gebhart/patrepeval huggingface dataset:
Neural‐Network‐Based Identification of Tissue‐Type Plasminogen Activator Protein Production and Glycosylation in CHO Cell Culture under Shear Environment (2003)

An artificial neural network (ANN) modeling scheme has been constructed for the identification of both recombinant tissue-type plasminogen activator (r-tPA) protein production and glycosylation from Chinese hamster ovary (CHO) cell culture, cultivated in a stirred bioreactor. A series of hybrid feed-forward backpropagation neural networks were constructed to function as a software sensor. This enabled predictions of viable cell density, r-tPA content, and r-tPA glycosylation. The sensor was based on an initial input vector space consisting of simple metabolite concentrations, batch cultivation time, and a description of shear stress applied to the culture. Metabolite concentrations of the culture supernatant, included in the input vector space, were obtained from a single isocratic HPLC measurement. The shear stress component of the input space enabled accurate culture state prediction over a wide range of agitation rates. Coefficient of determination (r(2)) values between ANN predicted and experimental measurements of 0.945, 0.943, 0.956, and 0.990 were calculated to validate individual ANN prediction accuracy for total ammonia, apparent viable cell density, total r-tPA, and Type II glycoform concentrations, respectively.
Oncornavirus Lytic Activity in the Serum of Gibbon Apes (1978)

Fresh blood serum from normal gibbon apes (Hylobates lar) contained heat-sensitive lytic activity for various mammalian oncornaviruses. Lytic activity quantitatively similar to that in gibbon serum was demonstrated in serum from three other primate species, including man; it was demonstrated to be low or absent in lower mammalian species with the exception of domestic cats, which had intermediate levels of serum lytic activity. Gibbons that acquired infectious gibbon ape leukemia virus, either naturally by exposure to a virus-shedding ape or experimentally by deliberate virus inoculation, had the same levels of serum lytic activity as did unexposed gibbons that had no detectable antibodies to gibbon ape leukemia virus. A leukemic-viremic gibbon had low or absent serum oncornavirus lytic activity. These results indicated that serum lytic activity does not necessarily protect against infection by oncornaviruses, although it may limit virus replication and/or dissemination.
Synthesis, Characterization, and Antifouling Potential of Functionalized Copper Nanoparticles (2008)

The synthesis, characterization, and antimicrobial properties of functionalized copper nanoparticle/polymer composites are reported. Copper nanoparticles (Cu NPs) are stabilized by surface attachment of the acrylic functionality that can be copolymerized with other acrylic monomers, thus, becoming an integral part of the polymer backbone. Biological experiments show that Cu NP/polymer composites exhibit antimicrobial activity similar to that of conventional copper-based biocides. Atomic absorption spectroscopy shows the smallest amount of copper ions leaching from chemically bound acrylated Cu NPs compared to the nonfunctionalized biocides. These composites have a strong potential for use in antibacterial or marine antifouling coatings.
Iberian Pig as a Model To Clarify Obscure Points in the Bioavailability and Metabolism of Ellagitannins in Humans (2007)

Ellagitannin-containing foods (strawberries, walnuts, pomegranate, raspberries, oak-aged wine, etc.) have attracted attention due to their cancer chemopreventive, cardioprotective, and antioxidant effects. Ellagitannins (ETs) are not absorbed as such but are metabolized by the intestinal flora to yield urolithins (hydroxydibenzopyran-6-one derivatives). In this study, Iberian pig is used as a model to clarify human ET metabolism. Pigs were fed either cereal fodder or acorns, a rich source of ETs. Plasma, urine, bile, lumen and intestinal tissues (jejunum and colon), feces, liver, kidney, heart, brain, lung, muscle, and subcutaneous fat tissue were analyzed. The results demonstrate that acorn ETs release ellagic acid (EA) in the jejunum, then the intestinal flora metabolizes EA sequentially to yield tetrahydroxy- (urolithin D), trihydroxy- (urolithin C), dihydroxy- (urolithin A), and monohydroxy- (urolithin B) dibenzopyran-6-one metabolites, which were absorbed preferentially when their lipophilicity increased. Thirty-one ET-derived metabolites were detected, including 25 urolithin and 6 EA derivatives. Twenty-six extensively conjugated metabolites were detected in bile, glucuronides and methyl glucuronides of EA and particularly urolithin A, C, and D derivatives, confirming a very active enterohepatic circulation. Urolithins A and B as well as dimethyl-EA-glucuronide were detected in peripheral plasma. The presence of EA metabolites in bile and in urine and its absence in intestinal tissues suggested its absorption in the stomach. Urolithin A was the only metabolite detected in feces and together with its glucuronide was the most abundant metabolite in urine. No metabolites accumulated in any organ analyzed. The whole metabolism of ETs is shown for the first time, confirming previous studies in humans and explaining the long persistency of urolithin metabolites in the body mediated by an active enterohepatic circulation.
High Selectivity of Human Tissue Transglutaminase for Immunoactive Gliadin Peptides:  Implications for Celiac Sprue (2001)

Celiac Sprue is an HLA DQ2 (or DQ8)-associated autoimmune disorder of the human small intestine that is induced by dietary exposure to wheat gliadin and related proteins from barley, rye, and possibly other food grains. Recently, tissue transglutaminase (tTGase)-catalyzed deamidation of gliadin peptides has been shown to increase their potency for activating patient-derived, gliadin-specific T cells, suggesting that tTGase plays a causative role in the onset of an inflammatory response to toxic food grains. To dissect the molecular recognition features of tTGase for gluten derived peptides, the regioselectivity and steady-state kinetics of tTGase-catalyzed deamidation of known immunogenic peptides were investigated. The specificity of recombinant human tTGase for all immunogenic peptides tested was comparable to and, in some cases, appreciably higher than the specificity for its natural substrate. Although each peptide was glutamine-rich, tTGase exhibited a high degree of regioselectivity for a particular glutamine residue in each peptide. This selectivity correlated well with Q --> E substitutions that have earlier been shown to enhance the immunogenicity of the corresponding gliadin peptides. The specificity of tTGase toward homologues of PQPQLPY, a sequence motif found in immunodominant gliadin peptides, was analyzed in detail. Remarkably, the primary amino acid sequences of wheat-, rye-, and barley-derived proteins included many single-residue variants of this sequence that were high-affinity substrates of tTGase, whereas the closest homologues of this sequence found in rice, corn, or oat proteins were much poorer substrates of tTGase. (Rice, corn, and oats are nontoxic ingredients of the Celiac diet.) No consensus sequence for a high-affinity substrate of tTGase could be derived from our data, suggesting that the secondary structures of these food-grain peptides were important in their recognition by tTGase. Finally, under steady-state turnover conditions, a significant fraction of the tTGase active site was covalently bound to a representative high-affinity immunogenic gliadin peptide, suggesting a common mechanism by which cells responsible for immune surveillance of the intestinal tract recognize and generate an antibody response against both gliadin and tTGase. In addition to providing a quantitative framework for understanding the role of tTGase in Celiac Sprue, our results lay the groundwork for the design of small molecule mimetics of gliadin peptides as selective inhibitors of tTGase.
CONCENTRATION OF PROSTAGLANDIN F2α AND STEROIDS IN THE HUMAN CORPUS LUTEUM (1977)

The concentration of prostaglandin F2alpha (PGF2alpha), progesterone, pregnenolone, oestradiol-17beta, oestrone, androstenedione and testosterone was measured in corpora lutea obtained from 40 women at various stages of the menstrual cycle. The concentration of PGF2alpha was significantly higher in corpora lutea immediately after ovulation (26-7 +/- 3-9 (S.E.M.) ng/g, P less than 0-005) and in corpora albicantia (16-3 +/- 3-3 ng/g, P less than 0-005) than at any other time during the luteal phase. There was no correlation between the concentration of PGF2alpha, and that of any steroid. The progesterone concentration was highest in corpora lutea just after ovulation (24-9 +/-6-7 microng/g) and in early luteal groups (25-7 +/- 6-8 microng/g) but declined significantly (P less than 0-05) to its lowest level in corpora albicantia (1-82 +/- 0-66 microng/g). The concentration of oestradiol-17beta in the corpus luteum and luteal weight were significantly greater during the mid-luteal phase than at any other stage (concentration 282 +/- 43 ng/g), P less than 0-05; weight 1-86 +/- 0-18 g, P less than 0-005). The results indicate that regression of the human corpus luteum is not caused by a rise in the ovarian concentration of PGF2alpha in the late luteal phase of the cycle.
Determination of Power Gating Granularity for FPGA Fabric (2006)

In this study, we present a design methodology to determine the granularity of power gating for field programmable gate arrays (FPGAs). Fine-grain power gating is more effective than coarse-grain power gating to reduce the active leakage power of unused logic and interconnection resources. However, the area overhead in fine-grain power gating is higher than that of coarse-grain power gating. Based on the placement and routing of benchmark designs in Spartan-3trade-like FPGA, guidelines for determining the granularity of power gating are provided. It is found that programmable resources with low utilization can be power gated more coarsely than the resources with high utilization
Timing and Co-Ordination of Repetitive Bimanual Movements (1982)

Similar timing of movements of the two hands has been observed when they are moved to separate targets (Kelso et al., 1979). This was taken as evidence for a low-level, co-ordinative structure that constrains the muscles of the arms to function as a single unit. An experiment to investigate the relation between voluntary timing control and timing in bimanual movement is described. The task required subjects to make repetitive movements of unequal difficulty for the two hands with the hands arriving synchronously at their respective targets. Estimates of the covariance of successive intervals defined by pairs of left-right responses (arrivals at the targets) were not negative. It is shown that this indicates that the motor delay between the timer regulating repetition rate and the overt responses has no component common to left- and right-responses. Although the co-ordinative structure is described as low-level, in terms of the time sequence of operations associated with each response pair, the data indicate its place is before, not after, the timer.
Continuous impedance monitoring during CT-guided stereotactic surgery: Relative value in cystic and solid lesions (1992)

Continuous monopolar impedance monitoring was performed during CT-guided stereotactic procedures involving 46 probe passages in 33 patients. Four readings were obtained during each passage to the lesion corresponding to the gray matter (A), subcortical white matter (B), perilesional tissue (C), and the target (D). The mean impedance of low-grade gliomas (442.7 +/- 96.1 SD ohm) was lower than that of high-grade gliomas (675 +/- 67.3 SD ohm) (p = 0.01). But because of considerable overlap of values in the 400-700 ohm range only impedances of less than 400 ohm and greater than 700 ohm are capable of predicting pathology, the former being associated with low-grade gliomas and the latter with high-grade gliomas. The mean change in impedance from the perilesional tissue to the target (C-D) was higher for cystic lesions compared with the solid lesions (127.5 +/- 131.5 SD versus 78.9 +/- 72.4 SD ohm) but was not statistically significant (p = 0.148). Impedance monitoring was found to be particularly useful in determining the entry into thick-walled cysts. It also helped elucidate the structures encountered in the probe track. Overall this procedure is a simple and useful adjunct, which can enhance the accuracy of selected CT-guided procedures without unduly increasing the length of the procedure or altering the morbidity.
Molecular markers predictive of the capacity of expanded human articular chondrocytes to form stable cartilage in vivo (2001)

AHAC have a finite capacity to form stable cartilage in vivo; this capacity is lost throughout passaging and can be monitored using a nude mouse model and associated molecular markers. This cartilage-forming ability in vivo may be pivotal for successful cell-based joint surface defect repair protocols.
Strain-Dependent Induction of Allergic Sensitization Caused by Peanut Allergen DNA Immunization in Mice (1999)

To investigate the potential application of allergen gene immunization in the modulation of food allergy, C3H/HeSn (C3H) mice received i.m. injections of pAra h2 plasmid DNA encoding one of the major peanut allergens, Ara h2. Three weeks following pDNA immunization, serum Ara h2-specific IgG2a, IgG1, but not IgE, were increased significantly in a dose-dependent manner. IgG1 was 30-fold higher in multiply compared with singly immunized mice. Ara h2 or peanut protein injection of immunized mice induced anaphylactic reactions, which were more severe in multiply immunized mice. Heat-inactivated immune serum induced passive cutaneous anaphylaxis, suggesting that anaphylaxis in C3H mice was mediated by IgG1. IgG1 responses were also induced by intradermal injection of pAra h2, and by i.m. injection of pOMC, the plasmid DNA encoding the major egg allergen protein, ovomucoid. To elucidate whether the pDNA immunization-induced anaphylaxis was a strain-dependent phenomenon, AKR/J and BALB/c mice also received multiple i.m. pAra h2 immunizations. Injection of peanut protein into these strains at weeks 3 or 5 following immunization did not induce reactions. Although IgG2a was increased significantly from week 2 in AKR/J mice and from week 4 in BALB/c mice and remained elevated for at least 6 wk, no IgG1 or IgE was detected. These results indicate that the type of immune responses to pDNA immunization in mice is strain dependent. Consequently, models for studying human allergen gene immunization require careful selection of suitable strains. In addition, this suggests that similar interindividual variation is likely in humans.
Concurrent amplification of cyclin E and CDK2 genes in colorectal carcinomas (1995)

The genetic changes of cyclin A, DI, E and CDK2 were examined in human colorectal carcinomas by Southern-blot analysis. Gene amplification of cyclin E was detected in 5 of 53 (9.4%) primary colorectal carcinoma tissues. Interestingly, in 3 of 5 tumors showing cyclin E gene amplification, the CDK2 gene was amplified simultaneously with rearrangements. No obvious correlation was detected between gene amplification and clinicopathological features of colorectal carcinomas. Out of 7 colon carcinoma cell lines, 2 showed gene amplification of cyclin E without gene amplification of CDK2. No amplification of cyclin A or DI gene was found in any of the colorectal carcinoma tissues or colon carcinoma cell lines. Our results suggest that the concurrent amplification of cyclin E and CDK2 genes may play a role in colorectal carcinogenesis.
The catalytic domain of endogenous urokinase-type plasminogen activator is required for the mitogenic activity of platelet-derived and basic fibroblast growth factors in human vascular smooth muscle cells (2002)

Emerging data suggest that urokinase-type plasminogen activator (UPA), beyond its role in pericellular proteolysis, may also act as a mitogen. We investigated the function of endogenous UPA in mediating the mitogenic effects of platelet-derived growth factor (PDGF) and basic fibroblast growth factor (bFGF) on human vascular smooth muscle cells (SMC). Growth-arrested SMC constitutively expressed UPA, but UPA expression and secretion increased several times upon stimulation with either PDGF or bFGF. Inhibition of endogenous UPA with a polyclonal antibody significantly reduced DNA synthesis and proliferation of PDGF or bFGF stimulated SMC, this effect already being evident when the cells entered S-phase. The proliferative activity of endogenous UPA was dependent on a functional catalytic domain as demonstrated by inhibition experiments with a specific monoclonal antibody (394OA) and p-aminobenzamidine, respectively. In contrast, neither plasmin generation nor binding of UPA to its receptor (CD87) were required for UPA-mediated mitogenic effects. The results demonstrate that endogenous UPA is not only overexpressed in SMC upon stimulation with PDGF/bFGF, but also mediates the mitogenic activity of the growth factors in a catalytic-domain-dependent manner. Specific inhibition of this UPA domain may represent an attractive target for pharmacological interventions in atherogenesis and restenosis after angioplasty.
Bone marrow-derived angiogenic cells restore lung alveolar and vascular structure after neonatal hyperoxia in infant mice (2009)

Neonatal hyperoxia impairs vascular and alveolar growth in mice and decreases endothelial progenitor cells. To determine the role of bone marrow-derived cells in restoration of neonatal lung structure after injury, we studied a novel bone marrow myeloid progenitor cell population from Tie2-green fluorescent protein (GFP) transgenic mice (bone marrow-derived angiogenic cells; BMDAC). We hypothesized that treatment with BMDAC would restore normal lung structure in infant mice during recovery from neonatal hyperoxia. Neonatal mice (1-day-old) were exposed to 80% oxygen for 10 days. BMDACs (1 x 10(5)), embryonic endothelial progenitor cells, mouse embryonic fibroblasts (control), or saline were then injected into the pulmonary circulation. At 21 days of age, saline-treated mice had enlarged alveoli, reduced septation, and a reduction in vascular density. In contrast, mice treated with BMDAC had complete restoration of lung structure that was indistinguishable from room air controls. BMDAC comprised 12% of distal lung cells localized to pulmonary vessels or alveolar type II (AT2) cells and persist (8.8%) for 8 wk postinjection. Coculture of AT2 cells or lung endothelial cells (luEC) with BMDAC augmented AT2 and luEC cell growth in vitro. We conclude that treatment with BMDAC after neonatal hyperoxia restores lung structure in this model of bronchopulmonary dysplasia.
Millimeter wave technology for space power beaming (1992)

The design and development of millimeter-wave rectennas and power beaming systems are reported. The history of power beaming, the basic components of a high-frequency power beaming system, the advancement of millimeter-wave rectenna technology, and possible terrestrial, space, and lunar applications are discussed.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
SB 201823-A Antagonizes Calcium Currents in Central Neurons and Reduces the Effects of Focal Ischemia in Rats and Mice (1995)

These results indicate that the new neuronal calcium channel blocker SB 201823-A can block stimulated calcium influx into central neurons and can provide neuroprotection in two models of focal cerebral ischemia without affecting blood pressure. Data from several different studies now indicate that the neuronal calcium channel antagonists are a promising therapy for the postischemic treatment of stroke.
A DNA nanoscope via auto-cycling proximity recording (2017)

Analysis of the spatial arrangement of molecular features enables the engineering of synthetic nanostructures and the understanding of natural ones. The ability to acquire a comprehensive set of pairwise proximities between components would satisfy an increasing interest in investigating individual macromolecules and their interactions, but current biochemical techniques detect only a single proximity partner per probe. Here, we present a biochemical DNA nanoscopy method that records nanostructure features in situ and in detail for later readout. Based on a conceptually novel auto-cycling proximity recording (APR) mechanism, it continuously and repeatedly produces proximity records of any nearby pairs of DNA-barcoded probes, at physiological temperature, without altering the probes themselves. We demonstrate the production of dozens of records per probe, decode the spatial arrangements of 7 unique probes in a homogeneous sample, and repeatedly sample the same probes in different states.The spatial organisation of nanostructures is fundamental to their function. Here, the authors develop a non-destructive, proximity-based method to record extensive spatial organization information in DNA molecules for later readout.
MOVEMENT OF SODIUM AND POTASSIUM IONS DURING NERVOUS ACTIVITY (1952)

Experiments with the giant nerve fibres of squids and cuttlefish show that electrical activity is associated with characteristic movements of the sodium and potassium ions. When an impulse is conducted along one of these fibres sodium ions move inwards from the more concentrated solution outside the fibre while potassium ions move outwards from the more concentrated solution inside the fibre. Measurements with tracers, such as those made by Rothenberg (1950), Keynes (1951), Keynes and Lewis (1951) and Grundfest and Nachmansohn (1950) give reasonably consistent figures for the movements of sodium and potassium ions during electrical activity. At room temperature it appears that about 4 μμmol of sodium ions enters 1 sq. cm of membrane during one impulse and that a corresponding quantity of potassium ions leaves the fibre. Similar changes probably occur in many other excitable tissues, but in crab muscle (Fatt and Katz, 1952) or in the 'Et fibres'
Efficient Generation of Bispecific Murine Antibodies for Pre-Clinical Investigations in Syngeneic Rodent Models (2017)

Therapeutic concepts exploiting tumor-specific antibodies are often established in pre-clinical xenograft models using immuno-deficient mice. More complex therapeutic paradigms, however, warrant the use of immuno-competent mice, that more accurately capture the relevant biology that is being exploited. These models require the use of (surrogate) mouse or rat antibodies to enable optimal interactions with murine effector molecules. Immunogenicity is furthermore decreased, allowing longer-term treatment. We recently described controlled Fab-arm exchange (cFAE) as an easy-to-use method for the generation of therapeutic human IgG1 bispecific antibodies (bsAb). To facilitate the investigation of dual-targeting concepts in immuno-competent mice, we now applied and optimized our method for the generation of murine bsAbs. We show that the optimized combinations of matched point-mutations enabled efficient generation of murine bsAbs for all subclasses studied (mouse IgG1, IgG2a and IgG2b; rat IgG1, IgG2a, IgG2b, and IgG2c). The mutations did not adversely affect the inherent effector functions or pharmacokinetic properties of the corresponding subclasses. Thus, cFAE can be used to efficiently generate (surrogate) mouse or rat bsAbs for pre-clinical evaluation in immuno-competent rodents.
Role of transcriptional and posttranscriptional regulation of methionine adenosyltransferases in liver cancer progression (2012)

Interference with cell cycle progression and I-kappa B kinase (IKK)/nuclear factor kappa B (NF-κB) signaling contributes to the antiproliferative and proapoptotic effect of high SAM levels in HCC.