gebhart/patrepeval huggingface dataset:
Human Umbilical Cord Blood Progenitor Cells are Attracted to Infarcted Myocardium and Significantly Reduce Myocardial Infarction Size (2006)

We are investigating the effects of human umbilical cord blood mononuclear progenitor cells (HUCBC) for the treatment of acute myocardial infarction because human cord blood is a readily available and an abundant source of primitive cells that may be beneficial in myocardial repair. However, there is currently no scientific consensus on precisely when to inject stem/progenitor cells for the optimal treatment of acute myocardial infarction. We used an in vitro assay to determine the attraction of infarcted rat myocardium at 1, 2, 2.5, 3, 6, 12, 24, 48, and 96 h after left anterior descending coronary artery (LAD) occlusion from 45 rats for HUCBC in order to determine the optimal time to transplant HUCBC after myocardial infarction. Our assay is based on the migration of fluorescent DAPI-labeled HUCBC from wells in an upper chamber of a modified Boyden apparatus through a semiporous polycarbonate membrane into wells in a lower chamber that contain either normal or infarcted myocardium. DAPI-labeled HUCBC (100,000) were placed in each of the separate wells above the membrane that corresponded to normal or infarct homogenate in the lower wells. The greatest HUCBC migration to infarcted myocardium occurred at 2 h and 24 h after LAD occlusion in comparison with normal controls. A total of 76,331 +/- 3384 HUCBC migrated to infarcted myocardium at 2 h and 69,911 +/- 2732 at 24 h after LAD occlusion (both p < 0.001) and significantly exceeded HUCBC migration to normal heart homogenate. The HUCBC migration remained greatest at 2 and 24 h after LAD occlusion when the number of migrated cells was adjusted for the size of each myocardial infarction. Injection of 106 HUCBC in saline into infarcted myocardium of non immunosuppressed rats within 2 h (n=10) or at 24 h (n=5) after LAD occlusion resulted in infarction sizes 1 month later of 6.4 +/- 0.01% and 8.4 +/- 0.02% of the total left ventricular muscle area, respectively, in comparison with infarction sizes of 24.5 +/- 0.02% (n=10) in infarcted rat hearts treated with only saline (p < 0.005). Acute myocardial infarction in rats treated with only saline increased the myocardial concentration of tumor necrosis factor-alpha (TNF-alpha) from 6.9 +/- 0.8% to 51.3 +/- 4.6%, monocyte/macrophage chemoattractant protein (MCP-1) from 10.5 +/- 1.1% to 39.2 +/- 2.0%, monocyte inflammatory protein (MIP) from 10.6 +/- 1.6% to 23.1 +/- 1.5%, and interferon-gamma (INF-gamma) from 8.9 +/- 0.3% to 25.0 +/- 1.7% between 2 and 12 h after coronary occlusion in comparison with known controls (all p < 0.001). In contrast, the myocardial concentrations of these cytokines in rat hearts treated with HUCBC did not significantly change from the controls at 2, 6, 12, and 24 h after coronary occlusion. The present investigations suggest that infarcted myocardium significantly attracts HUCBC, that HUCBC can substantially reduce myocardial infarction size, and that HUCBC can limit the expression of TNF-alpha, MCP-1, MIP, and INF-gamma in acutely infarcted myocardium.
Motion-Tolerant Remote Respiration Monitoring with a Multi-Camera Configuration (2020)

We demonstrate a method of motion-tolerant respiratory rate monitoring using a multicamera system. These cameras utilize depth sensing and are mounted around the subject. Results show successful isolation of the respiratory waveform from gross body motion and accurate estimation of respiratory rate.
IMP and AMP deaminase in reperfusion injury down-regulates neutrophil recruitment (2000)

We examined gene regulation in murine lungs after hind-limb vessel occlusion and reperfusion. A rapid increase of transcript for the AMP deaminase 3 gene (AMPD3) and its enzymatic activity (EC) generating inosine monophosphate (IMP) were identified with transcripts located in bronchial and alveolar epithelium. AMP deaminase inhibitor decreased IMP levels and significantly enhanced neutrophil recruitment within lung tissue during reperfusion. In addition, IMP inhibited cytokine-initiated neutrophil infiltration in vivo and selectively attenuated neutrophil rolling by 90% in microvessels. We prepared labeled IMP and demonstrated that IMP specifically binds to neutrophils. IMP also stimulated binding of gamma-[(35)S]thio-GTP, suggesting that IMP is a potent regulator of neutrophils. Taken together, these results elucidate a previously unrecognized mechanism that protects tissues from the potentially deleterious consequences of aberrant neutrophil accumulation. Moreover, they are relevant for new therapeutic approaches to regulate neutrophil responses in inflammation and vascular disease.
Practical Cell Culture Techniques (1992)

Most cells will survive removal from the natural mic- environment of their in vivo tissue and placement into a sterile culture dish under optimal conditions. Not only do they survive, but they also multiply and express differen- ated properties in such a culture dish. A few cells do this in suspension, but most will need some kind of mechanical support substituting for their natural connections with other cells. The surface of a culture dish that might have to be coated is usually sufficient. The recent trend to standa- ization of conditions and the existence of commercial ent- prises with adequate funds and specializing in the needs of scientists were responsible for the tremendous proliferation of cell culture techniques in all fields of research in the last 20 years. No longer does a scientist have to concentrate all his/her efforts on that technology; the new trends make it feasible to employ cell culture techniques as only one of the many methods available in a small corner of a larger research laboratory. Some areas of research depend more heavily than others on cell culture techniques. Neuroscience is one of the areas that has developed hand in hand with the prol- eration of cell culture methodology. Molecular biological aspects, cell differentiation and development, neurophy- ological and neurochemical studies, as well as investigations into the nature of various diseases are now to a large extent dependent on the use of cell cultures
Exosomes as a Tumor Vaccine: Enhancing Potency Through Direct Loading of Antigenic Peptides (2003)

Exosomes secreted by dendritic cells (DCs) contain MHC-I, MHC-II, and other accessory molecules required for antigen presentation to T cells. Previous studies have shown that exosome MHC-I "indirectly" loaded by adding peptides to DC cultures are immunogenic. However, analysis of peptide binding was not performed to link T-cell-stimulating activity with the amount of MHC-I/peptide complexes on the exosomes. In this study, we measured peptide binding to MHC-I under different loading conditions and tested the exosomes' potencies in T-cell activation assays. We demonstrate that MHC-I on purified exosomes can be directly loaded with peptide at much greater levels than indirect loading. The direct loading method performed in mildly acidic conditions was effective even in the absence of exogenous beta2m. This increase in peptide binding greatly enhanced exosome potency, allowing us to further study the biologic activity of exosomes in vitro. In the presence of antigen-presenting cells (APC), exosomes directly loaded with the HLA-A2 restricted MART1 tumor peptide stimulated an HLA-A2/MART1 specific T-cell line. The T cells responded to exosomes using HLA-A2neg APC, demonstrating transfer of functional MHC-I/peptide complexes and not peptide alone to APC. MHC-II molecules, which are abundantly expressed on DC exosomes, were also functionally loaded under the same conditions as MHC-I. This feature allows for delivery of multiple peptide antigens that can stimulate both CD8+ cytotoxic T cells as well CD4+ T helper cells critical for an effective antitumor response. The optimized loading conditions and the ability to transfer both MHC-I and MHC-II antigens to APC have led to the development of exosomes as an "acellular" immunotherapy approach currently being tested in clinical trials.
Logical Effort: Designing Fast CMOS Circuits (1999)

1 The Method of Logical Effort 2 Design Examples 3 Deriving the Method of Logical Effort 4 Calculating the Logical Effort of Gates 5 Calibrating the Model 6 Asymmetric Logic Gates 7 Unequal Rising and Falling Delays 8 Circuit Families 9 Forks of Amplifiers 10 Branches and Interconnect 11 Wide Structures 12 Conclusions A Cast of Characters B Reference process parameters C Logical Effort Tools D Solutions
On the relative stability of cobalt‐ and nickel‐based amidinate complexes against β‐migration (2008)

Abstract We present a first‐principles study on the relative stability of cobalt‐ and nickel‐based amidinate complexes against β‐migration using density functional theory. Factors that influence the reactivity of these compounds were carefully addressed and the calculated molecular structures are in excellent agreement with the available crystal structural data. Reaction energies as well as activation barriers of β‐migration were evaluated. The predicted relative stability of the selected compounds is consistent with experimental observations. © 2008 Wiley Periodicals, Inc. Int J Quantum Chem, 2009
Multi-chromatic control of mammalian gene expression and signaling (2013)

The emergence and future of mammalian synthetic biology depends on technologies for orchestrating and custom tailoring complementary gene expression and signaling processes in a predictable manner. Here, we demonstrate for the first time multi-chromatic expression control in mammalian cells by differentially inducing up to three genes in a single cell culture in response to light of different wavelengths. To this end, we developed an ultraviolet B (UVB)-inducible expression system by designing a UVB-responsive split transcription factor based on the Arabidopsis thaliana UVB receptor UVR8 and the WD40 domain of COP1. The system allowed high (up to 800-fold) UVB-induced gene expression in human, monkey, hamster and mouse cells. Based on a quantitative model, we determined critical system parameters. By combining this UVB-responsive system with blue and red light-inducible gene control technology, we demonstrate multi-chromatic multi-gene control by differentially expressing three genes in a single cell culture in mammalian cells, and we apply this system for the multi-chromatic control of angiogenic signaling processes. This portfolio of optogenetic tools enables the design and implementation of synthetic biological networks showing unmatched spatiotemporal precision for future research and biomedical applications.
Fuzzy rule-based processes scheduling for FPGA-based system (2004)

FPGA has gained popularity in modern space computing in recent years. Its reconfigurability provides the versatility yet redundancy typically desired in space operations. One of the important keys to the success of an FPGA based system in space applications is the real-time task/process scheduling. In such an environment, processes that miss their respective deadlines are to be avoided or minimized. A fuzzy rule-based approach is proposed to deal with the scheduling problem for an FPGA based system. It is derived from our original work on process scheduling for non-reconfigurable processors with additional sub-modules to assist process selection and preemption decision.
Implementation of a 4/sup th/-generation 1.8GHz dual-core sparc V9 microprocessor (2005)

This fourth-generation processor combines two enhanced third-generation cores using an advanced 90nm dual-V/sub t/ dual-gate-oxide technology. Hardware additions feature expanded caches and inclusion of a 2 MB level 2 cache and a level 3 tag. The chip operates at 1.8GHz while dissipating <100W at 1.1V.
Total protection from hypoxic liver damage by fructose. (1987)

The purpose of these experiments was to evaluate the effect of carbohydrates on hypoxic cell death in the perfused rat liver. Lactate dehydrogenase (LDH) was released maximally at rates up to 300 U/g/h after 40 to 60 min of hypoxia in control livers from fasted rats or in livers perfused with glucose (20 mM). Fructose (20 mM) prevented the release of LDH completely. Rates of anaerobic glycolysis indexed by release of lactate were around 150 mumol/g/h in livers perfused with fructose but were undetectable in livers perfused with glucose. The results demonstrate that fructose prevents hypoxic damage in the liver presumably by providing glycolytic ATP in the absence of oxygen.
[Cytogenetic disorders iin patients with chronic hepatitis B and C]. (2000)

The chromosomal apparatus of peripheral blood lymphocytes was studied in 19 patients with chronic hepatitis B (CHB) and 17 patients with chronic hepatitis C (CHC). Significant changes in cytogenetic indices were revealed in the both groups. Incidence of aberrant cells in CHC exceeded significantly that in CHB (15.3 +/- 1.5% vs 11.1 +/- 0.9% respectively; P < 0.05). Frequencies of aberration per cell and chromatid fragments were also significantly higher in CHC compared with both CHB and practically normal donor groups.
Identification of Major Volatile Odor Compounds in Frankfurters (1999)

More than 100 volatile compounds have been identified in the headspace of frankfurter sausages. Most abundant were the terpene hydrocarbons, monoterpene alcohols, phenyl propanoids, and phenols. Separate analyses of solutions of spices and smoke demonstrated that most of the terpenes were derived from the spices, whereas the phenols originated mostly from the smoke ingredients. Many of the compounds contributing to the overall odor of the frankfurters have been identified. Some odors, characteristic of the smokiness and spiciness of frankfurters, were caused by phenols and terpenes, whereas others were due to compounds derived from the meat fraction; these compounds included aldehydes, ketones, furanthiols, and alicyclic sulfur compounds. Keywords: Flavor; odor; volatile; odor compound; frankfurter
Long-term outcomes of renal transplantation: a result of the original endowment of the donor kidney and the inflammatory response to both alloantigens and injury (2000)

Recent data suggest that long-term allograft survival might be affected by two factors. The first is the endowment of the allograft, which consists of two elements: the nephron mass and the ability of these nephrons to repair injuries sustained during the transplant process. The second factor is renal inflammation. Although inflammation is traditionally ascribed to alloreactivity, recent data have shown that there is also a renal inflammatory response to early injury after transplantation, to brain death in the donor, and as part of the maladaptive response to nephron loss. These two factors contribute to the detrimental effects of delayed graft function or acute rejection on the long-term survival seen in most studies, and the beneficial effects of anti-inflammatory agents on the maladaptive response to nephron loss.
High incidence of Alloiococcus otitis in otitis media with effusion (1999)

The findings suggest a bacterial etiology for OME. Association of A. otitis with the three other species implies that this organism might have the capability of augmenting bacterial colonization in the middle ear.
Zinc phthalocyanine activated by conventional indoor light makes a highly efficient antimicrobial material from regular cellulose (2019)

A phthalocyanine-cellulose material quickly inactivates drug-resistant microbes under indoor light.
Superconducting magnetometer system for detecting lung contaminants (1987)

We describe a superconducting magnetometer system for the detection and measurement of ferrimagnetic contaminants or tracer materials in the lungs. This technique, known as magnetopneumography (MPG), offers a non-invasive, passive means to investigate lung clearance mechanisms using inhaled biologically inert magnetic tracers or to measure some potentially toxic air-borne particulates due to environmental or occupational sources. The MPG system consists of two principal components, a SQUID magnetometer and a superconducting magnet, each with its own liquid helium dewar. The response of the system is a function of both the magnetizing field and the field sensitivity of the SQUID detection coils. The SQUID magnetometer has a sensitivity of less than 700 fT (1 fT = 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-15</sup> Tesla). The equivalent system noise in terms of particulate contaminants is less than one microgram of total ferrimagnetic particulates dispersed uniformly throughout in the lungs. The MPG system described has an order of magnitude better sensitivity than any previously constructed system, and has the ability to detect relaxation phenomena with time constants as short as 10 seconds. This is expected to assist in the understanding of lung clearance mechanisms.
Phosphomannosyl-derivatized beads detect a receptor involved in lymphocyte homing. (1987)

Recirculating lymphocytes initiate extravasation from the blood stream by binding to specialized high endothelial venules (HEV) within peripheral lymph nodes (PN) and other secondary lymphoid organs. We have previously reported that lymphocyte attachment to PN HEV is selectively inhibited by mannose-6-phosphate (M6P) and related carbohydrates (Stoolman, L. M., T. S. Tenforde, and S. D. Rosen, 1984, J. Cell Biol., 99:1535-1540). In the present study, we employ a novel cell-surface probe consisting of fluorescent beads derivatized with PPME, a M6P-rich polysaccharide. PPME beads directly identify a carbohydrate-binding receptor on the surface of mouse lymphocytes. In every way examined, lymphocyte attachment to PPME beads (measured by flow cytofluorometry) mimics the interaction of lymphocytes with PN HEV (measured in the Stamper-Woodruff in vitro assay): both interactions are selectively inhibited by the same panel of structurally related carbohydrates, are calcium-dependent, and are sensitive to mild treatment of the lymphocytes with trypsin. In addition, thymocytes and a thymic lymphoma, S49, bind poorly to PPME beads in correspondence to their weak ability to bind to HEV. When the S49 cell line was subjected to a selection procedure with PPME beads, the ability of the cells to bind PPME beads, as well as their ability to bind to PN HEV, increased six- to eightfold. We conclude that a carbohydrate-binding receptor on mouse lymphocytes, detected by PPME beads, is involved in lymphocyte attachment to PN HEV.
On the impact of real-time feedback on users' behaviour in mobile location-sharing applications (2010)

Effective privacy management requires that mobile systems" users be able to make informed privacy decisions as their experience and knowledge of a system progresses.Prior work has shown that making such privacy decisions is a difficult task for users because systems do not provide support for awareness, visibility and accountability when sharing privacy-sensitive information.This paper reports results of our investigation into the efficacy of realtime feedback as a mechanism for incorporating these features of social translucence in location-sharing applications, in order to help users make better privacy decisions.We explored the role of real-time feedback in the context of Buddy Tracker, a mobile location-sharing application.Our work focuses on ways in which real-time feedback affects people"s behaviour in order to identify the main criteria for acceptance of this technology.Based on the data from a three week field trial of Buddy Tracker, a focus group session, and interviews, we found that when using a system that provided real-time feedback, people were more accountable for their actions and reduced the number of unreasonable location requests.We have used the results of our study to propose highlevel design criteria for incorporating real-time feedback into information sharing applications in a manner that ensures social acceptance of the technology.
Anaesthesia for Adults with Cystic Fibrosis (1995)

Cystic fibrosis is an autosomal recessive disorder which affects one in 2500 live births. It is a multisystem disease and has a variety of presentations. The major clinical features affect the gastrointestinal and respiratory tracts. Severe respiratory disease, diabetes and gastroesophageal reflux are common features of concern to anaesthetists. Improved care of young patients has allowed many to survive into adulthood. Lung transplantation has significantly improved the outlook for many patients. At Alfred Hospital, 74 patients with cystic fibrosis underwent 149 procedures from January 1978 to January 1994, with a mortality of 0.6% (95% CI 0.4%-0.8%). This retrospective cohort study describes the anaesthetic management and perioperative care of these patients. Most of the anaesthetics were for procedures related to cystic fibrosis but 12% were for unrelated conditions. Cystic fibrosis related procedures include diagnostic, venous access, enteral feeding procedures, treatment of complications of cystic fibrosis and lung transplantation. Despite extremely poor respiratory function, these patients can be managed with acceptably low postoperative mortality (1%). Pre- and postoperative care must be directed towards optimal clearance of viscous respiratory secretions. Procedures need to be planned so that optimal care can be given by each member of the team caring for cystic fibrosis patients.
Efficacy of the De Novo-Derived Antimicrobial Peptide WLBU2 against Oral Bacteria (2007)

The efficacy of a novel synthetic antimicrobial peptide (WLBU2) was evaluated against three oral microorganisms (grown planktonically): Streptococcus gordonii, Fusobacterium nucleatum, and Porphyromonas gingivalis. WLBU2 killed all three species, with F. nucleatum being the most susceptible. WLBU2 also reduced the bacterial burden of S. gordonii and F. nucleatum biofilms.
Improvement of Xylose Uptake and Ethanol Production in Recombinant <i>Saccharomyces cerevisiae</i> through an Inverse Metabolic Engineering Approach (2005)

We used an inverse metabolic engineering approach to identify gene targets for improved xylose assimilation in recombinant Saccharomyces cerevisiae. Specifically, we created a genomic fragment library from Pichia stipitis and introduced it into recombinant S. cerevisiae expressing XYL1 and XYL2. Through serial subculturing enrichment of the transformant library, 16 transformants were identified and confirmed to have a higher growth rate on xylose. Sequencing of the 16 plasmids isolated from these transformants revealed that the majority of the inserts (10 of 16) contained the XYL3 gene, thus confirming the previous finding that XYL3 is the consensus target for increasing xylose assimilation. Following a sequential search for gene targets, we repeated the complementation enrichment process in a XYL1 XYL2 XYL3 background and identified 15 fast-growing transformants, all of which harbored the same plasmid. This plasmid contained an open reading frame (ORF) designated PsTAL1 based on a high level of homology with S. cerevisiae TAL1. To further investigate whether the newly identified PsTAL1 ORF is responsible for the enhanced-growth phenotype, we constructed an expression cassette containing the PsTAL1 ORF under the control of a constitutive promoter and transformed it into an S. cerevisiae recombinant expressing XYL1, XYL2, and XYL3. The resulting recombinant strain exhibited a 100% increase in the growth rate and a 70% increase in ethanol production (0.033 versus 0.019 g ethanol/g cells . h) on xylose compared to the parental strain. Interestingly, overexpression of PsTAL1 did not cause growth inhibition when cells were grown on glucose, unlike overexpression of the ScTAL1 gene. These results suggest that PsTAL1 is a better gene target for engineering of the pentose phosphate pathway in recombinant S. cerevisiae.