gebhart/patrepeval huggingface dataset:
Novel singlemolecule precursor routes for the direct synthesis of InS and InSe quantum dots (1999)

Nanoparticles of InS and InSe capped with TOPO (tri-n-octylphosphine oxide) or nanoparticles of InSe capped with 4-ethylpyridine, which are close to mono-dispersed, have been prepared by a single-source route using tris(diethyldithiocarbamato)indium(III) or tris(diethyldiselenocarbamato)indium(III), respectively. The nanoparticles of InS and InSe both show quantum size effects in their optical spectra and the photoluminescence (PL) spectra show broad emissions due to the surface traps. Substantial blue shifts in the onset of absorption have been observed; 0.44 eV for InS and 1.60 eV for InSe. The X-ray diffraction (XRD) pattern of InS showed co-precipitation with TOPO and the crystalline particles turned powdery when studied by transmission electron microscopy (TEM). Selected area electron diffraction (SAED), X-ray diffraction (XRD) and transmission electron microscopy (TEM) studies of the InSe nanoparticles show the hexagonal phase in the size range 5.8–7.0 nm. The crystallinity of the InSe nanoparticles was also evident from high resolution transmission electron microscopy (HRTEM), which gave well defined images of nanosize particles with clear lattice fringes.
Development and Validation of a Fourfold Multiplexed Opsonization Assay (MOPA4) for Pneumococcal Antibodies (2006)

Opsonophagocytic killing assays (OPAs) are essential for developing and improving pneumococcal vaccines. There is a need for a high-throughput, reliable, standardized, and fully characterized OPA for pneumococcal antibodies. To meet the need, we have developed and characterized a fourfold multiplexed OPA (MOPA4) against 13 serotypes (1, 3, 4, 5, 6A, 6B, 7F, 9V, 14, 18C, 19A, 19F, and 23F) of pneumococci. Thirteen target bacteria were made resistant to only one of the following antibiotics: optochin, streptomycin, spectinomycin, and trimethoprim. Following optimization of assay conditions, accuracy of MOPA4 was determined by testing 30 sera from old adults in the MOPA4 and the single-serotype assays. The opsonization titers obtained with both assays agreed well (r(2) > 0.95). Although 22 (out of 390; approximately 6%) results differed more than twofold, the differences were not reproducible. The assay was specific: preabsorbing test sera with homologous polysaccharide (PS) completely abrogated opsonic activity, but a pool of unrelated PS (5 mug/ml of each) had no effect. Intra- and interassay coefficients of variation were 10 and 22%, respectively. MOPA4 results were unaffected by having different target pneumococcal serotypes in each assay group. Also, HL60 cell-to-bacteria ratios could be varied twofold without affecting the results. We conclude that MOPA4 is sensitive, accurate, specific, precise, and robust enough for large-scale clinical studies. Furthermore, MOPA4 should allow evaluation of multivalent pneumococcal vaccines with the limited volume of serum typically available from young children.
Metabolic Engineering of Corynebacterium glutamicum for Methanol Metabolism (2015)

Methanol is already an important carbon feedstock in the chemical industry, but it has found only limited application in biotechnological production processes. This can be mostly attributed to the inability of most microbial platform organisms to utilize methanol as a carbon and energy source. With the aim to turn methanol into a suitable feedstock for microbial production processes, we engineered the industrially important but nonmethylotrophic bacterium Corynebacterium glutamicum toward the utilization of methanol as an auxiliary carbon source in a sugar-based medium. Initial oxidation of methanol to formaldehyde was achieved by heterologous expression of a methanol dehydrogenase from Bacillus methanolicus, whereas assimilation of formaldehyde was realized by implementing the two key enzymes of the ribulose monophosphate pathway of Bacillus subtilis: 3-hexulose-6-phosphate synthase and 6-phospho-3-hexuloisomerase. The recombinant C. glutamicum strain showed an average methanol consumption rate of 1.7 ± 0.3 mM/h (mean ± standard deviation) in a glucose-methanol medium, and the culture grew to a higher cell density than in medium without methanol. In addition, [(13)C]methanol-labeling experiments revealed labeling fractions of 3 to 10% in the m + 1 mass isotopomers of various intracellular metabolites. In the background of a C. glutamicum Δald ΔadhE mutant being strongly impaired in its ability to oxidize formaldehyde to CO2, the m + 1 labeling of these intermediates was increased (8 to 25%), pointing toward higher formaldehyde assimilation capabilities of this strain. The engineered C. glutamicum strains represent a promising starting point for the development of sugar-based biotechnological production processes using methanol as an auxiliary substrate.
What is Stimulated Reservoir Volume (SRV)? (2008)

Abstract Ultra-low permeability shale reservoirs require a large fracture network to maximize well performance. Microseismic fracture mapping has shown that large fracture networks can be generated in many shale reservoirs. In conventional reservoirs and tight gas sands, single-plane fracture half-length and conductivity are the key drivers for stimulation performance. In shale reservoirs, where complex network structures in multiple planes are created, the concept of a single fracture half-length and conductivity are insufficient to describe stimulation performance. This is the reason for the concept of using stimulated reservoir volume as a correlation parameter for well performance. The size of the created fracture network can be approximated as the 3-D volume (Stimulated Reservoir Volume or SRV) of the microseismic event cloud. This paper briefly illustrates how the Stimulated Reservoir Volume (SRV) can be estimated from microseismic mapping data and is then related to total injected fluid volume and well performance. While the effectively producing network could be smaller by some proportion, it is assumed that created and effective network are directly related. However, SRV is not the only driver of well performance. Fracture spacing and conductivity within a given SRV are just as important and this paper illustrates how both SRV and fracture spacing for a given conductivity can affect production acceleration and ultimate recovery. The effect of fracture conductivity is discussed separately in a series of companion papers. Simulated production data is then compared with actual field results to demonstrate variability in well performance and how this concept can be used to improve completion design, and well spacing and placement strategies.
ITS DATA FUSION (1996)

This project has accomplished three significant tasks. First, a state-of-the-art literature review has provided an organizational framework for categorizing the various data fusion projects that have been conducted to date. A popular typology was discussed which situates data fusion technologies in one of three levels, depending on the degree to which sensor data is correlated to provide users with meaningful transit recommendations. The trade-offs that accompany higher-level data fusion efforts--in terms of computing power and memory requirements--were noted. The advantages of multiple-sensor data fusion projects in terms of cost, accuracy, and reliability were also discussed and contrasts were drawn with the traditional deployment of highly accurate, single sensors. Specific techniques of data fusion were described and their possible applications to Intelligent Transportation System (ITS) projects were explored. In fact, this report is one of the first to consider how data fusion technology might be productively applied to the needs of transportation management. A second major component of this report is the description provided of a local data fusion application. This project employs data fusion techniques to correlate input from multiple highway sensors and generate reliable traffic predictions. The resulting information can be displayed for use by commuters as they choose from among various transit options. The architecture of this data fusion system is described in detail. The third component of the project was to create a statistically based algorithm to estimate speed from volume and occupancy measurements. The algorithm presented explicitly accounts for the statistics of the problem and provides a robustness test for the speed estimate.
Selection with SELEX Method of Small RNA Molecules Specifically Binding to Starch. (1998)

A 73-base DNA library with T7 promoter was chemically synthesized according to the sequence specified by the 2.5S RNA component of glycogen branching holoenzyme (EC 2.4.1.18) from rabbit muscle, in which 20 consecutive bases corresponding to a stem-loop structure were completely randomized. The in vitro transcribed RNA library was subjected to 9 successive rounds of selection with SELEX method, resulting in a sharp increase of the percentage of the starch-binding RNA from less than 0.01% for the first round pool to 31% for the ninth-round pool. This demonstrates the existence of small RNA species that can specifically bind to starch. Structural and functional analysis of them is in progress.
Psychological Stress and Its Influence on Salivary Flow Rate, Total Protein Concentration and IgA, IgG and IgM Titers (2010)

Although the immunoglobulin titers were high, there was a reduction in the students' salivary flow rates and a consequent reduction in total protein concentrations.
The association of pregnancy with thrombotic thrombocytopenic purpura–hemolytic uremic syndrome (2003)

Thrombotic thrombocytopenic purpura-hemolytic uremic syndrome occurs more commonly in women and among women is commonly associated with pregnancy. Case series of thrombotic thrombocytopenic purpura-hemolytic uremic syndrome from 1964 to 2002 were reviewed (1) to document the reports of occurrence of thrombotic thrombocytopenic purpura-hemolytic uremic syndrome during pregnancy and (2) to search for reports of women with congenital or familial thrombotic thrombocytopenic purpura-hemolytic uremic syndrome who were initially diagnosed during their first pregnancy. The time during pregnancy with greatest risk for development of thrombotic thrombocytopenic purpura-hemolytic uremic syndrome is near term and during the postpartum period. This is also the time of greatest risk for thrombotic events and for the occurrence of other pregnancy-related syndromes: preeclampsia, eclampsia, and hemolysis, elevated liver enzymes, low platelets (HELLP) syndrome. These other syndromes may also be associated with thrombocytopenia, microangiopathic hemolytic anemia, neurologic symptoms, and renal insufficiency, making their distinction from thrombotic thrombocytopenic purpura-hemolytic uremic syndrome difficult or impossible. The occurrence of preeclampsia and related syndromes, the hypercoaguable state that occurs in late pregnancy and postpartum, and the progressively decreasing concentration of ADAMTS13 that occurs during late pregnancy may combine to increase the risk for occurrence of thrombotic thrombocytopenic purpura-hemolytic uremic syndrome.
Genotype–phenotype relationships in an investigation of the role of proteases in abdominal aortic aneurysm expansion (2005)

There was no evidence that any specific MMP polymorphism had a clinically significant effect on AAA expansion. The plasminogen system may have a small but clinically significant role in AAA development. Much larger studies would be needed to evaluate genes of smaller effect.
Diabetic polyneuropathy. Risk factors, patterns of presentation, diagnosis, and treatment. (2003)

Diabetic symmetrical distal neuropathy or diabetic polyneuropathy is the most common form of diabetic neuropathy and a leading cause of neuropathy in the United States. Complications include pain, loss of ambulation, and risk for amputation. Recognizing the typical pattern of presentation and risk factors for diabetic polyneuropathy is essential for making the correct diagnosis and determining appropriate workup and need for neurologic consultation. Intensive glucose control is the only therapy proven to prevent or slow the progression of diabetic polyneuropathy. Supportive therapies, including pain management and podiatric care, can improve quality of life and prevent chronic ulcerations.
Program debugging and performance evaluation aids for a multi-microprocessor development system (1984)

The paper describes a range of software development facilities which have been implemented by the authors for a multi-microprocessor development system. This system is currently being used to investigate a variety of problem areas associated with implementing real-time embedded systems using multi-microprocessor techniques. A number of facilities are described including not only the software tools necessary for program development but also those for evaluating the performance of operational systems.
Synthesis of novel all-dielectric grating filters using genetic algorithms (2002)

We are concerned with the design of inhomogeneous, all-dielectric (lossless) periodic structures which act as filters. The problem can be treated as an inverse problem. The authors begin by discussing scattering from a dielectric grating. The theory is used in the design of guided mode resonance filters.
Engineering T cell response to cancer antigens by choice of focal therapeutic conditions (2019)

Focal thermal therapy (Heat), cryosurgery (Cryo) and irreversible electroporation (IRE) are increasingly used to treat cancer. However, local recurrence and systemic spread are persistent negative outcomes. Nevertheless, emerging work with immunotherapies (i.e., checkpoint blockade or dendritic cell (DC) vaccination) in concert with focal therapies may improve outcomes. To understand the role of focal therapy in priming the immune system for immunotherapy, an in vitro model of T cell response after exposure to B16 melanoma cell lysates after lethal exposures was designed. Exposure included: Heat (50 °C, 30 min), Cryo (-80 °C, 30 min) and IRE (1250 V/cm, 99 pulses, 50 µs pulses with 1 Hz intervals). After viability assessment (CCK-8 assay), cell lysates were collected and assessed for protein release (BCA assay), protein denaturation (FTIR-spectroscopy), TRP-2 antigen release (western blot), and T cell activation (antigen-specific CD8 T cell proliferation). Results showed IRE released the most protein and antigen (TRP-2), followed by Cryo and Heat. In contrast, Cryo released the most native (not denatured) protein, compared to IRE and Heat. Finally, IRE dramatically outperformed both Cryo and Heat in T cell activation while Cryo modestly outperformed Heat. This study demonstrates that despite all focal therapies ability to destroy cells, the 'quantity' (i.e., amount) and 'quality' (i.e., molecular state) of tumor protein (including antigen) released can dramatically change the ensuing priming of the immune system. This suggests protein-based metrics whereby focal therapies can be designed to prime the immune system in concert with immunotherapies to eventually achieve improved and durable cancer treatment in vivo.
Peptide Binding to MHC Class I is Determined by Individual Pockets in the Binding Groove (1997)

H-2Kb and HLA-A2 are MHC4 class I molecules with a similar overall structure. Important differences between these two class I molecules reside in the structure of the individual pockets in the antigenic-peptide-binding groove. H-2Kb, which has a deep C pocket, binds specifically peptides with a tyrosine or a phenylalanine at position 5. In contrast, HLA-A2 has a shallow C pocket, which cannot accommodate large side chains at position 5. Site-directed mutagenesis was used to generate a chimera between the murine H-2Kb and the human HLA-A2 [H-2Kb/HLA-A2(C')]. The structure of this chimera is similar to H-2Kb except for the region around the deep C pocket, where residues at positions 9, 97 and 99 were substituted with those bulkier residues from HLA-A2. Peptide binding between this chimera and H-2Kb-binding peptides [VSV (52-59), OVA (257-264), and MCMV pp89 (168-176)], revealed that the deep C pocket of H-2Kb was crucial for high-affinity binding. While a peptide, VSV (52-59), was found to bind with severalfold lower 'affinity' to H-2Kb/HLA-A2(C') than to the wild-type H-2Kb, a VSV analogue with the tyrosine in position 5 (Tyr5) substituted with an alanine was found to bind with a similar 'affinity' to both MHC class I molecules. Computer-aided modelling of the H-2Kb/HLA-A2(C') complex indicates that the VSV (52-59) peptide probably binds to the chimeric MHC molecule with the peptide side chain of anchor residue Tyr5 pointing away from the groove. These results confirm a role of the individual pockets in determining peptide-binding affinity and specificity and suggest that this may be accomplished by changes in side-chain orientation.
Nonlinear signal processing using neural networks: Prediction and system modelling (1987)

The backpropagation learning algorithm for neural networks is developed into a formalism for nonlinear signal processing. We illustrate the method by selecting two common topics in signal processing, prediction and system modelling, and show that nonlinear applications can be handled extremely well by using neural networks. The formalism is a natural, nonlinear extension of the linear Least Mean Squares algorithm commonly used in adaptive signal processing. Simulations are presented that document the additional performance achieved by using nonlinear neural networks. First, we demonstrate that the formalism may be used to predict points in a highly chaotic time series with orders of magnitude increase in accuracy over conventional methods including the Linear Predictive Method and the Gabor-Volterra-Weiner Polynomial Method. Deterministic chaos is thought to be involved in many physical situations including the onset of turbulence in fluids, chemical reactions and plasma physics. Secondly, we demonstrate the use of the formalism in nonlinear system modelling by providing a graphic example in which it is clear that the neural network has accurately modelled the nonlinear transfer function. It is interesting to note that the formalism provides explicit, analytic, global, approximations to the nonlinear maps underlying the various time series. Furthermore, the neural net seems to be extremely parsimonious in its requirements for data points from the time series. We show that the neural net is able to perform well because it globally approximates the relevant maps by performing a kind of generalized mode decomposition of the maps. 24 refs., 13 figs.
Some Experiments with TCP/IP Protocols over an X.25 Network (1987)

This report describes some experiments to test the viabili~of highspeed (56K bps access line) X.25 network service as a carrier for IF datagraIll.5. The conclusion, based on results with the ACCUNET service provided by AT&T, i3 that X.25 can provide a reasonable carrier, but that TCP requires careful tuning ~o ~ake advantage of the reliable, but long delay, service.
Design and Implementation of Differential Drive AGV Based on Laser Guidance (2019)

AGV (Automated Guided Vehicle) has been widely used in industrial automation production. This paper presents an overall design scheme for laser guided AGV with reflector. Firstly, aiming at the laser positioning problem of AGV and the matching problem of laser reflector, a laser positioning algorithm based on coordinate system transformation and a reflector matching algorithm based on dead reckoning are proposed respectively. Secondly, the kinematic model modeling of differential drive AGV is completed for the trajectory tracking control problem. According to Lyapunov's direct method, the trajectory tracking control law is designed. The motion simulation of common trajectories is given on the MATLAB platform. Finally, the test prototype was designed and built. The test results at the industrial site show that the AGV can be accurately positioned in both static and dynamic states, and it can quickly converge to a predetermined trajectory after starting the operation.
One-carbon metabolism in cancer (2017)

Cells require one-carbon units for nucleotide synthesis, methylation and reductive metabolism, and these pathways support the high proliferative rate of cancer cells. As such, anti-folates, drugs that target one-carbon metabolism, have long been used in the treatment of cancer. Amino acids, such as serine are a major one-carbon source, and cancer cells are particularly susceptible to deprivation of one-carbon units by serine restriction or inhibition of de novo serine synthesis. Recent work has also begun to decipher the specific pathways and sub-cellular compartments that are important for one-carbon metabolism in cancer cells. In this review we summarise the historical understanding of one-carbon metabolism in cancer, describe the recent findings regarding the generation and usage of one-carbon units and explore possible future therapeutics that could exploit the dependency of cancer cells on one-carbon metabolism.
Detection of Viable Mycobacterium tuberculosis by Reverse Transcriptase-Strand Displacement Amplification of mRNA (1999)

Numerous assays have been described for the detection of DNA and rRNA sequences that are specific for the Mycobacterium tuberculosis complex. Although beneficial to initial diagnosis, such assays have proven unsuitable for monitoring therapeutic efficacy owing to the persistence of these nucleic acid targets long after conversion of smears and cultures to negative. However, prokaryotic mRNA has a typical half-life of only a few minutes and we have previously shown that the presence of mRNA is a good indicator of bacterial viability. The purpose of the present study was to develop a novel reverse transcriptase-strand displacement amplification system for the detection of M. tuberculosis alpha-antigen (85B protein) mRNA and to demonstrate the use of this assay in assessing chemotherapeutic efficacy in patients with pulmonary tuberculosis. The assay was applied to sequential, noninduced sputum specimens collected from four patients: 10 of 11 samples (91%) collected prior to the start of therapy were positive for alpha-antigen mRNA, compared with 1 of 8 (13%), 2 of 8 (25%), 2 of 8 (25%), and 0 of 8 collected on days 2, 4, 7, and 14 of treatment, respectively. In contrast, 39 of 44 samples (89%) collected on or before day 14 were positive for alpha-antigen DNA. The loss of detectable mRNA corresponded to a rapid drop over the first 4 days of treatment in the number of viable organisms present in each sputum sample, equivalent to a mean fall of 0.43 log10 CFU/ml/day. Analysis of mRNA is a potentially useful method for monitoring therapeutic efficacy and for rapid in vitro determination of drug susceptibility.