-Control Designs for Linkage Disequilibrium Studies of Complex Human Diseases I. DNA Pooling (1998)

We consider statistics for analyzing a variety of family-based and nonfamily-based designs for detecting linkage disequilibrium of a marker with a disease susceptibility locus. These designs include sibships with parents, sibships without parents, and use of unrelated controls. We also provide formulas for and evaluate the relative power of different study designs using these statistics. In this first paper in the series, we derive statistical tests based on data derived from DNA pooling experiments and describe their characteristics. Although designs based on affected and unaffected sibs without parents are usually robust to population stratification, they suffer a loss of power compared with designs using parents or unrelateds as controls. Although increasing the number of unaffected sibs improves power, the increase is generally not substantial. Designs including sibships with multiple affected sibs are typically the most powerful, with any of these control groups, when the disease allele frequency is low. When the allele frequency is high, however, designs with unaffected sibs as controls do not retain this advantage. In designs with parents, having an affected parent has little impact on the power, except for rare dominant alleles, where the power is increased compared with families with no affected parents. Finally, we also demonstrate that for sibships with parents, only the parents require individual genotyping to derive the TDT statistic, whereas all the offspring can be pooled. This can potentially lead to considerable savings in genotyping, especially for multiplex sibships. The formulas and tables we derive should provide some guidance to investigators designing nuclear family-based linkage disequilibrium studies for complex diseases.
Quantum Size Effects in Chemically Deposited, Nanocrystalline Lead Selenide Films (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTQuantum Size Effects in Chemically Deposited, Nanocrystalline Lead Selenide FilmsSasha Gorer, Ana Albu-Yaron, and Gary HodesCite this: J. Phys. Chem. 1995, 99, 44, 16442–16448Publication Date (Print):November 1, 1995Publication History Published online1 May 2002Published inissue 1 November 1995https://pubs.acs.org/doi/10.1021/j100044a036https://doi.org/10.1021/j100044a036research-articleACS PublicationsRequest reuse permissionsArticle Views614Altmetric-Citations113LEARN 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 options Get e-Alerts
IL-15 mRNA expression is up-regulated in blood and cerebrospinal fluid mononuclear cells in multiple sclerosis (MS) (1998)

IL-15, produced by monocytes and epithelial cells, is a novel cytokine with actions similar to IL-2. IL-15 induces T cell proliferation, B cell maturation and natural killer (NK) cell cytotoxicity, and is a chemoattractant for T cells. We investigated the expression of IL-15 mRNA in blood and cerebrospinal fluid (CSF) mononuclear cells (MNC) in MS, an inflammatory disease of the central nervous system where cytokines are involved. MS patients had higher numbers of IL-15 mRNA-expressing blood MNC than patients with aseptic meningo-encephalitis (AM) and healthy controls. In CSF, MS patients had even higher numbers of IL-15 mRNA-expressing cells than in blood. This discrepancy between IL-15 mRNA expression between blood and CSF MNC was not seen in AM patients. Patients examined during the secondary chronic-progressive phase of MS had higher numbers of IL-15 mRNA-expressing blood MNC compared with patients examined during the relapsing-remitting phase. Levels of IL-15 mRNA-positive blood MNC were similar in patients with AM, myasthenia gravis, non-inflammatory neurological diseases and healthy controls. Taken together these data indicate that IL-15 mRNA expression is up-regulated in MS, further suggesting a role for proinflammatory cytokines in the pathogenesis of MS.
Brain-Derived Neurotrophic Factor Rescues Synaptic Plasticity in a Mouse Model of Fragile X Syndrome (2007)

Mice lacking expression of the fragile X mental retardation 1 (Fmr1) gene have deficits in types of learning that are dependent on the hippocampus. Here, we report that long-term potentiation (LTP) elicited by threshold levels of theta burst afferent stimulation (TBS) is severely impaired in hippocampal field CA1 of young adult Fmr1 knock-out mice. The deficit was not associated with changes in postsynaptic responses to TBS, NMDA receptor activation, or levels of punctate glutamic acid decarboxylase-65/67 immunoreactivity. TBS-induced actin polymerization within dendritic spines was also normal. The LTP impairment was evident within 5 min of induction and, thus, may not be secondary to defects in activity-initiated protein synthesis. Protein levels for both brain-derived neurotrophic factor (BDNF), a neurotrophin that activates pathways involved in spine cytoskeletal reorganization, and its TrkB receptor were comparable between genotypes. BDNF infusion had no effect on baseline transmission or on postsynaptic responses to theta burst stimulation, but nonetheless fully restored LTP in slices from fragile X mice. These results indicate that the fragile X mutation produces a highly selective impairment to LTP, possibly at a step downstream of actin filament assembly, and suggest a means for overcoming this deficit. The possibility of a pharmacological therapy based on these results is discussed.
Radiohalogenated Prostate-Specific Membrane Antigen (PSMA)-Based Ureas as Imaging Agents for Prostate Cancer (2008)

To extend our development of new imaging agents targeting the prostate-specific membrane antigen (PSMA), we have used the versatile intermediate 2-[3-(5-amino-1-carboxy-pentyl)-ureido]-pentanedioic acid (Lys-C(O)-Glu), which allows ready incorporation of radiohalogens for single photon emission computed tomography (SPECT) and positron emission tomography (PET). We prepared 2-[3-[1-carboxy-5-(4-[(125)I]iodo-benzoylamino)-pentyl]-ureido]-pentanedioic acid ([(125)I]3), 2-[3-[1-carboxy-5-(4-[(18)F]fluoro-benzoylamino)-pentyl]-ureido]-pentanedioic acid ([(18)F]6), and 2-(3-[1-carboxy-5-[(5-[(125)I]iodo-pyridine-3-carbonyl)-amino]-pentyl]-ureido)-pentanedioic acid ([(125)I]8) in 65-80% (nondecay-corrected), 30-35% (decay corrected), and 59-75% (nondecay-corrected) radiochemical yields. Compound [(125)I]3 demonstrated 8.8 +/- 4.7% injected dose per gram (%ID/g) within PSMA(+) PC-3 PIP tumor at 30 min postinjection, which persisted, with clear delineation of the tumor by SPECT. Similar tumor uptake values at early time points were demonstrated for [(18)F]6 (using PET) and [(125)I]8. Because of the many radiohalogenated moieties that can be attached via the epsilon amino group, the intermediate Lys-C(O)-Glu is an attractive template upon which to develop new imaging agents for prostate cancer.
Interactive billing for broadband and multimedia services (2002)

Community networking services will range from entertainment to shopping to information services. The complexity of the transport and control architectures that are needed to support these services combined with the diverse needs of customers and service providers demand the development of new paradigms for monitoring service usage, and for rating and billing for the usage. Billing is an area of strategic importance to telecommunications service providers. Billing services provide strategic advantage in the marketplace where it is increasingly difficult to differentiate through product features and functionality, and where companies are trying to gain competitive advantage through customer service features. The usage information collection and management paradigm proposed is an essential component of meeting the billing needs for new, distributed broadband and multimedia services.
A novel phase and frequency navigator for proton magnetic resonance spectroscopy using water‐suppression cycling (2010)

Magnetic resonance spectroscopy is sensitive to movements, in part, because of motion-induced phase and frequency variations that lead to incoherent averaging. For in vivo proton magnetic resonance spectroscopy, the unsuppressed or under-suppressed water signal can be used to restore coherent averaging; however, this approach results in baseline distortions due to the large water peak. Therefore, a novel water-suppression cycling scheme was developed that alternates between positive and negative residual water signal. Using the residual water signal, the method allows for shot-to-shot phase and frequency correction of individual free induction decays and restoration of signal losses due to incoherent averaging, yet near-complete elimination of residual water. It is demonstrated that the residual water signal can be used to restore metabolite peaks in a brain spectrum from a subject who performed intentional head movements. The ability to correct phase and frequency fluctuations during subject motion is vital for use with adaptive motion correction approaches that ensure proper voxel positioning during head movements.
Derivatization of phosphopeptides with mercapto- and amino-functionalized conjugate groups by phosphate elimination and subsequent Michael addition (2005)

Kinetics of the beta-elimination of the phosphate group from H-Tyr-Ser(PO3H2)-Phe-OH and H-Tyr-Thr(PO3H2)-Phe-OH and subsequent addition of thiols and amines to the dehydroalaninyl and beta-methyldehydroalaninyl residues formed, were followed by RP HPLC under alkaline conditions in the absence and presence of Ba2+ ions. By this reaction sequence, the phosphoserinyl peptide was conjugated with mono-N-(2-mercaptoethyl)amide of 1,4,7,10-tetraazacyclododecane-1,4,7,10-tetraacetic acid (4), a mercapto-functionalized pentapeptide, H-His-Gly-Gly-His-Gly-NH(CH2)4SH, and an amino-functionalized fluorescent dye, 5-dimethylaminonaphthalene-1-[N-(5-aminopentyl)]sulfonamide (dansyl cadaverine). The beta-methyldehydroalanine residue was, in turn, observed to be a poor Michael acceptor.