gebhart/patrepeval huggingface dataset:
Molecular Diversity and Regulation of Renal Potassium Channels (2004)

K(+) channels are widely distributed in both plant and animal cells where they serve many distinct functions. K(+) channels set the membrane potential, generate electrical signals in excitable cells, and regulate cell volume and cell movement. In renal tubule epithelial cells, K(+) channels are not only involved in basic functions such as the generation of the cell-negative potential and the control of cell volume, but also play a uniquely important role in K(+) secretion. Moreover, K(+) channels participate in the regulation of vascular tone in the glomerular circulation, and they are involved in the mechanisms mediating tubuloglomerular feedback. Significant progress has been made in defining the properties of renal K(+) channels, including their location within tubule cells, their biophysical properties, regulation, and molecular structure. Such progress has been made possible by the application of single-channel analysis and the successful cloning of K(+) channels of renal origin.
Neurofibromatosis 2 antisense oligodeoxynucleotides induce reversible inhibition of schwannomin synthesis and cell adhesion in STS26T and T98G cells. (1996)

Mutations in the neurofibromatosis 2 (NF2) gene are the predominant cause in the development of sporadic schwannomas and are also involved in the pathogenesis of meningiomas and ependymomas. The product of the NF2 gene, termed merlin or schwannomin, is thought to act as a tumor suppressor protein. Although its protein sequence shows homology to proteins that are known to link the cytoskeleton to the cell membrane, no direct evidence for this function has been obtained. We used antisense phosphorothioate oligodeoxynucleotides (pODNs) complementary to the human NF2 cDNA sequence and transfected them into Schwann-like STS26T cells permeabilized by streptolysin 0. Changes in cell morphology and attachment were observed at 12 to 24 h and continued up to 48 h post transfection. Cells were rounded and easily dislodged from the substratum at 12-24 h. These changes were reversible and cells became bipolar with thin protrusions and began to reattach to the substratum after 48 h. Normal morphology and adhesion were observed at 72 h post transfection. Morphological changes were due to suppression of schwannomin synthesis. Immunoprecipitations with antischwannomin antibodies showed schwannomin to be almost absent 3 h after treatment with antisense pODNs and to be significantly suppressed up to 12 h post transfection whereas beta-actin levels remained unchanged. The morphological changes were not the result of cell death, but resulted in increased cell proliferation. These data demonstrate that antisense oligonucleotides can be successfully employed to suppress schwannomin synthesis and indicate that schwannomin may belong to a class of tumor suppressor genes that provide a link between cell adhesion and tumorigenesis.
Biodegradable polyanhydride‐based nanomedicines for blood to brain drug delivery (2018)

An urgent need to deliver therapeutics across the blood-brain barrier (BBB) underlies a paucity of effective therapies currently available for treatment of degenerative, infectious, traumatic, chemical, and metabolic disorders of the nervous system. With an eye toward achieving this goal, an in vitro BBB model was employed to simulate biodegradable polyanhydride nanoparticle-based drug delivery to the brain. Using a combination of confocal microscopy, flow cytometry, and high performance liquid chromatography, we examined the potential of polyanhydride nanoparticles containing the anti-oxidant, mito-apocynin, to be internalized and then transferred from monocytes to human brain microvascular endothelial cells. The efficacy of this nanoparticle-based delivery platform was demonstrated by neuronal protection against oxidative stress. Taken together, this polyanhydride nanoparticle-based delivery system holds promise for enhancing neuroprotection by facilitating drug transport across the BBB. © 2018 Wiley Periodicals, Inc. J Biomed Mater Res Part A: 106A: 2881-2890, 2018.
ChemInform Abstract: Total Synthesis of the FK506/FKBP Complex (1992)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Optical modulation techniques for analog signal processing and CMOS compatible electro-optic modulation (2008)

Integrating electronic and photonic functions onto a single silicon-based chip using techniques compatible with mass-production CMOS electronics will enable new design paradigms for existing system architectures and open new opportunities for electro-optic applications with the potential to dramatically change the management, cost, footprint, weight, and power consumption of today's communication systems. While broadband analog system applications represent a smaller volume market than that for digital data transmission, there are significant deployments of analog electro-optic systems for commercial and military applications. Broadband linear modulation is a critical building block in optical analog signal processing and also could have significant applications in digital communication systems. Recently, broadband electro-optic modulators on a silicon platform have been demonstrated based on the plasma dispersion effect. The use of the plasma dispersion effect within a CMOS compatible waveguide creates new challenges and opportunities for analog signal processing since the index and propagation loss change within the waveguide during modulation. We will review the current status of silicon-based electrooptic modulators and also linearization techniques for optical modulation.
Evaluation of Cellulase Preparations for Hydrolysis of Hardwood Substrates (2007)

Seven cellulase preparations from Penicillium and Trichoderma spp. were evaluated for their ability to hydrolyze the cellulose fraction of hardwoods (yellow poplar and red maple) pretreated by organosolv extraction, as well as model cellulosic substrates such as filter paper. There was no significant correlation among hydrolytic performance on pretreated hardwood, based on glucose release, and filter paper activity. However, performance on pretreated hardwood showed significant correlations to the levels of endogenous β-glucosidase and xylanase activities in the cellulase preparation. Accordingly, differences in performance were reduced or eliminated following supplementation with a crude β-glucosidase preparation containing both activities. These results complement a previous investigation using softwoods pretreated by either organosolv extraction or steam explosion. Cellulase preparations that performed best on hardwood also showed superior performance on the softwood substrates.
Influence of rise time on partial discharge extinction voltage at semi-square voltage waveforms (2010)

This work presents measurements of the partial discharge (PD) extinction voltage in three different types of test objects, using semi-square voltages with 2 ¿s and 100 ¿s rise time. A needle creating corona discharges, a twisted pair specimen commonly used for testing motor insulation and a paper/oil test object modelling the turn-to-turn insulation of a transformer winding were investigated, presenting extinction voltages between approximately 1 kV and 8 kV. For the twisted pair specimen the PD extinction voltage was significantly lower at the shorter rise time, whereas for the other test objects, just a small or no difference could be detected. The conclusion is that depending on what range of rise times and what insulation system that are studied, there may be an influence of the rise time of the applied voltage on the PD extinction voltage.
Reynolds number effects on shock-wave turbulent boundary-layer interactions - A comparison of numerical and experimental results (1977)

An experiment is described that tests and guides computations of a shock-wave turbulent boundary-layer interaction flow over a 20-deg compression corner at Mach 2.85. Numerical solutions of the time-averaged Navier-Stokes equations for the entire flow field, employing various turbulence models, are compared with the data. Each model is critically evaluated by comparisons with the details of the experimental data. Experimental results for the extent of upstream pressure influence and separation location are compared with numerical predictions for a wide range of Reynolds numbers and shock-wave strengths.
Mechanotransduction of fluid stresses governs 3D cell migration (2014)

Solid tumors are characterized by high interstitial fluid pressure, which drives fluid efflux from the tumor core. Tumor-associated interstitial flow (IF) at a rate of ∼3 µm/s has been shown to induce cell migration in the upstream direction (rheotaxis). However, the molecular biophysical mechanism that underlies upstream cell polarization and rheotaxis remains unclear. We developed a microfluidic platform to investigate the effects of IF fluid stresses imparted on cells embedded within a collagen type I hydrogel, and we demonstrate that IF stresses result in a transcellular gradient in β1-integrin activation with vinculin, focal adhesion kinase (FAK), FAK(PY397), F actin, and paxillin-dependent protrusion formation localizing to the upstream side of the cell, where matrix adhesions are under maximum tension. This previously unknown mechanism is the result of a force balance between fluid drag on the cell and matrix adhesion tension and is therefore a fundamental, but previously unknown, stimulus for directing cell movement within porous extracellular matrix.
Deposition of self-assembled monolayers in supercritical CO2 (2013)

National audience
Supporting finding and re-finding through personalization (2007)

Although one of the most common uses for the Internet to search for information, Web search tools often fail to connect people with what they are looking for. This is because search tools are designed to satisfy people in general, not the searcher in particular. Different individuals with different information needs often type the same search terms into a search box and expect different results. For example, the query may be used by a student to find information on the disease for a fifth grade science report, and by a cancer patient to find treatment options. 
This thesis explores how Web search personalization can help individuals take advantage of their unique past information interactions when searching. Several studies of search behavior are presented and used to inform the design of a personalized search system that significantly improves result quality. Without requiring any extra effort from the user, the system is able to return simple breast cancer tutorials for the fifth grader's query, and lists of treatment options for the patient's. 
While personalization can help identify relevant new information, new information can create problems re-finding when presented in a way that does not account for previous information interactions. Consider the cancer patient who repeats a search for breast cancer treatments: she may want to learn about new treatments while reviewing the information she found earlier about her current treatment. To not interfere with refinding, repeat search results should be personalized not by ranking the most relevant results first, but rather by ranking them where the user most expects them to be. 
This thesis presents a model of what people remember about search results, and shows that it is possible to invisibly merge new information into previously viewed search result lists where information has been forgotten. Personalizing repeat search results in this way enables people to effectively find both new and old information using the same search result list. (Copies available exclusively from MIT Libraries, Rm. 14-0551, Cambridge, MA 02139-4307. Ph. 617-253-5668; Fax 617-253-1690.)
Current status of photoprotection by window glass, automobile glass, window films, and sunglasses (2013)

Ultraviolet radiation (UVR) has known adverse effects on the skin and eyes. Practitioners are becoming more aware of the importance of outdoor photoprotection. However, little attention is directed to the exposure of the skin and eyes to UVR through the window glass or sunglasses. The amount of ultraviolet transmission through glass depends mainly on the type of the glass. All types of commercial and automobile glass block the majority of ultraviolet-B; however, the degree of ultraviolet-A transmission depends on the type of glass. Laminated glass offers better UVA protection than tempered glass; new safety regulations for automobiles may result in increased use of laminated glass for side windows. Window films can be applied to glass to increase UVR protection. Sunglasses need to be compliant with one of the national standards; a wraparound style or side shields offer the best protection. Increased understanding by practitioners on the transmission of UVR through glass, window films, and sunglasses would allow them to better educate the public and to better manage photosensitive patients.
Highly accurate long-read HiFi sequencing data for five complex genomes (2020)

Abstract The PacBio ® HiFi sequencing method yields highly accurate long-read sequencing datasets with read lengths averaging 10-25 kb and accuracies greater than 99.5%. These accurate long reads can be used to improve results for complex applications such as single nucleotide and structural variant detection, genome assembly, assembly of difficult polyploid or highly repetitive genomes, and assembly of metagenomes. Currently, there is a need for sample data sets to both evaluate the benefits of these long accurate reads as well as for development of bioinformatic tools including genome assemblers, variant callers, and haplotyping algorithms. We present deep coverage HiFi datasets for five complex samples including the two inbred model genomes Mus musculus and Zea mays , as well as two complex genomes, octoploid Fragaria × ananassa and the diploid anuran Rana muscosa . Additionally, we release sequence data from a mock metagenome community. The datasets reported here can be used without restriction to develop new algorithms and explore complex genome structure and evolution. Data were generated on the PacBio Sequel II System.
Imaging the cell motions, lineages and interactions that build embryos (2008)

Reductionistic approaches have yielded unprecedented knowledge of the components involved biological processes, and present the challenge of integrating this into a complete understanding. For example, the revolution in molecular biology has yielded dramatic new insights into the genes and gene products that might guide embryonic development. To answer the basic question of how an embryo develops, we must determine how these molecular processes are assembled into the working macroscopic entities we call organisms. Biological imaging provides a natural solution to such challenges, but must resolve several competing demands, including: the high resolution needed to track single cells; the challenge of imaging cells in their normal positions in vivo; the need for true volumetric imaging; the wide field of view needed to place these images in context. No single technique has offered the needed combination of attributes, making our present challenge to integrate data from different modalities. I will draw on new findings from the Biological Imaging Center using intravital imaging to illustrate the current state of our misunderstandings and of the imaging technologies that may resolve them.
Contribution of cardiogenic oscillations to gas exchange in constant-flow ventilation (1987)

The contribution of cardiogenic oscillations to gas exchange during constant-flow ventilation was examined in 11 dogs. With the use of two variations of cardiopulmonary bypass to maintain the systemic and pulmonary circulation, the influence of cardiogenic oscillations was removed by arresting the heart. Cardiac arrest by ventricular fibrillation was associated with a mean decrease in alveolar ventilation of 43% in five dogs on right and left heart bypass. However, successful defibrillation and return of the prearrest level of alveolar ventilation could not be achieved; thus we studied six dogs on left heart bypass. Alveolar ventilation decreased an average of 37% with cardiac arrest, and defibrillation resulted in a return of alveolar ventilation to 81% of the prearrest value. These results are consistent with previous predictions that cardiogenic oscillations are an important mechanism of gas transport during constant-flow ventilation.
Evaluation of RF micro‐discharge regimes in performance of evanescent‐mode cavity resonators (2014)

RF gas breakdown in small gaps is a primary limiting factor in the power handling of heavily loaded cavity‐based resonators. The effects of different RF micro‐discharge regimes in the performance of these resonators are studied. Specifically, two resonators at 1 and 50 GHz with the same critical gap size of 19 μm which are, respectively, working in the RF boundary and diffusion‐controlled regimes are considered. By combining plasma and electromagnetic simulations, the effects of high power gas breakdown in the performance of these resonators are compared. A sensitivity analysis on the effects of microscopic plasma parameters is also performed.
In vitro Fluoride Release from a Light-cured Glass-ionomer Liner/Base (1991)

This paper reports the results of an in vitro study of fluoride release from Vitrabond Light-Cure Glass Ionomer Liner/Base. The material released fluoride ions into the surrounding medium for up to 740 days. The rate of release of fluoride ions was independent of the cure time in the range studied. Combining a conventional polyalkenoic acid solution with the powder portion of Vitrabond Liner/Base did not significantly alter the release profile, thus indicating that light curing did not hinder the rate of fluoride release in this system. Secondary ion mass spectrometry studies of the dentin underlying the cured glass ionomer revealed that there was considerable incorporation of fluoride ions. There was no significant change in the mechanical properties of the cured cement aged in water at 37 degrees C for prolonged periods, thus indicating that long-term fluoride release did not adversely affect the strength of this material.
N-Heterocyclic carbenes via abstraction of ammonia: ‘normal’ carbenes with ‘abnormal’ character (2012)

A new ammonia adduct of a N-heterocyclic carbene (NHC) has been isolated, which can be used as a reagent for the synthesis of transition metal carbene complexes. It represents the first example of a 1,2,3-triazolylidene with a 1,2,4-substitution pattern, thus opening a new subclass ('normal' 1,2,3-triazolylidenes) of sterically and electronically tunable NHCs.
Design and Pharmaceutical Evaluation of a Nano-Enabled Crosslinked Multipolymeric Scaffold for Prolonged Intracranial Release of Zidovudine (2013)

The crosslinked multipolymeric scaffold loaded with alginate nanoparticles and treated with 1% HCl showed the potential for prolonged delivery of zidovudine over a period of 30 days and therefore may be a potential candidate for use as an implantable device in treating Aids Dementia Complex.
6.5 A 1.8pJ/b 56Gb/s PAM-4 transmitter with fractionally spaced FFE in 14nm CMOS (2017)

As data rates in electrical links rise to 56Gb/s, standards are gravitating towards PAM-4 modulation to achieve higher spectral efficiency. Such approaches are not without drawbacks, as PAM-4 signaling results in reduced vertical margins as compared to NRZ. This makes data recovery more susceptible to residual, or uncompensated, intersymbol interference (ISI) when the PAM-4 waveform is sampled by the receiver. To overcome this, existing standards such as OIF CEI 56Gb/s very short reach (VSR) require forward error correction to meet the target link BER of 1E-15. This comes at the expense of higher latency, which is undesirable for chip-to-chip VSR links in compute applications. Therefore, different channel equalization strategies should be considered for PAM-4 electrical links. Employing ½-UI (T/2) tap delays in an FFE extends the filter bandwidth as compared to baud- or T-spaced taps [1], resulting in improved timing margins and lower residual ISI for 56Gb/s PAM-4 data sent across VSR channels. While T/2-spaced FFEs have been reported in optical receivers for dispersion compensation [2], the analog delay techniques used are not conducive to designing dense I/O and cannot support a wide range of data rates. This work demonstrates a 56Gb/s PAM-4 transmitter with a T/2-spaced FFE using high-speed clocking techniques to produce well-controlled tap delays that are data-rate agile. The transmitter also supports T-spaced tap delays, ensuring compatibility with existing standards.
Applying polygenic risk scores to postpartum depression (2020)

The etiology of major depressive disorder (MDD) is likely to be heterogeneous, but postpartum depression (PPD) is hypothesized to represent a more homogenous subset of MDD. We use genome-wide SNP data to explore this hypothesis.
Automated network fault management (2002)

Future military communication networks will have a mixture of backbone terrestrial, satellite and wireless terrestrial networks. The speeds of these networks vary and they are very heterogeneous. As networks become faster, it is not enough to do reactive fault management. Our approach combines proactive and reactive fault management. Proactive fault management is implemented by dynamic and adaptive routing. Reactive fault management is implemented by a combination of a neural network and an expert system. The system has been developed for the X.25 protocol. Several fault scenarios were modeled and included in the study reduced switch capacity, increased packet generation rate of a certain application, disabled switch in the X.25 cloud, and disabled links. We also modeled the occurrence of alarms including the severity of the problem, location of the event and a threshold. To detect and identify faults we use both numerical data associated with the performance objects (attributes) in the MIB as well as SNMP traps (alarms). Simulation experiments have been performed in order to understand the convergence of the algorithms, the timing of the neural network involved and the G2/NeurOn-Line software environment and MIB design.
Ionizing Collision (in Mass Spectrometry) (2016)

This document contains recommendations for terminology in mass spectrometry. Development of standard terms dates back to 1974 when the IUPAC Commission on Analytical Nomenclature issued recommendations on mass spectrometry terms and definitions. In 1978, the IUPAC Commission on Molecular Structure and Spectroscopy updated and extended the recommendations and made further recommendations regarding symbols, acronyms, and abbreviations. The IUPAC Physical Chemistry Division Commission on Molecular Structure and Spectroscopy’s Subcommittee on Mass Spectroscopy revised the recommended terms in 1991 and appended terms relating to vacuum technology. Some additional terms related to tandem mass spectrometry were added in 1993 and accelerator mass spectrometry in 1994. Owing to the rapid expansion of the field in the intervening years, particularly in mass spectrometry of biomolecules, a further revision of the recommendations has become necessary. This document contains a comprehensive revision of mass spectrometry terminology that represents the current consensus of the mass spectrometry community.