gebhart/patrepeval huggingface dataset:
Development of a bipedal humanoid robot having antagonistic driven joints and three DOF trunk (2002)

The authors proposed the construction of a bipedal humanoid robot that has a head system with visual sensors, two hand-arm systems, 3-DOF trunk and antagonistic driven joints using the nonlinear spring mechanism, on the basis of WL-13. And we really designed and built it. In addition, as the first step to realize the dynamic cooperative motion of limbs and 3-DOF trunk, the authors developed the control algorithm and the simulation program that generates the trajectory of 3-DOF trunk for stable biped walking pattern even if the trajectories of upper and lower limbs are arbitrarily set for locomotion and manipulation respectively. Using this preset walking pattern with variable muscle tension references correspond to swing phase and stance phase, the authors performed walking experiment of dynamic walking forward and backward dynamic dance with 3-DOF trunk motion and carrying, on a flat level surface (1.28 s/step with a 0.15 m step length). As a result, the efficiency of our walking control algorithm and robot system was proved. In this paper, the mechanism of WABIAN and its control method are introduced.
The building of protein structures form α‐carbon coordinates (1990)

A procedure for the construction of complete protein structures from only alpha-carbon coordinates is described. This involves building the backbone by sequential addition of Pro, Gly, or Ala residues. This main chain structure is then refined using molecular dynamics. Side chains are constructed by sequential addition of atoms with intermediate molecular dynamics refinement. For alpha lytic protease (a structure that is mostly beta sheet) a backbone root mean square deviation (RMSD) of 0.19 A and an overall RMSD of 1.24 A from the crystallographic coordinates are attained. For troponin C (67% alpha-helix), where the coordinates are available only for the alpha-carbons, a backbone RMSD of 0.41 A and an overall RMSD of 1.68 A are attained (fits kindly provided by Dr. Michael James and Natalie Strynadka). For flavodoxin a backbone RMSD of 0.49 A and an overall RMSD of 1.64 A were attained.
Methotrexate in rheumatoid arthritis: a quarter century of development. (2013)

Methotrexate (MTX) is now the most popular drug worldwide for the treatment of rheumatoid arthritis. Low-dose, weekly MTX (10 to 25 mg/wk) used as either monotherapy or in combination with other drugs has a superior efficacy profile as defined in placebo-controlled trials and comparable efficacy to other drugs including anti-TNF therapy. At 1 year, one third of patients on MTX have no radiographic progression and even greater effects are seen when combined with targeted biological therapies. MTX is well tolerated; gastrointestinal toxicity is the most common toxicity with rarely bone marrow, lung, or liver toxicity. MTX therapy has been a major advance in the treatment of rheumatoid arthritis and is now the cornerstone of therapy.
Cerebral Microvessel Responses to Focal Ischemia (2003)

Cerebral microvessels have a unique ultrastructure form, which allows for the close relationship of the endothelium and blood elements to the neurons they serve, via intervening astrocytes. To focal ischemia, the cerebral microvasculature rapidly displays multiple dynamic responses. Immediate events include breakdown of the primary endothelial cell permeability barrier, with transudation of plasma, expression of endothelial cell-leukocyte adhesion receptors, loss of endothelial cell and astrocyte integrin receptors, loss of their matrix ligands, expression of members of several matrix-degrading protease families, and the appearance of receptors associated with angiogenesis and neovascularization. These events occur pari passu with neuron injury. Alterations in the microvessel matrix after the onset of ischemia also suggest links to changes in nonvascular cell viability. Microvascular obstruction within the ischemic territory occurs after occlusion and reperfusion of the feeding arteries ("focal no-reflow" phenomenon). This can result from extrinsic compression and intravascular events, including leukocyte(-platelet) adhesion, platelet-fibrin interactions, and activation of coagulation. All of these events occur in microvessels heterogeneously distributed within the ischemic core. The panorama of acute microvessel responses to focal cerebral ischemia provide opportunities to understand interrelationships between neurons and their microvascular supply and changes that underlie a number of central nervous system neurodegenerative disorders.
Real-Time Detection of Camera Tampering (2006)

This paper presents a novel technique for camera tampering detection. It is implemented in real-time and was developed for use in surveillance and security applications. This method identifies camera tampering by detecting large differences between older frames of video and more recent frames. A buffer of incoming video frames is kept and three different measures of image dissimilarity are used to compare the frames. After normalization, a set of conditions is tested to decide if camera tampering has occurred. The effects of adjusting the internal parameters of the algorithm are examined. The performance of this method is shown to be extremely favorable in real-world settings.
Adaptive analog circuits to perform signal separation of multidimensional sensor signals (1991)

The main features of a simultaneous analog source separator based on a simple adaptive neuromimetic network are simplicity of the algorithm and the tolerance to imprecise components in the analog circuits. Several practical applications of the network are sensor linearization and source signal separation, when both the sources and mixing are unknown. Adaptation is achieved by estimating@ hardware) the cross correlation functions of the outputs.
Fractional Frequency Synthesizers With Low Order Time-Variant Digital Sigma-Delta Modulator (2012)

This paper proposes the use of a digital <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex Notation="TeX">$\Sigma\Delta$</tex></formula> modulator with pseudorandom variation of coefficients. The method improves PLL-based Fractional Frequency Synthesizer's performance while using a low order digital <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex Notation="TeX">$\Sigma\Delta$</tex></formula> modulator. The time variant coefficients, in a low order digital <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$\Sigma\Delta$</tex> </formula> modulator, significantly enlarge the pseudorandom output pattern period thus avoiding critical spur tones in the fractional synthesizer's phase-noise. Behavioral simulations let us verify that the proposed technique operates better than a higher order modulator with additive dither. With a low order <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$\Sigma\Delta$</tex></formula> architecture, the programmable divider phase-selection logic and frequency range of operation parameters can be relaxed.
Quantitative ATR spectroscopy: some basic considerations (1981)

A comprehensive treatment of ATR spectra on the basis of the Lorentz-Lorenz law and Fresnel equations is given. The standard equation for the effective thickness is redefined showing how the lossy case deviates from the lossless case. A matrix effect due to the influence of the real part of the refractive index within an absorption band is demonstrated theoretically as well as experimentally. The concentration of a nonab-sorbing solute sample, i.e., glucose, is determined by ATR spectroscopy near the critical angle.
Volatile Compounds Produced in Sterile Fish Muscle ( <i>Sebastes melanops</i> ) by <i>Pseudomonas putrefaciens, Pseudomonas fluorescens</i> , and an <i>Achromobacter</i> Species (1973)

Volatile compounds produced by Pseudomonas putrefaciens, P. fluorescens, and an Achromobacter species in sterile fish muscle (Sebastes melanops) were identified by combined gas-liquid chromatography and mass spectrometry. Compounds produced by P. putrefaciens included methyl mercaptan, dimethyl disulfide, dimethyl trisulfide, 3-methyl-1-butanol, and trimethylamine. With the exception of dimethyl trisulfide, the same compounds were produced by an Achromobacter species. Methyl mercaptan and dimethyl disulfide were the major sulfur-containing compounds produced by P. fluorescens.
Purification and Characterization of a Human Pancreatic Adenocarcinoma Mucin (2002)

Pancreatic mucins consist of core proteins that are decorated with carbohydrate structures. Previous studies have identified at least two physically distinct populations of mucins produced by a pancreatic adenocarcinoma cell line (HPAF); one is the MUC1 core protein, which includes an oligosaccharide structure identified by a monoclonal antibody (MAb) recognizing the DU-PAN-2 epitope. In this study, we purified and characterized a second mucin fraction, which also shows reactivity with the DU-PAN-2 antibody, but which has an amino acid composition that is not consistent with the MUC1 core protein. This new mucin was purified by ammonium sulfate precipitation, molecular sieve chromatography, and density gradient centrifugation. It eluted in the void volume of a Sepharose 4B column together with an associated low molecular weight protein, which could be further resolved. The mucin is highly polyanionic due to numerous sulfated and sialylated saccharide chains. Carbohydrate analyses of the purified mucin showed the presence of galactose, glucosamine, galactosamine, and sialic acid, but no mannose, glucose, or uronic acid. The purified and deglycosylated mucin shows no reactivity with anti-MUC1 apomucin antibody, but reacts with antiserum against deglycosylated tracheal mucins and antiserum against the MUC4 tandem repeat peptide. Analysis of mucin expression in HPAF cells revealed high levels of MUC1 and MUC4 mRNA, and moderate levels of MUC5AC and MUC5B mRNA. The amino acid composition of the purified mucin shows a high degree of similarity to the MUC4 core protein.
Distributed computing and data storage in proteomics: Many hands make light work, and a stronger memory (2013)

Modern day proteomics generates ever more complex data, causing the requirements on the storage and processing of such data to outgrow the capacity of most desktop computers. To cope with the increased computational demands, distributed architectures have gained substantial popularity in the recent years. In this review, we provide an overview of the current techniques for distributed computing, along with examples of how the techniques are currently being employed in the field of proteomics. We thus underline the benefits of distributed computing in proteomics, while also pointing out the potential issues and pitfalls involved.
Archaeosomes as Adjuvants for Combination Vaccines (2004)

The present study evaluated the potential of archaesomes, prepared from the total polar lipids extracted from Methanobrevibacter smithii, as adjuvants for combination (multivalent) vaccines. Groups of Balb/c mice were immunized subcutaneously at day 0 and 21 with one of the following vaccines: trivalent vaccine formulated by the simultaneous co-encapsulation of bovine serum albumine (BSA), ovalbumin (OVA) and hen egg lysozyme (HEL) into archaeosomes (CEC vaccine); an univalent archaeosome vaccine (UVE vaccine) containing either BSA, OVA or HEL; or an admixture vaccine (AMC vaccine) consisting of the three UVE vaccines. Serum specific antibody (IgG + M) responses were determined at day 32, 112 and 203, and specific IgG1 and IgG2a responses were determined at day 112. Mice immunized with the CEC of AMC vaccine developed strong and sustained specific antibody responses to all three antigens at a magnitude similar to those seen in control mice immunized with UVE vaccines. Moreover, the serum BSA-, OVA-, and HEL-specific IgG1 and IgG2a levels in the CEC and AMC immunized mice were overall comparable to those of the UVE immunized control mice. Boosting CEC and AMC vaccinated mice with antigens alone at day 203 elicited strong antibody memory responses, comparable to those in the UVE vaccinated groups. These results show that archaeosomes could be used as adjuvants in developing combination vaccines.
Expression of NOD2 in Paneth cells: a possible link to Crohn’s ileitis (2003)

These results suggest a role for NOD2 in the regulation of Paneth cell mediated responses against intestinal bacteria and a plausible mechanism to explain the selective association of NOD2 mutations with ileal disease. The impaired capacity of CD associated mutations to sense luminal bacteria may result in increased susceptibility to certain gut microbes.
Glyphosate: a once‐in‐a‐century herbicide (2008)

Since its commercial introduction in 1974, glyphosate [N-(phosphonomethyl)glycine] has become the dominant herbicide worldwide. There are several reasons for its success. Glyphosate is a highly effective broad-spectrum herbicide, yet it is very toxicologically and environmentally safe. Glyphosate translocates well, and its action is slow enough to take advantage of this. Glyphosate is the only herbicide that targets 5-enolpyruvyl-shikimate-3-phosphate synthase (EPSPS), so there are no competing herbicide analogs or classes. Since glyphosate became a generic compound, its cost has dropped dramatically. Perhaps the most important aspect of the success of glyphosate has been the introduction of transgenic, glyphosate-resistant crops in 1996. Almost 90% of all transgenic crops grown worldwide are glyphosate resistant, and the adoption of these crops is increasing at a steady pace. Glyphosate/glyphosate-resistant crop weed management offers significant environmental and other benefits over the technologies that it replaces. The use of this virtually ideal herbicide is now being threatened by the evolution of glyphosate-resistant weeds. Adoption of resistance management practices will be required to maintain the benefits of glyphosate technologies for future generations.
SERIAL PERIPHERAL BLOOD INTERLEUKIN-18 AND PERFORIN GENE EXPRESSION MEASUREMENTS FOR PREDICTION OF ACUTE KIDNEY GRAFT REJECTION (2004)

Our data indicate that combined perforin and IL-18 gene expression measurements are useful tools for the recognition of graft rejection in its earliest stages. Serial measurements could be implemented as a monitoring system to identify patients at higher risk of rejection, making them candidates for biopsy or prophylactic increases in immunosuppression.
Gel-Mediated Electrospray Assembly of Silica Supraparticles for Sustained Drug Delivery (2018)

Supraparticles (SPs) composed of smaller colloidal particles provide a platform for the long-term, controlled release of therapeutics in biomedical applications. However, current synthesis methods used to achieve high drug loading and those involving biocompatible materials are often tedious and low throughput, thereby limiting the translation of SPs to diverse applications. Herein, we present a simple, effective, and automatable alginate-mediated electrospray technique for the assembly of robust spherical silica SPs (Si-SPs) for long-term (>4 months) drug delivery. The Si-SPs are composed of either porous or nonporous primary Si particles within a decomposable alginate matrix. The size and shape of the Si-SPs can be tailored by controlling the concentrations of alginate and silica primary particles used and key electrospraying parameters, such as flow rate, voltage, and collector distance. Furthermore, the performance (including drug loading kinetics, loading capacity, loading efficiency, and drug release) of the Si-SPs can be tuned by changing the porosity of the primary particles and through the retention or removal (via calcination) of the alginate matrix. The structure and morphology of the Si-SPs were characterized by electron microscopy, dynamic light scattering, N<sub>2</sub> adsorption-desorption analysis, and X-ray photoelectron spectroscopy. The cytotoxicity and degradability of the Si-SPs were also examined. Drug loading kinetics and loading capacity for six different types of Si-SPs, using a model protein drug (fluorescently labeled lysozyme), demonstrate that Si-SPs prepared from primary silica particles with large pores can load significant amounts of lysozyme (∼10 μg per SP) and exhibit sustained, long-term release of more than 150 days. Our experiments show that Si-SPs can be produced through a gel-mediated electrospray technique that is robust and automatable (important for clinical translation and commercialization) and that they present a promising platform for long-term drug delivery.
Cloning of an Endangered Species ( <i>Bos gaurus</i> ) Using Interspecies Nuclear Transfer (2000)

Approximately 100 species become extinct a day. Despite increasing interest in using cloning to rescue endangered species, successful interspecies nuclear transfer has not been previously described, and only a few reports of in vitro embryo formation exist. Here we show that interspecies nuclear transfer can be used to clone an endangered species with normal karyotypic and phenotypic development through implantation and the late stages of fetal growth. Somatic cells from a gaur bull (Bos gaurus), a large wild ox on the verge of extinction, (Species Survival Plan < 100 animals) were electrofused with enucleated oocytes from domestic cows. Twelve percent of the reconstructed oocytes developed to the blastocyst stage, and 18% of these embryos developed to the fetal stage when transferred to surrogate mothers. Three of the fetuses were electively removed at days 46 to 54 of gestation, and two continued gestation longer than 180 (ongoing) and 200 days, respectively. Microsatellite marker and cytogenetic analyses confirmed that the nuclear genome of the cloned animals was gaurus in origin. The gaur nuclei were shown to direct normal fetal development, with differentiation into complex tissue and organs, even though the mitochondrial DNA (mtDNA) within all the tissue types evaluated was derived exclusively from the recipient bovine oocytes. These results suggest that somatic cell cloning methods could be used to restore endangered, or even extinct, species and populations.
An ultraflexible polyurethane yarn-based wearable strain sensor with a polydimethylsiloxane infiltrated multilayer sheath for smart textiles (2020)

Waterproof fiber-based strain sensors with a high gauge factor and outstanding stability are essential for smart textiles, wearable devices and biomedical electronics. In this work, we demonstrate a highly flexible, stretchable, sensitive, and waterproof core-sheath structure strain sensor with a relatively wide strain-sensing range fabricated by a simple approach. Such a core-sheath structure is composed of a superelastic core material polyurethane (PU) yarn; a highly conductive multilayer sheath material, namely, graphene nanosheets/thin gold film/graphene nanosheets (GNSs/Au/GNSs); and a thin polydimethylsiloxane (PDMS) wrapping layer. The combination of the PU yarn, multilayer GNSs/Au/GNSs, and PDMS wrapping layer enables the strain sensor to achieve high flexibility and stretchability, high sensitivity, broad strain-sensing range, and good waterproof property simultaneously due to the infiltration of PDMS into the multilayer during stretching. Particularly, the yarn strain sensor exhibits a high gauge factor (GF: 661.59), outstanding stability with an applied strain of 50% for approximately 10 000 stretch/release cycles, and superior water resistance. Moreover, it can be readily integrated into textiles, including medical textile bandages and textile gloves, for monitoring various human motions (e.g., phonation, pulse, finger bending, and walking) and effectively control a hand robot. Therefore, strain sensors show considerable potential in textile, wearable, and biomedical electronics for healthcare-related applications, such as disease diagnosis, preventive healthcare, and rehabilitation care, and robot controlling-related applications (e.g., controlling a hand robot to catch some objects).
The <i>in vivo</i> Anti‐tumor Effect of Human Recombinant Interleukin‐6 (1990)

Administration of recombinant interleukin-6 (IL-6) was found to induce in vivo generation of cytotoxic T lymphocytes (CTL) against syngeneic transplantable erythroleukemia (FBL-3) in lymph node cells and peritoneal exudate cells (PEC) in C57BL/6 mice. Furthermore, 15 out of 16 C57BL/6 mice injected with 5 x 10(6) viable FBL-3 cells survived on day 100 when they were treated with 5 x 10(4) U of recombinant IL-6 three times a day on days 1, 2, 3, 5, 7 and 9 after the inoculation of tumor cells (the cure rate was 94%). Cured mice could reject the tumor cells rapidly after the re-inoculation of a large number of live FBL-3 cells. In contrast, all normal mice died of tumor development by day 10. In these cured mice, FBL-3-specific CD4-8+ CTL cells were found to be generated in PEC, spleen and lymph node cells by either in vivo or in vitro re-stimulation with FBL-3 cells, but lymphokine-activated killer cells never developed. The results suggested that the anti-tumor effect of IL-6 was mediated by in vivo induction of tumor-specific CTL.
Mycosporines and mycosporine-like amino acids: UV protectants or multipurpose secondary metabolites? (2007)

Mycosporines and mycosporine-like amino acids (MAAs) are low-molecular-weight water-soluble molecules absorbing UV radiation in the wavelength range 310-365 nm. They are accumulated by a wide range of microorganisms, prokaryotic (cyanobacteria) as well as eukaryotic (microalgae, yeasts, and fungi), and a variety of marine macroalgae, corals, and other marine life forms. The role that MAAs play as sunscreen compounds to protect against damage by harmful levels of UV radiation is well established. However, evidence is accumulating that MAAs may have additional functions: they may serve as antioxidant molecules scavenging toxic oxygen radicals, they can be accumulated as compatible solutes following salt stress, their formation is induced by desiccation or by thermal stress in certain organisms, they have been suggested to function as an accessory light-harvesting pigment in photosynthesis or as an intracellular nitrogen reservoir, and they are involved in fungal reproduction. Here, the evidence for these additional roles of MAAs as 'multipurpose' secondary metabolites is reviewed, with special emphasis on their functions in the microbial world.