gebhart/patrepeval huggingface dataset:
Determination of the Efficacy of Two Building Decontamination Strategies by Surface Sampling with Culture and Quantitative PCR Analysis (2004)

The efficacy of currently available decontamination strategies for the treatment of indoor furnishings contaminated with bioterrorism agents is poorly understood. Efficacy testing of decontamination products in a controlled environment is needed to ensure that effective methods are used to decontaminate domestic and workplace settings. An experimental room supplied with materials used in office furnishings (i.e., wood laminate, painted metal, and vinyl tile) was used with controlled dry aerosol releases of endospores of Bacillus atrophaeus ("Bacillus subtilis subsp. niger," also referred to as BG), a Bacillus anthracis surrogate. Studies were performed using two test products, a foam decontaminant and chlorine dioxide gas. Surface samples were collected pre- and posttreatment with three sampling methods and analyzed by culture and quantitative PCR (QPCR). Additional aerosol releases with environmental background present on the surface materials were also conducted to determine if there was any interference with decontamination or sample analysis. Culture results indicated that 10(5) to 10(6) CFU per sample were present on surfaces before decontamination. After decontamination with the foam, no culturable B. atrophaeus spores were detected. After decontamination with chlorine dioxide gas, no culturable B. atrophaeus was detected in 24 of 27 samples (89%). However, QPCR analysis showed that B. atrophaeus DNA was still present after decontamination with both methods. Environmental background material had no apparent effect on decontamination, but inhibition of the QPCR assay was observed. These results demonstrate the effectiveness of two decontamination methods and illustrate the utility of surface sampling and QPCR analysis for the evaluation of decontamination strategies.
Copper and cadmium increase laccase activity inPleurotus ostreatus (2002)

Addition of copper (0.5-5 mM) or cadmium (1-5 mM) to the white rot fungus Pleurotus ostreatus cultivated in liquid nitrogen-limited medium for 12 days increased the activity of laccase. The addition of 2 mM Cd led to an 18.5-fold increase of activity, 1 mM Cu increased the activity eight-fold. When added earlier than 12 days, the activation of laccase was delayed (Cu) or decreased (Cd). Ag, Hg, Pb, Zn, and H(2)O(2) decreased laccase activity. To study the effect on native enzymes, purified laccase was incubated with Cd, Cu, and Hg. The addition of Hg decreased the activity of laccase immediately and reduced the temporal stability of the enzyme, while the addition of Cu (0.05-50 mM) increased both enzyme activity and stability. Laccase extracted at different stages of straw colonisation differed in its response to heavy metals.
Immunologic evaluation of spontaneous regression of an intraocular murine melanoma. (1990)

The experiments reported here describe the derivation of an immunogenic melanoma cell line from B16 melanoma by sequential in vitro mutagenization with two chemical mutagens: n-methyl n-nitro n-nitrosoguanine (MNNG) and ethane methyl sulfonate (EMS). Following in vivo screening of over 100 mutant melanoma clones, a single clone was selected for further study. When transplanted to the anterior segment of the mouse eye, the mutant melanoma (D5.1G4) underwent spontaneous resolution in 20% of the immunologically intact hosts. Tumor rejection involved extensive necrosis and culminated in phthisis of the tumor-containing eye. Histologic analysis revealed a prominent mononuclear cellular infiltrate in contrast to the parental progressor B16 melanoma. Immunologic analysis of tumor-bearing hosts showed variable cytotoxic T lymphocyte (CTL) responses but potent delayed-type hypersensitivity (DTH) responses directed against the melanoma cells. Fluorescent activated cell sorter (FACS) analysis of tumor-infiltrating cells from ocular tumors revealed a cellular response consisting mainly of CD8+ CTLs and macrophages. Cultured D5.1G4 melanoma cells demonstrated: 1) enhanced expression of class I major histocompatibility complex (MHC) antigens; 2) increased susceptibility to CTL-mediated killing; and 3) increased susceptibility to tumor necrosis factor (TNF)-mediated cytolysis. Therefore, the intraocular D5.1G4 mutant melanoma model provides important insights into the immunology and immunopathology of intraocular tumor rejection. More intensive analysis of this intraocular melanoma may yield strategies for directing the immune response toward tumor rejection while minimizing damage to normal ocular components.
Molecular characterization and transcriptional analysis of type 8 capsule genes in Staphylococcus aureus (1997)

A 20.5-kb contiguous DNA fragment from Staphylococcus aureus Becker affecting type 8 capsule (CP8) biosynthesis was previously cloned. Sequencing analysis indicated that 16 open reading frames (ORFs) encoded within this fragment might be involved in CP8 synthesis. Using various plasmids containing DNA inserts derived from the 20.5-kb region, we showed by complementation of chemical mutants that 8 of the 16 ORFs were required for CP8 synthesis. To determine the involvement of the remaining eight ORFs, nonpolar gene-specific chromosomal mutations located in each of these ORFs were constructed. We found that three additional ORFs were also involved in the CP8 synthesis. Thus, 11 of the 16 ORFs were shown to affect CP8 synthesis. Complementation analyses of these 11 type 8 capsule (cap8) genes affecting CP8 production showed several promoters within the cap8 gene cluster. However, by Northern hybridization using either the entire cap8 gene cluster or the internal fragments of individual ORFs as probes, one 17-kb cap8-specific transcript was detected. Using xylE as the reporter gene, we found that the promoter at the beginning of the cap8 operon was much stronger than any of the internal promoters. These results suggest that the cap8 genes are transcribed mainly as a single large transcript. In addition, Southern hybridization analyses showed that cap8H, cap8I, cap8J, and cap8K, located in the central region of the cap8 gene cluster, were CP8 specific.
Interleukin-15 enhances neutrophil functional activity in patients with human immunodeficiency virus infection (2000)

Polymorphonuclear leukocyte (PMN) dysfunction has been reported in human immunodeficiency virus (HIV)-infected patients. Interleukin (IL)-15 is a recently discovered cytokine that potentiates antimicrobial functions of normal PMNs. We evaluated the in vitro effect of IL-15 on chemotaxis and fungicidal activity of PMNs from 9 patients with untreated advanced HIV infection, 8 patients with viral suppression after 52 to 130 weeks of highly active antiretroviral therapy (HAART), and 12 patients with treatment failure. We also studied oxidative burst and apoptosis of PMNs in 5 patients with untreated advanced HIV infection. Twelve healthy donors were included as controls. Chemotaxis and fungicidal activity of unprimed PMNs was significantly lower in patients with untreated HIV infection compared with controls. After incubation with IL-15, a significant increase in PMN chemotaxis and fungicidal activity was found; moreover, IL-15 induced a significant reduction in the number of apoptotic HIV+ PMNs. IL-15 did not modulate oxidative burst of HIV+ PMNs as measured by chemiluminescence production. The in vitro priming of PMNs with IL-15 determined a complete reversal of defective chemotaxis and killing in all HAART-treated patients with long-term HIV suppression. IL-15 significantly enhanced chemotaxis and fungicidal activity also in patients with HAART failure. In conclusion, IL-15 is an important cytokine in the activation of the functional properties of HIV+ PMNs, by delaying apoptosis and enhancing chemotaxis and fungicidal activity. The potent stimulant effect of IL-15 on PMN function was observed in antiretroviral naive patients as well as in individuals who were receiving HAART, including those with treatment failure.
Accelerated Aging and Nucleolar Fragmentation in Yeast sgs1 Mutants (1997)

The SGS1 gene of yeast encodes a DNA helicase with homology to the human WRN gene. Mutations in WRN result in Werner's syndrome, a disease with symptoms resembling premature aging. Mutation of SGS1 is shown to cause premature aging in yeast mother cells on the basis of a shortened life-span and the aging-induced phenotypes of sterility and redistribution of the Sir3 silencing protein from telomeres to the nucleolus. Further, in old sgs1 cells the nucleolus is enlarged and fragmented-changes that also occur in old wild-type cells. These findings suggest a conserved mechanism of cellular aging that may be related to nucleolar structure.
Handbook of Plastics Technologies: The Complete Guide to Properties and Performance (2006)

Chapter 1: Fundamentals of Polymers and Plastics (Carol M.F. Barry, Anne-Marie Baker, Joey L. Mead) Chapter 2: Thermoplastics (Anne-Marie Baker, Joey L. Mead) Chapter 3: Thermosets (Rudolph D. Deanin) Chapter 4: Elastomers (Aubert Y. Coran) Chapter 5: Plastic Additives (Rudolph D. Deanin) Chapter 6: Nanomanufacturing with Polymers (Daniel Schmidt, Joey L. Mead, Carol M.F. Barry) Chapter 7: Plastics Joining (Edward M. Petrie) Chapter 8: Plastics Recycling and Biodegradable Plastics (Susan E. Selke) Chapter 9: Plastics and Elastomers: Automotive Applications (K. Sehanobish and Tom Traugott)
Amantadine kinetics in healthy elderly men: Implications for influenza prevention (1985)

Amantadine kinetics were investigated in 10 healthy elderly men 60 to 76 yr old. We calculated a dose that would yield the same trough steady-state plasma amantadine concentration (Cpss; 300 ng/ml) as a 200 mg/day dose taken by young healthy adults; this dose prevents influenza A virus infection and is well tolerated by this population. With a one-compartment open model, kinetic parameters were calculated after a single dose of 25, 50, or 75 mg or the same dose twice a day for 10.5 days. Peak concentration occurred 4.0 to 8.0 hr after dosing, but the calculated AUC was proportional to dose, indicating that relative bioavailability was independent of dose. This was supported by recovery of 88% of the single doses in urine. No change in apparent volume of distribution was found. Log trough Cpss increased with dose. Trough Cpss varied less than 300% for equivalent doses. There was first-order elimination of drug from plasma, with a median t1/2 of 28.9 hr (range 18.5 to 45.0 hr), and elimination was independent of dose and creatinine clearance. The median ratio of renal amantadine clearance to creatinine clearance was 2.07 (range 0.64 to 4.20), suggesting renal tubular secretion. Compared to data from healthy young adults, the t1/2 was doubled and renal drug clearance was diminished in elderly men. To achieve the target trough Cpss of 300 ng/ml, healthy older men must take amantadine at a dose of 1.4 mg/kg/day, and we suggest that this is a rational dose for evaluation of efficacy and safety for influenza A prophylaxis in this population.
Membrane-bound TRAIL Supplements Natural Killer Cell Cytotoxicity Against Neuroblastoma Cells (2013)

Neuroblastoma cells have been reported to be resistant to death induced by soluble, recombinant forms of tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) (CD253/TNFSF10) because of low or absent expression of caspase-8 and/or TRAIL-receptor 2 (TRAIL-R2/DR5/CD262/TNFRSF10b). However, their sensitivity to membrane-bound TRAIL on natural killer (NK) cells is not known. Comparing microarray gene expression and response to NK cell-mediated cytotoxicity, we observed a correlation between TRAIL-R2 expression and the sensitivity of 14 neuroblastoma cell lines to the cytotoxicity of NK cells activated with interleukin (IL)-2 plus IL-15. Even though most NK cytotoxicity was dependent upon perforin, the cytotoxicity was supplemented by TRAIL in 14 of 17 (82%) neuroblastoma cell lines as demonstrated using an anti-TRAIL neutralizing antibody. Similarly, a recently developed NK cell expansion system employing IL-2 plus lethally irradiated K562 feeder cells constitutively expressing membrane-bound IL-21 (K562 clone 9.mbIL21) resulted in activated NK cells derived from normal healthy donors and neuroblastoma patients that also utilized TRAIL to supplement cytotoxicity. Exogenous interferon-γ upregulated expression of caspase-8 in 3 of 4 neuroblastoma cell lines and increased the contribution of TRAIL to NK cytotoxicity against 2 of the 3 lines; however, relatively little inhibition of cytotoxicity was observed when activated NK cells were treated with an anti-interferon-γ neutralizing antibody. Constraining the binding of anti-TRAIL neutralizing antibody to membrane-bound TRAIL but not soluble TRAIL indicated that membrane-bound TRAIL alone was responsible for essentially all of the supplemental cytotoxicity. Together, these findings support a role for membrane-bound TRAIL in the cytotoxicity of NK cells against neuroblastoma cells.
Memory-Enhanced Neural Networks and NMF for Robust ASR (2014)

In this article we address the problem of distant speech recognition for reverberant noisy environments. Speech enhancement methods, e. g., using non-negative matrix factorization (NMF), are succesful in improving the robustness of ASR systems. Furthermore, discriminative training and feature transformations are employed to increase the robustness of traditional systems using Gaussian mixture models (GMM). On the other hand, acoustic models based on deep neural networks (DNN) were recently shown to outperform GMMs. In this work, we combine a state-of-the art GMM system with a deep Long Short-Term Memory (LSTM) recurrent neural network in a double-stream architecture. Such networks use memory cells in the hidden units, enabling them to learn long-range temporal context, and thus increasing the robustness against noise and reverberation. The network is trained to predict frame-wise phoneme estimates, which are converted into observation likelihoods to be used as an acoustic model. It is of particular interest whether the LSTM system is capable of improving a robust state-of-the-art GMM system, which is confirmed in the experimental results. In addition, we investigate the efficiency of NMF for speech enhancement on the front-end side. Experiments are conducted on the medium-vocabulary task of the 2nd `CHiME' Speech Separation and Recognition Challenge, which includes reverberation and highly variable noise. Experimental results show that the average word error rate of the challenge baseline is reduced by 64% relative. The best challenge entry, a noise-robust state-of-the-art recognition system, is outperformed by 25% relative.
Mutagenesis in Escherichia coli by Visible Light (1967)

Mutation to resistance to bacteriophage T5 in continuous cultures of Escherichia coli was induced by visible light (wavelength longer than 408 nanometers) and by black light (300 to 400 nanometers). Mutation rates more than 18 times greater than the spontaneous rate (no light) were obtained with moderate, nonlethal intensities of visible light. Mutation rates for both visible and black light were proportional to irradiance.
Biochemical properties of purified human terminal deoxynucleotidyltransferase. (1980)

The kinetic mechanism and limited substrate specificity of purified terminal deoxynucleotidyltransferase from human leukemic cells is described.The reaction which utilizes two substrates, dATP as monomer, and p(dA), as initiator (where n is the chain length from 4 through 50), proceeds by a rapid equilibrium random mechanism.The polymerization reaction occurs only in the presence of a divalent metal cation, with an order of specificity: M 8 + > Zn2+ > Co2+ > Mn2+.The K,,, and V,,, values for oligodeoxyadenylates in the range n = 6 through 50 indicate that affinity of the enzyme for the growing chain and the corresponding rate of polymerization are directly proportional.The apparent deviation in substrate utilization by the human enzyme as compared with the calf enzyme occurs at the tetranucleotide level, in which the binding constant differs by more than 2 orders of magnitude over the K,,, for initiators which have more than 5 nucleotide residues.Model kinetic systems utilizing p(dA)m and dATP-Mg provide no evidence that the binding of one substrate facilitates or hinders the addition of the second substrate for this random mechanism, and dissociation constants are identical to the limiting Michaelis constants (&ATP = 110 p~ and K p ( d A ) s = 0.4 PM).A metal site (possibly zinc) on the enzyme, which is distinct from the divalent cation requirement for deoxynucleoside 5'-triphosphates, is implicated from studies with the metal chelators, o-phenanthroline, a,a'-bipyridyl, and EDTA.The putative metal site on the enzyme appears to be in the vicinity of the initiator binding site rather than at the nucleotide binding site.An energy of activation for the human terminal transferase reaction was determined to be 18.6 kcal, and the temperature at which all enzymatic reactions are conducted in these studies (35°C) falls within the linear region of an Arrhenius plot.Terminal deoxynucleotidyltransferase (EC 2.7.7.31), recently purified from human lymphoblasts (l), has been shown to be different from the calf thymus enzyme in native molecular weight, subunit composition, and subcellular location.The human enzyme which we purified is a native M , = 60,000 protein and is comprised of a single polypeptide chain.In contrast, the calf enzyme from thymus is a M, = 32,000 protein and is comprised of two polypeptide chains, (Y and p, with molecular weights of 8,000 and 24,000, respectively ( 2 ) .
Nerve Growth Factor Modification of the Ethylnitrosourea Model for Multiple Schwannomas (1986)

The administration of ethylnitrosourea (ENU) to pregnant rats late in gestation or to neonatal rats results in the induction of Schwann cell tumors in a high percentage of perinatally exposed animals. Exogenous administration of nerve growth factor (NGF) significantly reduces the number of Schwann cell tumors and other neurogenic tumors developing in ENU-treated rats. Administration of antibodies directed against NGF prior to neonatal ENU exposure results in a substantial increase in the incidence of Schwann cell tumors, particularly in the trigeminal nerves of both rats and mice. Transplacental ENU treatment causes early neoplastic proliferation (ENP) at 90 days of age in the Schwann cell population of trigeminal nerves in nearly all exposed rats. A variety of NGF treatment protocols (single or multiple inoculations or microinfusion prior to or following ENU exposure) resulted in a significant reduction in ENU-induced ENP in trigeminal nerves. These results indicate that NGF may convey protection either directly or indirectly, by an unknown mechanism, to Schwann cells and other supportive neural cells by reducing their sensitivity to ENU-induced neoplastic transformation.
Inhibition of Angiogenesis and Angiogenesis-dependent Tumor Growth by the Cryptic Kringle Fragments of Human Apolipoprotein(a) (2003)

Apolipoprotein(a) (apo(a)) contains tandemly repeated kringle domains that are closely related to plasminogen kringle 4, followed by a single kringle 5-like domain and an inactive protease-like domain. Recently, the anti-angiogenic activities of apo(a) have been demonstrated both in vitro and in vivo. However, its effects on tumor angiogenesis and the underlying mechanisms involved have not been fully elucidated. To evaluate the anti-angiogenic and anti-tumor activities of the apo(a) kringle domains and to elucidate their mechanism of action, we expressed the last three kringle domains of apo(a), KIV-9, KIV-10, and KV, in Escherichia coli. The resultant recombinant protein, termed rhLK68, exhibited a dose-dependent inhibition of basic fibroblast growth factor-stimulated human umbilical vein endothelial cell proliferation and migration in vitro and inhibited the neovascularization in chick chorioallantoic membranes in vivo. The ability of rhLK68 to abrogate the activation of extracellular signal-regulated kinases appears to be responsible for rhLK68-mediated anti-angiogenesis. Furthermore, systemic administration of rhLK68 suppressed human lung (A549) and colon (HCT-15) tumor growth in nude mice. Immunohistochemical examination and in situ hybridization analysis of the tumors showed a significant decrease in the number of blood vessels and the reduced expression of vascular endothelial growth factor, basic fibroblast growth factor, and angiogenin, indicating that suppression of angiogenesis may have played a significant role in the inhibition of tumor growth. Collectively, these results suggest that a truncated apo(a), rhLK68, is a potent anti-angiogenic and anti-tumor molecule.
Curcumin Supresess Growth and Induces Apoptosis of Primary Effusion Lymphoma Cells. (2004)

Abstract Kaposi ‘s sarcoma-associated herpesvirus (KSHV or HHV8) has also been implicated in primary effusion lymphoma (PEL). KSHV/HHV8 has been shown to activate a number of growth and survival signaling pathways, including PI3-kinase and JAK/STAT, and protect cells from programmed cell death. Indeed Stat-3 is constitutively phosphorylated/activated in PEL cells and plays a role in their survival and proliferation. Curcumin (diferuloylmethane), a natural compound isolated from the plant Curcuma Ionga had very little or no toxicity in human cells and has been shown to have anti-tumor activity in vitro. We describe here that curcumin at 20 μM concentration inhibits cell proliferation in several PEL cell lines (BC1 64 + 1%, BC3 67 + 2%, BCBL1 62 +3% inhibition of growth) and induces apoptosis (BC1 51+ 5%, BC3 47 + 6%, BCBL1 48 + 4 % apoptosis cells). To characterize better the mechanism of action of curcumin, we studied the JAK/STAT pathway and the apoptotic cascade. Curcumin suppressed the constitutively active Stat3 transcription factor in a dose dependent manner. Curcumin also induced loss of mitochondrial membrane potential, as determined by JC1 staining with subsequent activation of capase-3 followed by polyadenosin-5′-diphosphate-ribose polymerase (PARP) cleavage. In addition, zVAD-fmk, a universal inhibitor of caspases prevented caspase-3 activation as well as PARP cleavage induced by curcumin treatment. IL-10 is a major autocrine growth factor for PEL cell survival. We quantified by ELISA the secretion of IL-10 in PEL cells and found that curcumin abrogated IL-10 secretion. Taken together, our findings suggest that curcumin suppresses constitutively active Stat-3 in PEL cells, leading to inhibition of proliferation and induction of caspase-dependent apoptosis. These results provide the molecular basis and preliminary data for new treatment strategies that may incorporate curcumin in regimens for PEL.
Magnetic Resonance Imaging Using Gadolinium Labeled Monoclonal Antibody (1985)

Gadolinium was attached to antibodies and tested in vitro and in vivo for its effect on proton relaxation enhancement. Using the cyclic anhydride method, diethylenetriaminepentaacetic acid (DTPA) was attached to albumin, IgG and anti-CEA monoclonal antibody. Gadolinium (Gd) was then chelated to the protein complexes forming protein-DTPA-Gd complex. With this technique approximately 9 atoms of Gd could be attached to each albumin molecule, 4 to each IgG molecule and 1.5 to each monoclonal antibody molecule. The minimal in vitro concentration of Gd in the form of IgG-DTPA-Gd necessary to produce proton relaxation enhancement at 0.35 tesla was 10(-1) mM. An in vivo experiment using anticarcinoembryonic antigen (CEA) monoclonal antibody-DTPA-Gd in hamsters implanted with human colon carcinoma resulted in a tumor concentration of Gd of less than 10(-4) mM. No enhancement of the tumors was detected at that concentration. For monoclonal antibodies to function as selective MR contrast agents, substantial advances in technology must occur.