gebhart/patrepeval huggingface dataset:
Mechanism of action of the group A streptococcal C5a inactivator. (1985)

Virulent group A streptococci have been found to express a cell-surface factor that has the capability of inactivating complement-derived chemotactic factors. To determine the mechanism of action of this factor, we examined the interaction of purified inactivator with pure C5a chemotaxin. Ligand-receptor binding studies demonstrated that streptococcal chemotactic factor inactivator (SCFI)-treated C5a expressed a greatly reduced ability to bind to receptors of polymorphonuclear leukocytes as compared with native C5a. The inactivation of C5a occurred by a nonstoichiometric and temperature-dependent process. NaDodSO4/PAGE analysis indicated that SCFI mediated a small decrease in the molecular weight of C5adesArg, and sequencing of the carboxyl terminus of inactivated C5a demonstrated that a six-residue peptide was lost. The release of discrete peptide fragments from denatured bovine serum albumin upon prolonged incubation with SCFI was indicative of endoprotease activity. Although denatured bovine serum albumin was inefficiently cleaved, native bovine serum albumin and other native proteins were highly resistant to SCFI proteolysis; this indicated that activity was specific in nature.
Experimental intramammary inoculation with Mycoplasma bovis in vaccinated and unvaccinated cows: effect on local and systemic antibody response. (1987)

Four cows were vaccinated with Mycoplasma bovis five times at two week intervals: three times subcutaneously in Freund's complete adjuvant, and two times with M. bovis alone in two of four quarters by intramammary infusion. The effect of vaccination on the immune response was evaluated in the serum and whey of the four vaccinated and control (placebo) cows experimentally challenged in two of four quarters with live M. bovis. Vaccination resulted in markedly increased M. bovis-specific, serum IgM, IgG and IgG2, but not IgA, reactivity. Challenge exposure with live M. bovis by intramammary infusion resulted in high specific serum IgM, IgG1 and IgG2 reactivity and a noticeable IgA response in both vaccinated and control cows. Whey from quarters on vaccinated cows had elevated, specific IgG1 reactivity at the time of challenge but no other differences were observed. Challenge exposure with live M. Bovis resulted in high antibody levels of all isotypes in quarters which were challenged, but highly elevated reactivities in unchallenged quarters occurred only with IgG1 and IgG2. These results indicate that vaccination elevated M. bovis-specific IgG1 but not other immunoglobulin reactivity in quarters on vaccinated cows, and that live organisms are necessary to elicit a local, specific IgA response.
Lumpectomy with or without postoperative radiotherapy for breast cancer with favourable prognostic features: results of a randomized study (2001)

The aim of this trial was to study the value of adding post-operative radiotherapy to lumpectomy in a subgroup of breast cancer patients with favourable patient-, tumour-, and treatment-related prognostic features. 152 women aged over 40 with unifocal breast cancer seen in preoperative mammography were randomly assigned to lumpectomy alone (no-XRT group) or to lumpectomy followed by radiotherapy to the ipsilateral breast (50 Gy given within 5 weeks, XRT group). All cancers were required to be invasive node-negative, smaller than 2 cm in diameter and well or moderately differentiated, to contain no extensive intraductal component, to be progesterone receptor-positive, DNA diploid, have S-phase fraction </=7 and be excised with at least 1 cm margin. During a mean follow-up time of 6.7 years, 13 (18.1%) cancers recurred locally in the no-XRT and 6 (7.5%) in the XRT group (P = 0.03). There was no difference between the groups in the ultimate breast preservation rate (95.0% vs. 94.4% in XRT and no-XRT, respectively, P = 0.88), distant metastasis-free survival (P = 0.36), or 5-year cancer-specific survival (97.1% in XRT and 98.6 in no-XRT). Radiation therapy given after lumpectomy reduces the frequency of ipsilateral breast recurrences even in women with small breast cancer with several favourable clinical and biological features. However, the breast preservation rate may not increase due to more frequent use of salvage mastectomies in patients treated with postoperative radiotherapy.
Meshfree approximation methods for free-form surface representation in optical design with applications to head-worn displays (2008)

In this paper, we summarize our initial experiences in designing head-worn displays with free-form optical surfaces. Typical optical surfaces implemented in raytrace codes today are functions mapping two dimensional vectors to real numbers. The majority of optical designs to date have relied on conic sections and polynomials as the functions of choice. The choice of conic sections is justified since conic sections are stigmatic surfaces under certain imaging geometries. The choice of polynomials from the point of view of surface description can be challenged. The advantage of using polynomials is that the wavefront aberration function is typically expanded in polynomials. Therefore, a polynomial surface description may link a designer's understanding of wavefront aberrations and the surface description. The limitations of using multivariate polynomials are described by a theorem due to Mairhuber and Curtis from approximation theory. In our recent work, we proposed and applied radial basis functions to represent optical surfaces as an alternative to multivariate polynomials. We compare the polynomial descriptions to radial basis functions using the MTF criteria. The benefits of using radial basis functions for surface description are summarized in the context of specific magnifier systems, i.e., head-worn displays. They include, for example, the performance increase measured by the MTF, or the ability to increase the field of view or pupil size. Full-field displays are used for node placement within the field of view for the dual-element head-worn display.
Third harmonic generation in self-focused filaments in liquids (2007)

Intense filaments of third harmonic generation have been observed in a variety of liquids when pumped by 1300 nm wavelength femtosecond light. The onset of third harmonic generation coincides with the threshold for self-focusing as deduced from n(2) measurements performed on the liquids using the z-scan technique. We have found self-phase modulation above the threshold leading to continuum generation at about 3 times threshold. In the third-harmonic regime, the third harmonic output power is independent of the input power. Our observations are consistent with those for similar processes in gases as described by a phase-locking model. The measured conversion efficiency was approximately 10(6).
Principles for Adoptive T Cell Therapy of Human Viral Diseases (1995)

The development of successful adoptive immunotherapy for human virus infections is predicated on an understanding of the effector cells and mechanisms essential for providing the host with a protective response to acute infection and the requirements for long-term in vivo survival of transferred cells that will be necessary to provide memory responses to persistent and latent viral infections. In this review, we discuss the results of recent studies examining the effector mechanisms mediated by virus-specific alpha beta + T cells and the strategies viruses have evolved to evade recognition by such T cells and/or to interfere with the expression of T cell effector functions. The evasion strategies employed by individual viruses can render T cell subsets or T cells of particular specificities less effective in eliminating virally infected cells, and consequently they are less desirable choices for use in adoptive therapy. Insights derived from described studies of the pathogenesis and immunobiology of virus infections have resulted in the development of clinical adoptive immunotherapy studies for infections with CMV, EBV, and HIV. Although the results from such studies are preliminary, the principle that virus-specific T cells can be successfully transferred and can mediate therapeutic efficacy in humans has already been affirmed. The use of recently developed methods, such as retroviral-mediated gene transfer, to genetically modify antigen-specific T cell clones provides a novel approach to overcome limitations and improve on the safety and efficacy observed in these initial studies, suggesting that more widespread use of adoptive transfer of specific T cells as a therapeutic regimen should be feasible in the near future.
Uni-Detect (2019)

Data errors are ubiquitous in tables. Extensive research in this area has resulted in a rich variety of techniques, each often targeting a specific type of errors, e.g., numeric outliers, constraint violations, etc. While these diverse techniques clearly improve data quality, it places a significant burden on humans to configure these techniques with suitable rules and parameters for each data set. For example, an expert is expected to define suitable functional-dependencies between column pairs, or tune appropriate thresholds for outlier-detection algorithms, all of which are specific to one individual data set. As a result, users today often hire experts to cleanse only their high-value data sets. We propose \sj, a unified framework to automatically detect diverse types of errors. Our approach employs a novel "what-if'' analysis that performs local data perturbations to reason about data abnormality, leveraging classical hypothesis-tests on a large corpus of tables. We test \sj on a wide variety of tables including Wikipedia tables, and make surprising discoveries of thousands of FD violations, numeric outliers, spelling mistakes, etc., with better accuracy than existing algorithms specifically designed for each type of errors. For example, for spelling mistakes, \sj outperforms the state-of-the-art spell-checker from a commercial search engine.
Heat-shock protein-based anticancer immunotherapy: an idea whose time has come. (1998)

The heat-shock proteins (HSPs) belong to a family of ubiquitous and abundant proteins used successfully in prophylactic and therapeutic vaccination against tumors. The HSPs are natural chaperones of peptides that reflect the immunologic composition of the cell. Immunization with tumor-derived HSP-peptide complexes (HSP-PC) induces a potent antigen-specific immune response against both the primary tumor and preestablished metastases; the response is restricted to the tumor from which the HSPs are purified. This article describes the manufacturing process of an individual HSP vaccine, and discusses the rationale, feasibility, advantages, and safety of this new approach of cancer immunotherapy in the context of various animal models and of the first HSP clinical trial.
Use of Spherical Receiver Coils in MR Imaging of the Brain (1985)

Spherical receiver coils suitable for magnetic resonance (MR) imaging of the brain are described. Spherical geometry permits high field uniformity with close proximity of the coil to the patient's head giving a good filling factor. Patient acceptability has been good in more than 800 examinations of the brain. Spherical receiver coils of appropriate size can provide a simple and worthwhile improvement over conventional saddle designs for low field MR imaging.
Early clinical experience with integrelin, an inhibitor of the platelet glycoprotein IIb/IIIa integrin receptor (1995)

Aggregation of platelets leading to thrombosis is one of the hallmarks of unstable angina, acute myocardial infarction, and ischaemic complications following coronary angioplasty. Activated platelets bind to fibrinogen through the glycoprotein IIb/IIIa integrin receptor. New agents have been developed to bind this receptor and thus prevent aggregation of platelets. One such compound (integrelin) is a cyclical peptide that has been shown to be a potent inhibitor of the glycoprotein IIb/IIIa receptor in man. A number of phase I and phase II clinical trials have been completed to evaluate this agent for the indications of unstable angina, acute myocardial infarction, as well as an adjunct to coronary angioplasty. This article will focus on the clinical investigation of integrelin with particular emphasis on its use during angioplasty. It has been consistently shown across different trials that integrelin can inhibit between 70% and 95% of platelet aggregation responses to 20 mumols of ADP at a variety of dosages used in the phase II trials. Preliminaray data also suggest that a more clinically unstable patient may require a higher dose of integrelin to cause a near complete inhibition of the platelet aggregation response to ADP. Future studies will need to explore more definitely the relationship between dose of glycoprotein IIb/IIIa receptor blockers and clinical instability.
Escherichia coli engineered to synthesize isopentenyl diphosphate and dimethylallyl diphosphate from mevalonate: a novel system for the genetic analysis of the 2-C-methyl-d-erythritol 4-phosphate pathway for isoprenoid biosynthesis (2000)

Isopentenyl diphosphate (IPP) and its isomer dimethylallyl diphosphate (DMAPP) constitute the basic building block of isoprenoids, a family of compounds that is extraordinarily diverse in structure and function. IPP and DMAPP can be synthesized by two independent pathways: the mevalonate pathway and the recently discovered 2-C-methyl-d-erythritol 4-phosphate (MEP) pathway. Although the MEP pathway is essential in most eubacteria, algae and plants and has enormous biotechnological interest, only some of its steps have been determined. We devised a system suitable for the genetic analysis of the MEP pathway in Escherichia coli. A synthetic operon coding for yeast 5-diphosphomevalonate decarboxylase, human 5-phosphomevalonate kinase, yeast mevalonate kinase and E. coli isopentenyl diphosphate isomerase was incorporated in the chromosome of this bacterium. The expression of this operon allowed the synthesis of IPP and DMAPP from mevalonate added exogenously and complementation of lethal mutants of the MEP pathway. We used this system to show that the ygbP, ychB and ygbB genes are essential in E. coli and that the steps catalysed by the products of these genes belong to the trunk line of the MEP pathway.
Two Anonymous DNA Segments Distinguish the Wilms' Tumor and Aniridia Loci (1988)

The association of Wilms' tumor with aniridia (the WAGR complex) in children with 11p13 chromosomal abnormalities has been established, but the paucity of molecular probes in 11p13 has hampered identification of the responsible genes. Two new anonymous DNA segments have been identified that map to the WAGR region of 11p13. Both DNA probes identify a cytologically undetectable deletion associated with a balanced chromosome translocation inherited by a patient with familial aniridia, but not Wilms' tumor. The same two DNA segments are also included in the distal p13-p14.1 deletion of another patient, who has aniridia, Wilms' tumor, and hypogonadism, but they are not included in the p12-p13 deletion of a third patient, who does not have aniridia but has had a Wilms' tumor. The discovery of this aniridia deletion and these two DNA segments that physically separate the Wilms' tumor and aniridia loci should facilitate identification of the genes in the WAGR locus, beginning with the aniridia gene.
Thiazolidinediones Increase Plasma-Adipose Tissue FFA Exchange Capacity and Enhance Insulin-Mediated Control of Systemic FFA Availability (2001)

We studied the effects of thiazolidinedione treatment (rosiglitazone 1 or 10 micromol.kg(-1).day(-1) or darglitazone 1.3 micromol.kg(-1).day(-1) for 3 weeks) on lipid metabolism in obese Zucker rats. In the basal 7-h fasted state, rosiglitazone (10 micromol.kg(-1).day(-1)) and darglitazone corrected the hypertriglyceridemia by increasing plasma triglyceride (TG) clearance and decreasing hepatic TG production, as assessed using Triton WR 1339. Free fatty acid (FFA) metabolism was assessed using 3H-palmitate tracer by estimating rates of plasma FFA appearance (Ra), whole-body FFA oxidation (Rox), and tissue-specific nonoxidative FFA disposal (Rfs). Basal Ra, plasma FFA levels, and clearance were increased by both thiazolidinediones. Detailed studies were conducted with darglitazone, which under basal conditions increased Ra (+114%), Rox (+51%), and Rfs in adipose tissues. During euglycemic clamps performed at insulin levels corresponding to those observed postprandially, darglitazone increased the glucose infusion rate from 4.7 to 13.3 mg.min(-1) and, in contrast to the basal state, it decreased Ra (-67%), Rox (-84%), and Rfs in adipose tissue, muscle, and liver. We concluded that thiazolidinediones 1) ameliorate hypertriglyceridemia by lowered hepatic TG production and augmented TG clearance (two separate kinetic effects), 2) enhance insulin-mediated suppression of systemic FFA mobilization while increasing the capacity to mobilize FFA during fasting, 3) increase FFA trafficking into adipose tissue by increasing the ability of adipose tissue to take up and store FFA, and 4) enhance metabolic flexibility by improving glucoregulation under hyperinsulinemic conditions (possibly involving reduced skeletal muscle and liver exposure to fatty acids) and augmenting the capacity to utilize FFAs during fasting.
All-Trans Retinoic Acid Delays the Differentiation of Primitive Hematopoietic Precursors (lin−c-kit+Sca-1+) While Enhancing the Terminal Maturation of Committed Granulocyte/Monocyte Progenitors (1999)

All-trans retinoic acid (ATRA) is a potent inducer of terminal differentiation of malignant promyelocytes, but its effects on more primitive hematopoietic progenitors and stem cells are less clear. In this study, we investigated the effect of ATRA on highly enriched murine hematopoietic precursor cells (lin-c-kit+Sca-1(+)) grown in liquid suspension culture for 28 days. ATRA initially slowed the growth of these hematopoietic precursors but prolonged and markedly enhanced their colony-forming cell production compared with the hematopoietic precursors cultured in its absence. At 7 and 14 days of culture, a substantially greater percentage of cells cultured with ATRA did not express lineage-associated antigens (55.4% at day 7 and 68.6% at day 14) and retained expression of Sca-1 (44.7% at day 7 and 79.9% at day 14) compared with cells grown in its absence (lin- cells: 31.5% at day 7 and 4% at day 14; Sca-1(+): 10.4% at day 7 and 0.7% at day 14). Moreover, a marked inhibition of granulocyte production was observed in cultures continuously incubated with ATRA. Significantly, ATRA markedly prolonged and enhanced the production of transplantable colony-forming unit-spleen (CFU-S) during 14 days of liquid suspension culture. In contrast with its effects on primitive lin-c-kit+Sca-1(+) hematopoietic precursors, ATRA did not exert the same effects on the more committed lin-c-kit+Sca-1(-) progenitor cells. Moreover, the late addition of ATRA (7 days post-culture initiation) to cultures of primitive hematopoietic precursors resulted in a marked decrease in colony-forming cell production in these cultures, which was associated with enhanced granulocyte differentiation. These observations indicate that ATRA has different effects on hematopoietic cells depending on their maturational state, preventing and/or delaying the differentiation of primitive hematopoietic precursors while enhancing the terminal differentiation of committed granulocyte/monocyte progenitors.
Time resolved reflectance and transmittance for the noninvasive measurement of tissue optical properties (1989)

When a picosecond light pulse is incident on biological tissue, the temporal characteristics of the light backscattered from, or transmitted through, the sample carry information about the optical absorption and scattering coefficients of the tissue. We develop a simple model, based on the diffusion approximation to radiative transfer theory, which yields analytic expressions for the pulse shape in terms of the interaction coefficients of a homogeneous slab. The model predictions are in good agreement with the results of preliminary in vivo experiments and Monte Carlo simulations.
Phage TP901-1 Site-Specific Integrase Functions in Human Cells (2002)

We demonstrate that the site-specific integrase encoded by phage TP901-1 of Lactococcus lactis subsp. cremoris has potential as a tool for engineering mammalian genomes. We constructed vectors that express this integrase in Escherichia coli and in mammalian cells and developed a simple plasmid assay to measure the frequency of intramolecular integration mediated by the integrase. We used the assay to document that the integrase functions efficiently in E. coli and determined that for complete reaction in E. coli, the minimal sizes of attB and attP are 31 and 50 bp, respectively. We carried out partial purification of TP901-1 integrase protein and demonstrated its functional activity in vitro in the absence of added cofactors, characterizing the time course and temperature optimum of the reaction. Finally, we showed that when expressed in human cells, the TP901-1 integrase carries out efficient intramolecular integration on a transfected plasmid substrate in the human cell environment. The TP901-1 phage integrase thus represents a new reagent for manipulating DNA in living mammalian cells.
CMOS Active Pixel Sensor (APS) Technology for Multimedia Image Capture (1997)

CMOS active pixel sensor (APS) technology has been developed as a potential replacement for charge-coupled devices (CCDs) for solid-state imaging. The CMOS APS has several advantages over CCDs for camera systems including much lower camera power, smaller camera size, lower camera cost, and on-chip functionality. This paper describes the CMOS APS technology.
Critical area extraction for soft fault estimation (1998)

Algorithms are presented for extracting the critical area associated with extra and missing material soft faults of an integrated circuit from the mask layout. These algorithms have been implemented within the Edinburgh Yield Estimator (EYE) tool which permits efficient extraction of the critical area from an arbitrary mask layout. Accurate estimates of device critical area of even the largest devices can be obtained in a reasonable time using the sampling version of the tool. The application of these algorithms to defect related reliability is explored and results reported that compare the susceptibility to soft faults before and after layout modifications intended to enhance manufacturing yield. These results suggest that yield enhancement techniques can have a significant impact on defect-related device reliability.